Research Publications
This bibliography contains publications from research funded by the Genomic Science Program. Most publications are from FY 2021 and beyond, though older publications appear in some cases. If you are a GSP-funded researcher and don’t see your publications listed below, contact Marissa Mills (millsmd@ornl.gov) to get your publications added.
| Year | DOI | Authors | Title | Journal | Volume/Pages |
|---|---|---|---|---|---|
| 2024 | 10.1007/978-1-0716-3549-0_3 | Heinrichs, M. E., G. J. Piedade, O. Popa, P. Sommers, G. Trubl, J. Weissenbach and J. Rahlff | Breaking the Ice: A Review of Phages in Polar Ecosystems | Bacteriophages: Methods and Protocols | 31–71 |
| 2024 | 10.1016/j.soilbio.2023.109253 | Ahkami, A. H., O. Qafoku, T. Roose, Q. Mou, Y. Lu, Z. G. Cardon, Y. Wu, C. Chou, J. B. Fisher, T. Varga, P. Handakumbura, J. A. Aufrecht, A. Bhattacharjee and J. J. Moran | Emerging sensing, imaging, and computational technologies to scale nano-to macroscale rhizosphere dynamics – Review and research perspectives | Soil Biology and Biochemistry | 189 109253 |
| 2024 | 10.1016/j.ymben.2023.11.006 | Boob, A. G., J. Chen and H. Zhao | Enabling pathway design by multiplex experimentation and machine learning | Metabolic Engineering | 81 70–87 |
| 2024 | 10.1002/csc2.21131 | Lee, M. S., R. A. Boyd, C. Jang, J. W. Lee and D. K. Lee | Identifying biomass yield potential of tetra-, hexa-, and octoploid prairie cordgrass populations grown on marginal lands | Crop Science | 64(1) 523–33 |
| 2024 | 10.1111/ele.14331 | Ridgeway, J., J. Kane, E. Morrissey, H. Starcher and E. Brzostek | Roots selectively decompose litter to mine nitrogen and build new soil carbon | Ecology Letters | 27(1) e14331 |
| 2024 | 10.1016/j.apsoil.2023.105156 | Da Silva, C. G. N., M. S. Vidal, F. d. S. Dourado, E. S. Dias, A. C. Howe and E. d. C. Jesus | Specific primers for the rapid detection and quantitation of Rhizobium elite strains of common beans in the plant and environment | Applied Soil Ecology | 193 105156 |
| 2024 | 10.1128/spectrum.02536-23 | Dubinkina, V., S. Bhogale, P. H. Hsieh, P. Dibaeinia, A. Nambiar, S. Maslov, Y. Yoshikuni and S. Sinha | A transcriptomic atlas of acute stress response to low pH in multiple Issatchenkia orientalis strains | Microbiology Spectrum | 12(1) e0253623 |
| 2023 | Suzuki, Y. and J. C. Venter | 20 Years of the Minimal Cell’s Rise from Theory to Practice | Keiko SFC Journal | 22(2) 42–53 | |
| 2023 | 10.1111/gcbb.13056 | Blanc-Betes, E., N. Gomez-Casanovas, W. H. Yang, J. Chandrasoma, T. J. Clark, et al. | Accelerating the development of a sustainable bioenergy portfolio through stable isotopes | GCB Bioenergy | 15(7) 840–66 |
| 2023 | 10.1039/D2GC04425K | Mohan, M., O. Demerdash, B. A. Simmons, J. C. Smith, M. K. Kidder and S. Singh | Accurate prediction of carbon dioxide capture by deep eutectic solvents using quantum chemistry and a neural network | Green Chemistry | 25(9) 3475–92 |
| 2023 | 10.1016/j.soilbio.2022.108886 | Foley, M. M., S. J. Blazewicz, K. J. McFarlane, A. Greenlon, M. Hayer, J. A. Kimbrel, B. J. Koch, V. L. Monsaint-Queeney, K. Morrison, E. Morrissey, B. A. Hungate and J. Pett-Ridge | Active populations and growth of soil microorganisms are framed by mean annual precipitation in three California annual grasslands | Soil Biology and Biochemistry | 177 108886 |
| 2023 | 10.1002/bbb.2427 | Singh, R., S. S. Bhagwat, M. B. Viswanathan, Y. R. Cortés-Peña, K. K. Eilts, G. McDonough, M. Cao, J. S. Guest, H. Zhao and V. Singh | Adsorptive separation and recovery of triacetic acid lactone from fermentation broth | Biofuels, Bioproducts and Biorefining | 17(1) 109–20 |
| 2023 | 10.1371/journal.pone.0288102 | Chen, Y., J. W. Gin, Y. Wang, M. de Raad, S. Tan, N. J. Hillson, T. R. Northen, P. D. Adams and C. J. Petzold | Alkaline-SDS cell lysis of microbes with acetone protein precipitation for proteomic sample preparation in 96-well plate format | PLOS ONE | 18(7) e0288102 |
| 2023 | 10.1021/acs.analchem.3c00957 | Rodríguez, E. P., Y. Li, A. Vaniya, P. M. Shih and O. Fiehn | Alternative Identification of Glycosides Using MS/MS Matching with an In Silico-Modified Aglycone Mass Spectra Library | Analytical Chemistry | 95(28) 10618–24 |
| 2023 | 10.1021/acssuschemeng.2c06876 | Tan, L., H. L. Scott, M. D. Smith, S. V. Pingali, H. M. O’Neill, J. L. Morrell-Falvey, J. Katsaras, J. C. Smith, B. H. Davison, J. G. Elkins and J. D. Nickels | Amphiphilic Co-Solvents Modulate the Structure of Membrane Domains | ACS Sustainable Chemistry & Engineering | 11(4) 1598–609 |
| 2023 | 10.1089/ind.2022.0039 | Maitra, S. and V. Singh | Application of Time-Domain 1H NMR for Investigating Dynamics of Vegetative Lipids in Bioenergy Crops at Different Developmental Stages | Industrial Biotechnology | 19(2) 86–93 |
| 2023 | 10.1016/j.biortech.2022.128280 | Meng, X., Y. Wang, A. J. Conte, S. Zhang, J. Ryu, J. J. Wie, Y. Pu, B. H. Davison, C. G. Yoo and A. J. Ragauskas | Applications of biomass-derived solvents in biomass pretreatment – Strategies, challenges, and prospects | Bioresource Technology | 368 128280 |
| 2023 | 10.1002/mlf2.12076 | Wu, L., Y. Yang, D. Ning, Q. Gao, H. Yin, N. Xiao, B. Y. Zhou, S. Chen, Q. He and J. Zhou | Assessing mechanisms for microbial taxa and community dynamics using process models | mLife | 2(3) 239–52 |
| 2023 | 10.1017/S1473550423000058 | Trubl, G., K. M. Stedman, K. F. Bywaters, E. E. Matula, P. Sommers, et al. | Astrovirology: how viruses enhance our understanding of life in the Universe | International Journal of Astrobiology | 1–25 |
| 2023 | 10.1021/acs.biomac.3c00047 | Annamraju, A., K. Rajan, X. Zuo, B. K. Long, S. V. Pingali, T. J. Elder and N. Labbé | Atomic Level Interactions and Suprastructural Configuration of Plant Cell Wall Polymers in Dialkylimidazolium Ionic Liquids | Biomacromolecules | 24(5) 2164–72 |
| 2023 | 10.1021/acscentsci.3c00813 | Gu, N. X., C. T. Palumbo, A. C. Bleem, K. P. Sullivan, S. J. Haugen, S. P. Woodworth, K. J. Ramirez, J. K. Kenny, L. D. Stanley, R. Katahira, S. S. Stahl and G. T. Beckham | Autoxidation Catalysis for Carbon–Carbon Bond Cleavage in Lignin | ACS Central Science | 9(12) 2277–85 |
| 2023 | 10.1111/mec.16893 | Braga, L. P. P. and R. I. Schumacher | Awaking the dormant virome in the rhizosphere | Molecular Ecology | 32(11) 2985–99 |
| 2023 | 10.1007/s11274-023-03631-2 | Das, S., I. N. Najar, M. T. Sherpa, S. Kumar, P. Sharma, K. Mondal, S. Tamang and N. Thakur | Baseline metagenome-assembled genome (MAG) data of Sikkim hot springs from Indian Himalayan geothermal belt (IHGB) showcasing its potential CAZymes, and sulfur-nitrogen metabolic activity | World Journal of Microbiology and Biotechnology | 39(7) 179 |
| 2023 | Sebesta, J., C. Pastore, H. Hou and J. Yu | Biocontainment of genetically modified Synechocystis sp. PCC 6803 | The 2023 Alabama State University STEM Research Symposium | ||
| 2023 | 10.1016/j.biortech.2022.128216 | Walls, L. E., P. Otoupal, R. Ledesma-Amaro, S. B. Velasquez-Orta, J. M. Gladden and L. Rios-Solis | Bioconversion of cellulose into bisabolene using Ruminococcus flavefaciens and Rhodosporidium toruloides | Bioresource Technology | 368 128216 |
| 2023 | 10.1021/acs.biomac.3c00288 | Zhao, Z.-M., X. Meng, Y. Pu, M. Li, Y. Li, Y. Zhang, F. Chen and A. J. Ragauskas | Bioconversion of Homogeneous Linear C-Lignin to Polyhydroxyalkanoates | Biomacromolecules | 24(9) 3996–4004 |
| 2023 | 10.1016/j.eti.2022.102977 | Banerjee, S., R. Singh and V. Singh | Bioenergy crops as alternative feedstocks for recovery of anthocyanins: A review | Environmental Technology & Innovation | 29 102977 |
| 2023 | 10.1021/acs.est.2c05683 | Yang, Y., H. Jin, X. Li and J. Yan | Biohydrogenation of 1,3-Butadiene to 1-Butene under Acetogenic Conditions by Acetobacterium wieringae | Environmental Science & Technology | 57(4) 1637–45 |
| 2023 | 10.3390/horticulturae9090964 | Montoya-Martínez, A. C., K. M. Figueroa-Brambila, A. Escalante-Beltrán, N. D. López-Montoya, V. Valenzuela-Ruíz, F. I. Parra-Cota, M. I. Estrada Alvarado and S. de los Santos-Villalobos | Biological Control Mechanisms of Bacillus cabrialesii subsp. tritici TSO2T against Fusarium languescens, the Causal Agent of Wilt in Jalapeño Peppers | Horticulturae | 9(9) 964 |
| 2023 | 10.1007/s12155-022-10513-2 | Casler, M. D., D. Lee, R. B. Mitchell, K. J. Moore, P. R. Adler, et al. | Biomass Quality Responses to Selection for Increased Biomass Yield in Perennial Energy Grasses | BioEnergy Research | 16(2) 877–85 |
| 2023 | 10.1038/s41893-023-01160-2 | Demarteau, J., B. Cousineau, Z. Wang, B. Bose, S. Cheong, G. Lan, N. R. Baral, S. J. Teat, C. D. Scown, J. D. Keasling and B. A. Helms | Biorenewable and circular polydiketoenamine plastics | Nature Sustainability | 6(11) 1426–35 |
| 2023 | 10.1038/s41467-023-40464-x | Englund, E., M. Schmidt, A. A. Nava, S. Klass, L. Keiser, Q. Dan, L. Katz, S. Yuzawa and J. D. Keasling | Biosensor Guided Polyketide Synthases Engineering for Optimization of Domain Exchange Boundaries | Nature Communications | 14(1) 4871 |
| 2023 | 10.1016/j.copbio.2022.102870 | Zha, J., Z. Zhao, Z. Xiao, T. Eng, A. Mukhopadhyay, M. A. G. Koffas and Y. J. Tang | Biosystem design of Corynebacterium glutamicum for bioproduction | Current Opinion in Biotechnology | 79 102870 |
| 2023 | 10.1038/s41598-023-40496-9 | Harwood, T. V., D. G. C. Treen, M. Wang, W. de Jong, T. R. Northen and B. P. Bowen | BLINK enables ultrafast tandem mass spectrometry cosine similarity scoring | Scientific Reports | 13(1) 13462 |
| 2023 | 10.1002/yea.3837 | Barros, K. O., F. B. M. Alvarenga, G. Magni, G. F. L. Souza, M. A. Abegg, F. Palladino, S. S. da Silva, R. C. L. B. Rodrigues, T. K. Sato, C. T. Hittinger and C. A. Rosa | The Brazilian Amazonian rainforest harbors a high diversity of yeasts associated with rotting wood, including many candidates for new yeast species | Yeast | 40(2) 84–101 |
| 2023 | 10.1089/ast.2023.0072 | Prescott, R. D., Y. L. Chan, E. J. Tong, F. Bunn, C. T. Onouye, et al. | Bridging Place-Based Astrobiology Education with Genomics, Including Descriptions of Three Novel Bacterial Species Isolated from Mars Analog Sites of Cultural Relevance | Astrobiology | 23(12) 1348–67 |
| 2023 | 10.1016/j.jbc.2022.102782 | Hall, B. W., C. A. Bingman, B. G. Fox, D. R. Noguera and T. J. Donohue | A broad specificity β-propeller enzyme from Rhodopseudomonas palustris that hydrolyzes many lactones including γ-valerolactone | Journal of Biological Chemistry | 299(1) 102782 |
| 2023 | 10.1016/j.agrformet.2023.109532 | Wu, G., K. Guan, C. Jiang, H. Kimm, G. Miao, X. Yang, C. J. Bernacchi, X. Sun, A. E. Suyker and C. E. Moore | Can upscaling ground nadir SIF to eddy covariance footprint improve the relationship between SIF and GPP in croplands? | Agricultural and Forest Meteorology | 338 109532 |
| 2023 | 10.1039/D3SE00353A | Kubis, M. R. and L. R. Lynd | Carbon capture from corn stover ethanol production via mature consolidated bioprocessing enables large negative biorefinery GHG emissions and fossil fuel-competitive economics | Sustainable Energy & Fuels | 7(16) 3842–52 |
| 2023 | Hou, H. J. M., J. Sebesta, A. Deshpande, C. Pastore, L. Laurens and J. Yu | Carbon metabolism of a polyphosphate synthase mutant in cyanobacteria | Gorden Conference Photosynthesis | ||
| 2023 | 10.1002/jaa2.52 | Majeed, F., M. Khanna, R. Miao, E. Blanc-Betes, T. Hudiburg and E. DeLucia | Carbon mitigation payments can reduce the riskiness of bioenergy crop production | Journal of the Agricultural and Applied Economics Association | 2(2) 181–97 |
| 2023 | 10.1021/acscatal.3c02775 | Kim, M. S., D. Choi, J. Ha, K. Choi, J.-H. Yu, J. A. Dumesic and G. W. Huber | Catalytic Strategy for Conversion of Triacetic Acid Lactone to Potassium Sorbate | ACS Catalysis | 13(21) 14031–41 |
| 2023 | 10.3389/fpls.2023.1089011 | Bryant, N., W. Muchero, R. A. Weber, J. Barros, J.-G. Chen, T. J. Tschaplinski, Y. Pu and A. J. Ragauskas | Cell wall response of field grown Populus to Septoria infection | Frontiers in Plant Science | 14 |
| 2023 | 10.1007/s10482-023-01840-1 | Roldán, D. M. and R. J. Menes | Characterisation of ‘Candidatus Methylobacter titanis’ sp. nov., a putative novel species of Methylobacter clade 2 and their distribution in sediments of freshwater lakes in maritime Antarctica | Antonie van Leeuwenhoek | 116(7) 721–38 |
| 2023 | 10.1128/aem.00406-23 | Sharma, B. D., D. G. Olson, R. J. Giannone, R. L. Hettich and L. R. Lynd | Characterization and Amelioration of Filtration Difficulties Encountered in Metabolomic Studies of Clostridium thermocellum at Elevated Sugar Concentrations | Applied and Environmental Microbiology | 89(4) e00406-23 |
| 2023 | 10.1094/phytofr-10-23-0136-r | Subedi, N., T. Cowell, M. L. Cope-Arguello, P. A. Paul, G. Cellier, et al. | Characterization of Ralstonia pseudosolanacearum diversity and screening tomato, pepper, and eggplant resistance to manage bacterial wilt in South Asia | PhytoFrontiers™ | |
| 2023 | 10.1089/phage.2023.0004 | Bryan, D. W., L. K. Hudson, J. Wang and T. G. Denes | Characterization of a Diverse Collection of Salmonella Phages Isolated from Tennessee Wastewater | PHAGE | 4(2) 90–98 |
| 2023 | 10.1111/jfs.13084 | Quintela, I. A., D. C. Valentine, A. Hwang, T. Vasse, K.-J. Ho and V. C. H. Wu | Characterization of Shiga toxin-producing Escherichia coli bacteriophages isolated from agricultural environments and examination of their prevalence with bacterial hosts | Journal of Food Safety | 43(6) e13084 |
| 2023 | 10.1016/j.virusres.2023.199049 | Ali, S., A. Karaynir, H. Salih, S. Öncü and B. Bozdoğan | Characterization, genome analysis and antibiofilm efficacy of lytic Proteus phages RP6 and RP7 isolated from university hospital sewage | Virus Research | 326 199049 |
| 2023 | 10.3390/fermentation9010005 | Deshavath, N. N., B. S. Dien, P. J. Slininger, Y.-S. Jin and V. Singh | A Chemical-Free Pretreatment for Biosynthesis of Bioethanol and Lipids from Lignocellulosic Biomass: An Industrially Relevant 2G Biorefinery Approach | Fermentation | 9(1) 5 |
| 2023 | 10.1016/j.biortech.2023.128630 | Jia, Y., S. Maitra and V. Singh | Chemical-free production of multiple high-value bioproducts from metabolically engineered transgenic sugarcane ‘oilcane’ bagasse and their recovery using nanofiltration | Bioresource Technology | 371 128630 |
| 2023 | 10.1002/chem.202203941 | Álvarez-Martínez, I., C. Ruprecht, D. Senf, H.-t. Wang, B. R. Urbanowicz and F. Pfrengle | Chemo-Enzymatic Synthesis of Long-Chain Oligosaccharides for Studying Xylan-Modifying Enzymes | Chemistry – A European Journal | 29(26) e202203941 |
| 2023 | 10.1016/j.plantsci.2023.111874 | Chang, E., W. Guo, J. Chen, J. Zhang, Z. Jia, T. J. Tschaplinski, X. Yang, Z. Jiang and J. Liu | Chromosome-level genome assembly of Quercus variabilis provides insights into the molecular mechanism of cork thickness | Plant Science | 337 111874 |
| 2023 | 10.1021/acs.est.3c05240 | Blanc-Betes, E., N. Gomez-Casanovas, M. D. Hartman, T. W. Hudiburg, M. Khanna, W. J. Parton and E. H. DeLucia | Climate vs Energy Security: Quantifying the Trade-offs of BECCS Deployment and Overcoming Opportunity Costs on Set-Aside Land | Environmental Science & Technology | 57(48) 19732–48 |
| 2023 | 10.1094/Pbiomes-02-22-0007-R | Lagergren, J., M. Cashman, V. G. M. Vergara, P. R. Eller, J. G. F. M. Gazolla, H. B. Chhetri, J. Streich, S. Climer, P. Thornton, W. Joubert and D. Jacobson | Climatic Clustering and Longitudinal Analysis with Impacts on Food, Bioenergy, and Pandemics | Phytobiomes Journal | 7(1) 65–77 |
| 2023 | 10.1021/acs.est.2c06674 | Wang, Y., N. R. Baral, M. Yang and C. D. Scown | Co-Processing Agricultural Residues and Wet Organic Waste Can Produce Lower-Cost Carbon-Negative Fuels and Bioplastics | Environmental Science & Technology | 57(7) 2958–69 |
| 2023 | 10.1007/978-1-0716-2784-6_27 | Ko, D. K. and F. Brandizzi | Coexpression Network Construction and Visualization from Transcriptomes Underlying ER Stress Responses | Plant Proteostasis: Methods and Protocols | 2581 385–401 |
| 2023 | 10.1038/s41564-023-01361-7 | Kelliher, J. M., M. Rudolph, P. Vangay, A. Abbas, M. A. Borton, et al. | Cohort-based learning for microbiome research community standards | Nature Microbiology | 8(5) 751–3 |
| 2023 | 10.1039/D2LC00980C | Ha, N. S., J. R. Onley, K. Deng, P. Andeer, B. P. Bowen, et al. | A combinatorial droplet microfluidic device integrated with mass spectrometry for enzyme screening | Lab on a Chip | 23(15) 3361–69 |
| 2023 | 10.3390/foods12030599 | Apostolakos, I., S. Paramithiotis and M. Mataragas | Comparative Genomic Analysis Reveals the Functional Traits and Safety Status of Lactic Acid Bacteria Retrieved from Artisanal Cheeses and Raw Sheep Milk | Foods | 12(3) 599 |
| 2023 | 10.1038/s41598-023-48788-w | Montso, P. K., A. M. Kropinski, F. Mokoena, R. E. Pierneef, V. Mlambo and C. N. Ateba | Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces | Scientific Reports | 13(1) 21426 |
| 2023 | 10.1038/s42003-023-05299-8 | Longley, R., A. Robinson, J. A. Liber, A. E. Bryson, D. P. Morales, et al. | Comparative genomics of Mollicutes-related endobacteria supports a late invasion into Mucoromycota fungi | Communications Biology | 6(1) 948 |
| 2023 | 10.1016/j.ymben.2023.01.001 | Hu, M., H. V. Dinh, Y. Shen, P. F. Suthers, C. J. Foster, C. M. Call, X. Ye, J. Pratas, Z. Fatma, H. Zhao, J. D. Rabinowitz and C. D. Maranas | Comparative study of two Saccharomyces cerevisiae strains with kinetic models at genome-scale | Metabolic Engineering | 76 1–17 |
| 2023 | 10.1093/femspd/ftad009 | Yadav, A., M. N. Brewer, M. S. Elshahed and E. I. Shaw | Comparative transcriptomics and genomics from continuous axenic media growth identifies Coxiella burnetii intracellular survival strategies | Pathogens and Disease | 81 ftad009 |
| 2023 | 10.1128/spectrum.03176-23 | Kalb, M. J., A. W. Grenfell, A. Jain, J. Fenske-Newbart and J. A. Gralnick | Comparison of phage-derived recombinases for genetic manipulation of Pseudomonas species | Microbiology Spectrum | 11(6) e03176-23 |
| 2023 | 10.3390/microorganisms11020265 | Sánchez-Hidalgo, M., M. J. García, I. González, D. Oves-Costales and O. Genilloud | Complete Genome Sequence Analysis of Kribbella sp. CA-293567 and Identification of the Kribbellichelins A & B and Sandramycin Biosynthetic Gene Clusters | Microorganisms | 11(2) 265 |
| 2023 | 10.1128/MRA.00607-23 | Sullivan, B., C. E. Kitzmiller, W. C. Tran, M. Choudoir, R. Simoes, N. Dayarathne and K. M. DeAngelis | Complete genome sequence of Bacillus thuringiensis strain RC340, isolated from a temperate forest soil sample in New England | Microbiology Resource Announcements | 12(11) e00607-23 |
| 2023 | 10.1128/MRA.00585-23 | Fisher, T., F. Durmazolu, K. M. DeAngelis and M. A. Morrow | Complete genome sequence of Bradyrhizobium NP1, isolated from forest soil | Microbiology Resource Announcements | 12(10) e00585-23 |
| 2023 | 10.1128/mra.00145-23 | Mulay, S. A., W. G. Alexander, C. R. Hahn, D. M. Klingeman, M. S. Elshahed, N. H. Youssef and M. Podar | Complete Genome Sequence of Desulfomicrobium sp. Strain ZS1 from Zodletone Spring in Oklahoma, USA | Microbiology Resource Announcements | 12(5) e00145-23 |
| 2023 | 10.1128/MRA.00508-23 | Alibaglouei, M., L. R. Trutschel, A. R. Rowe and J. D. Sackett | Complete genome sequence of Halomonas sp. strain M1, a thiosulfate-oxidizing bacterium isolated from a hyperalkaline serpentinizing system, Ney Springs | Microbiology Resource Announcements | 12(11) e00508-23 |
| 2023 | 10.1128/MRA.00583-23 | Martínez-López, N. A., B. A. Peña-Ocaña, R. García-Contreras, T. Maeda, R. Rincón-Rosales, A. Cazares, Y. Hoshiko and V. M. Ruíz-Valdiviezo | Complete genome sequence of Paenibacillus sp. VCA1 isolated from crater lake of the El Chichón Volcano | Microbiology Resource Announcements | 12(11) e00583-23 |
| 2023 | 10.1128/MRA.00288-23 | Trutschel, L. R., A. R. Rowe and J. D. Sackett | Complete genome sequence of Roseinatronobacter sp. strain S2, a chemolithoheterotroph isolated from a pH 12 serpentinizing system | Microbiology Resource Announcements | 12(9) e00288-23 |
| 2023 | 10.1128/mra.00824-22 | Fraccascia, D., R. M. Chanyi, E. Altermann, N. C. Roy, S. H. Flint and W. C. McNabb | Complete Genome Sequences of Eight Faecalibacterium sp. Strains Isolated from Healthy Human Stool | Microbiology Resource Announcements | 12(1) e00824-22 |
| 2023 | 10.1016/j.crmicr.2023.100193 | Valenzuela Ruiz, V., G. Santoyo, L. J. Gómez Godínez, L. A. Cira Chávez, F. I. Parra Cota and S. de los Santos Villalobos | Complete genome sequencing of Bacillus cabrialesii TE3T: A plant growth-promoting and biological control agent isolated from wheat (Triticum turgidum subsp. durum) in the Yaqui Valley | Current Research in Microbial Sciences | 4 100193 |
| 2023 | 10.1038/s41586-023-06027-2 | Huang, J., A. Quest, P. Cruz-Morales, K. Deng, J. H. Pereira, et al. | Complete integration of carbene-transfer chemistry into biosynthesis | Nature | 617(7960) 403–8 |
| 2023 | 10.3390/md21030165 | Elvheim, A. I., C. Li and B. Landfald | Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates | Marine Drugs | 21(3) 165 |
| 2023 | 10.1111/1462-2920.16299 | Parada, A. E., X. Mayali, P. K. Weber, J. Wollard, A. E. Santoro, J. A. Fuhrman, J. Pett-Ridge and A. E. Dekas | Constraining the composition and quantity of organic matter used by abundant marine Thaumarchaeota | Environmental Microbiology | 25(3) 689–704 |
| 2023 | 10.1128/msystems.00017-21 | Jo, C., D. B. Bernstein, N. Vaisman, H. M. Frydman and D. Segrè | Construction and Modeling of a Coculture Microplate for Real-Time Measurement of Microbial Interactions | mSystems | 8(2) e00017-21 |
| 2023 | 10.1021/acssynbio.3c00443 | Koh, H. G., J. Kim, C. V. Rao, S.-J. Park and Y.-S. Jin | Construction of a Compact Array of Microplasma Jet Devices and Its Application for Random Mutagenesis of Rhodosporidium toruloides | ACS Synthetic Biology | 12(11) 3406-3413 |
| 2023 | 10.1016/j.polymdegradstab.2023.110466 | Suzuki, M., Y. Tachibana, P. Soulenthone, T. Suzuki, H. Takeno and K.-i. Kasuya | Control of marine biodegradation of an aliphatic polyester using endospores | Polymer Degradation and Stability | 215 110466 |
| 2023 | 10.1016/j.ymben.2023.09.013 | Nguyen, V., P. Xue, Y. Li, H. Zhao and T. Lu | Controlling circuitry underlies the growth optimization of Saccharomyces cerevisiae | Metabolic Engineering | 80 173–83 |
| 2023 | Tibocha-Bonilla, J. D., R. Santibáñez-Palominos and K. Zengler | CoralME - An automated tool for next-generation metabolic model design and optimization | Metabolic Engineering 15 | ||
| 2023 | 10.1038/s41467-023-37164-x | McLaughlin, S., K. Zhalnina, S. Kosina, T. R. Northen and J. Sasse | The core metabolome and root exudation dynamics of three phylogenetically distinct plant species | Nature Communications | 14(1) 1649 |
| 2023 | 10.1038/s41598-023-32078-6 | George, N. A. and L. A. Hug | CRISPR-resolved virus-host interactions in a municipal landfill include non-specific viruses, hyper-targeted viral populations, and interviral conflicts | Scientific Reports | 13(1) 5611 |
| 2023 | 10.1093/hr/uhad085 | Yao, T., G. Yuan, H. Lu, Y. Liu, J. Zhang, G. A. Tuskan, W. Muchero, J.-G. Chen and X. Yang | CRISPR/Cas9-based gene activation and base editing in Populus | Horticulture Research | 10(6) uhad085 |
| 2023 | 10.2489/jswc.2023.00069 | Bell, S. L., A. E. Zimmerman and K. S. Hofmockel | Cropping system drives microbial community response to simulated climate change and plant inputs | Journal of Soil and Water Conservation | 78(2) 178–92 |
| 2023 | 10.1128/mbio.03189-22 | Wang, D., K. A. Hunt, P. Candry, X. Tao, N. Q. Wofford, J. Zhou, M. J. McInerney, D. A. Stahl, R. S. Tanner, A. Zhou, M. Winkler and C. Pan | Cross-Feedings, Competition, and Positive and Negative Synergies in a Four-Species Synthetic Community for Anaerobic Degradation of Cellulose to Methane | mBio | 14(2) e03189-22 |
| 2023 | 10.1093/nar/gkad328 | Zheng, J., Q. Ge, Y. Yan, X. Zhang, L. Huang and Y. Yin | dbCAN3: automated carbohydrate-active enzyme and substrate annotation | Nucleic Acids Research | 51(W1) W115–W121 |
| 2023 | 10.1007/s00299-023-03062-1 | Hooghvorst, I. and F. Altpeter | dCas9-3xSRDX-mediated transcriptional repression in sugarcane | Plant Cell Reports | 42(11) 1837–40 |
| 2023 | 10.1002/prot.26422 | Boorla, V. S., R. Chowdhury, R. Ramasubramanian, B. Ameglio, R. Frick, J. J. Gray and C. D. Maranas | De novo design and Rosetta-based assessment of high-affinity antibody variable regions (Fv) against the SARS-CoV-2 spike receptor binding domain (RBD) | Proteins: Structure, Function, and Bioinformatics | 91(2) 196–208 |
| 2023 | 10.1073/pnas.2303335120 | Davenport, R., B. P. Bowen, L. M. Lynch, S. M. Kosina, I. Shabtai, T. R. Northen and J. Lehmann | Decomposition decreases molecular diversity and ecosystem similarity of soil organic matter | Proceedings of the National Academy of Sciences | 120(25) e2303335120 |
| 2023 | 10.1099/ijsem.0.005628 | Carro, L. and A. Oren | Descriptions of Micromonospora grosourdyae nom. nov., Micromonospora sonchi comb. nov. and Micromonospora thawaii sp. nov. to resolve problems with the taxonomy and nomenclature of strains named Micromonospora endophytica | International Journal of Systematic and Evolutionary Microbiology | 72(12) |
| 2023 | 10.1021/acssuschemeng.2c07139 | Li, Y., G. A. Kontos, D. V. Cabrera, N. M. Avila, T. W. Parkinson, M. B. Viswanathan, V. Singh, F. Altpeter, R. A. Labatut and J. S. Guest | Design of a High-Rate Wastewater Treatment Process for Energy and Water Recovery at Biorefineries | ACS Sustainable Chemistry & Engineering | 11(9) 3861–72 |
| 2023 | 10.1002/bbb.2483 | Ullah, K. M., F. H. Masum, J. L. Field and P. Dwivedi | Designing a GIS-based supply chain for producing carinata-based sustainable aviation fuel in Georgia, USA | Biofuels, Bioproducts and Biorefining | 17(4) 786–802 |
| 2023 | 10.1016/j.ymben.2023.04.003 | Schroeder, W. L., T. Kuil, A. J. A. van Maris, D. G. Olson, L. R. Lynd and C. D. Maranas | A detailed genome-scale metabolic model of Clostridium thermocellum investigates sources of pyrophosphate for driving glycolysis | Metabolic Engineering | 77 306–22 |
| 2023 | 10.1093/jimb/kuad040 | Lopes, D. D., B. S. Dien, R. E. Hector, V. Singh, S. R. Thompson, P. J. Slininger, K. Boundy-Mills, S. S. Jagtap and C. V. Rao | Determining mating type and ploidy in Rhodotorula toruloides and its effect on growth on sugars from lignocellulosic biomass | Journal of Industrial Microbiology and Biotechnology | 50(1) kuad040 |
| 2023 | 10.3389/fmicb.2023.1182497 | Trutschel, L. R., B. R. Kruger, J. D. Sackett, G. L. Chadwick and A. R. Rowe | Determining resident microbial community members and their correlations with geochemistry in a serpentinizing spring | Frontiers in Microbiology | 14 |
| 2023 | 10.1111/gcbb.13021 | Zhang, N., B. P. Sharma and M. Khanna | Determining spatially varying profit-maximizing management practices for miscanthus and switchgrass production in the rainfed United States | GCB Bioenergy | 15(3) 271–82 |
| 2023 | 10.1016/j.ymben.2023.10.006 | Callaghan, M. M., E. Thusoo, B. D. Sharma, F. Getahun, D. M. Stevenson, C. Maranas, D. G. Olson, L. R. Lynd and D. Amador-Noguez | Deuterated water as a substrate-agnostic isotope tracer for investigating reversibility and thermodynamics of reactions in central carbon metabolism | Metabolic Engineering | 80 254–66 |
| 2023 | 10.1111/1751-7915.14205 | Gauttam, R., T. Eng, Z. Zhao, Q. ul ain Rana, B. A. Simmons, Y. Yoshikuni, A. Mukhopadhyay and S. W. Singer | Development of genetic tools for heterologous protein expression in a pentose-utilizing environmental isolate of Pseudomonas putida | Microbial Biotechnology | 16(3) 645–61 |
| 2023 | 10.1016/j.xplc.2023.100594 | Li, C., W. Huang, X. Han, G. Zhao, W. Zhang, et al. | Diel dynamics of multi-omics in elkhorn fern provide new insights into weak CAM photosynthesis | Plant Communications | 4(5) 100594 |
| 2023 | Higgins, R. C., K. L. Arnolds, N. Lamb, G. Li, J. G. Linger and M. T. Guarnieri | Digital droplet PCR for the targeted detection and assessment of Saccharomyces cerevisiae in the soil microbiome | Front Range Microbiome Symposium | ||
| 2023 | 10.1002/anie.202304646 | Van Cura, D., T. L. Ng, J. Huang, H. Hager, J. F. Hartwig, J. D. Keasling and E. P. Balskus | Discovery of the Azaserine Biosynthetic Pathway Uncovers a Biological Route for α-Diazoester Production | Angewandte Chemie International Edition | 62(28) e202304646 |
| 2023 | 10.1128/aem.00500-23 | Wu, X., S. Gushgari-Doyle, L. M. Lui, A. J. Hendrickson, Y. Liu, S. Jagadamma, T. N. Nielsen, N. B. Justice, T. Simmons, N. J. Hess, D. C. Joyner, T. C. Hazen, A. P. Arkin and R. Chakraborty | Distinct Depth-Discrete Profiles of Microbial Communities and Geochemical Insights in the Subsurface Critical Zone | Applied and Environmental Microbiology | 89(6) e00500-23 |
| 2023 | 10.1002/eap.2784 | McDaniel, M. D., J. A. Bird, J. Pett-Ridge, E. Marin-Spiotta, T. M. Schmidt and A. S. Grandy | Diversifying and perennializing plants in agroecosystems alters retention of new C and N from crop residues | Ecological Applications | 33(2) e2784 |
| 2023 | 10.1111/nph.18734 | Vigneaud, J., A. Kohler, M. D. Sow, A. Delaunay, L. Fauchery, et al. | DNA hypomethylation of the host tree impairs interaction with mutualistic ectomycorrhizal fungus | New Phytologist | 238(6) 2561–77 |
| 2023 | 10.1038/s41467-023-38096-2 | Li, M., T. Yao, W. Lin, W. E. Hinckley, M. Galli, W. Muchero, A. Gallavotti, J.-G. Chen and S.-s. C. Huang | Double DAP-seq uncovered synergistic DNA binding of interacting bZIP transcription factors | Nature Communications | 14(1) 2600 |
| 2023 | 10.1016/j.dib.2023.109660 | Magome, T. G., T. Ramatla, P. Mokgokong, O. Thekisoe and K. E. Lekota | The draft genome and pan-genome structure of Paraclostridium bifermentans strain T2 isolated from sheep faeces | Data in Brief | 51 109660 |
| 2023 | 10.1128/MRA.00757-23 | Makhetha, L. L. N., K. Ntushelo, B. G. Mokolopi, J. W. Oguttu, C. A. Mbajiorgu, G. Makete and T. P. Mamphogoro | Draft genome assemblies of 12 Enterobacter hormaechei strains isolated from the North West province of South Africa | Microbiology Resource Announcements | 12(11) e00757-23 |
| 2023 | 10.1128/MRA.00464-23 | Fadiji, A. E., A. S. Ayangbenro, A. O. Akanmu and O. O. Babalola | Draft genome sequence of Acinetobacter sp. AYS6, a potential plant growth-promoting endophyte | Microbiology Resource Announcements | 12(10) e00464-23 |
| 2023 | 10.1128/mra.00142-23 | Fadiji, A. E., A. S. Ayangbenro and O. O. Babalola | Draft Genome Sequence of Citrobacter freundii AYS58, a Potential Plant Growth-Promoting Endophyte | Microbiology Resource Announcements | 12(5) e00142-23 |
| 2023 | 10.1128/mra.01245-22 | Makete, G. and T. P. Mamphogoro | Draft Genome Sequence of Lactiplantibacillus plantarum Strain ISO1, a Potential Probiotic Bacterium Isolated from the Milk of South African Saanen Goats | Microbiology Resource Announcements | 12(2) e01245-22 |
| 2023 | 10.1128/MRA.00373-23 | Tran, W. C., B. Sullivan, C. E. Kitzmiller, M. Choudoir, R. Simoes, N. Dayarathne and K. M. DeAngelis | Draft genome sequence of Paenibacillus sp. strain RC67, an isolate from a long-term forest soil warming experiment in Petersham, Massachusetts | Microbiology Resource Announcements | 12(11) e00373-23 |
| 2023 | 10.1128/mra.00025-23 | Green, M. A., Z. I. Alvarez-Aponte, V. V. Trotter and M. E. Taga | Draft Genome Sequence of Pedococcus sp. Strain 5OH_020, Isolated from California Grassland Soil | Microbiology Resource Announcements | 12(6) e00025-23 |
| 2023 | 10.1128/MRA.00435-23 | Jagtap, S. S., J.-J. Liu, H. E. Walukiewicz, R. Riley, S. Ahrendt, et al. | Draft genome sequence of Yarrowia lipolytica NRRL Y-64008, an oleaginous yeast capable of growing on lignocellulosic hydrolysates | Microbiology Resource Announcements | 12(12) e00435-23 |
| 2023 | 10.1128/mra.00246-23 | Kim, S., H. Choi, Y. Kim, D. Lee, B.-H. Han, S.-B. Hong, S.-W. Kwon and J. Heo | Draft Genome Sequences of Three Type Strains, Acetobacter farinalis KACC 21251, Acetobacter suratthaniensis KACC 21252, and Acetobacter thailandicus KACC 21253 | Microbiology Resource Announcements | 12(6) e00246-23 |
| 2023 | 10.1128/MRA.00582-23 | Losey, N. A., W. W. Kuhne, P. Lin and D. I. Kaplan | Draft genomes of two rhizosphere associated bacterial isolates from Tims Branch, a heavy metal contaminated wetland | Microbiology Resource Announcements | 12(12) e00582-23 |
| 2023 | 10.1128/mra.00359-22 | O’Toole, P., R. A. Daly, R. K. Afshar, M. Shaffer, K. C. Wrighton and B. B. McGivern | Draft Metagenome-Assembled Genome Sequence of a Novel Citricoccus Species from Agricultural Soil in Western Colorado | Microbiology Resource Announcements | 12(1) e00359-22 |
| 2023 | 10.1111/nph.19051 | Brisson, V., C. Swink, J. Kimbrel, X. Mayali, T. Samo, S. M. Kosina, M. Thelen, T. R. Northen and R. K. Stuart | Dynamic Phaeodactylum tricornutum exometabolites shape surrounding bacterial communities | New Phytologist | 239(4) 1420–33 |
| 2023 | 10.1016/j.soilbio.2022.108935 | Chuckran, P. F., C. Flagg, J. Propster, W. A. Rutherford, E. T. Sieradzki, S. J. Blazewicz, B. Hungate, J. Pett-Ridge, E. Schwartz and P. Dijkstra | Edaphic controls on genome size and GC content of bacteria in soil microbial communities | Soil Biology and Biochemistry | 178 108935 |
| 2023 | 10.3389/fgeed.2023.1074641 | Illa-Berenguer, E., P. R. LaFayette and W. A. Parrott | Editing efficiencies with Cas9 orthologs, Cas12a endonucleases, and temperature in rice | Frontiers in Genome Editing | 5 |
| 2023 | 10.3389/fpls.2023.1207275 | Devireddy, A. R., R. M. Rivero and S. I. Zandalinas | Editorial: Rising stars in plant ROS/redox biology under abiotic stress conditions | Frontiers in Plant Science | 14 |
| 2023 | 10.1128/msystems.01025-23 | Qin, Y., L. Wu, Q. Zhang, C. Wen, J. D. V. Nostrand, D. Ning, L. Raskin, A. Pinto and J. Zhou | Effects of error, chimera, bias, and GC content on the accuracy of amplicon sequencing | mSystems | 8(6) e01025-23 |
| 2023 | 10.3390/microorganisms11102389 | Dlamini, S. B., A. M. Gigante, S. P. T. Hooton and R. J. Atterbury | Efficacy of Different Encapsulation Techniques on the Viability and Stability of Diverse Phage under Simulated Gastric Conditions | Microorganisms | 11(10) 2389 |
| 2023 | 10.1002/bit.28337 | VanArsdale, E., A. Navid, M. J. Chu, T. M. Halvorsen, G. F. Payne, Y. Jiao, W. E. Bentley and M. C. Yung | Electrogenetic signaling and information propagation for controlling microbial consortia via programmed lysis | Biotechnology and Bioengineering | 120(5) 1366–81 |
| 2023 | 10.1111/tpj.16242 | Gao, Y., A. S. Lipton, C. R. Munson, Y. Ma, K. L. Johnson, D. T. Murray, H. V. Scheller and J. C. Mortimer | Elongated galactan side chains mediate cellulose–pectin interactions in engineered Arabidopsis secondary cell walls | The Plant Journal | 115(2) 529–45 |
| 2023 | 10.1038/s41467-023-41616-9 | Tran, V. G., S. Mishra, S. S. Bhagwat, S. Shafaei, Y. Shen, J. L. Allen, B. A. Crosly, S.-I. Tan, Z. Fatma, J. D. Rabinowitz, J. S. Guest, V. Singh and H. Zhao | An end-to-end pipeline for succinic acid production at an industrially relevant scale using Issatchenkia orientalis | Nature Communications | 14(1) 6152 |
| 2023 | 10.1002/anie.202302125 | Jiang, G., C. Huang, W. Harrison, H. Li, M. Zhou and H. Zhao | Ene Reductase Enabled Intramolecular β-C−H Functionalization of Substituted Cyclohexanones for Efficient Synthesis of Bridged Bicyclic Nitrogen Scaffolds | Angewandte Chemie International Edition | 62(22) e202302125 |
| 2023 | 10.1002/cssc.202201441 | Dong, X., H. B. Mayes, K. Morreel, R. Katahira, Y. Li, J. Ralph, B. A. Black and G. T. Beckham | Energy-Resolved Mass Spectrometry as a Tool for Identification of Lignin Depolymerization Products | ChemSusChem | 16(1) e202201441 |
| 2023 | 10.1016/j.ymben.2023.05.001 | Liu, D., H. J. Hwang, P. B. Otoupal, G. M. Geiselman, J. Kim, et al. | Engineering Rhodosporidium toruloides for production of 3-hydroxypropionic acid from lignocellulosic hydrolysate | Metabolic Engineering | 78 72–83 |
| 2023 | 10.1002/bit.28484 | Jayachandran, D., P. Smith, M. Irfan, J. Sun, J. M. Yarborough, Y. J. Bomble, E. Lam and S. P. S. Chundawat | Engineering and characterization of carbohydrate-binding modules for imaging cellulose fibrils biosynthesis in plant protoplasts | Biotechnology and Bioengineering | 120(8) 2253–68 |
| 2023 | 10.1016/j.copbio.2022.102869 | Ploessl, D., Y. Zhao and Z. Shao | Engineering of non-model eukaryotes for bioenergy and biochemical production | Current Opinion in Biotechnology | 79 102869 |
| 2023 | 10.1111/pbi.13943 | Liang, Y., X.-H. Yu, S. Anaokar, H. Shi, W. B. Dahl, et al. | Engineering triacylglycerol accumulation in duckweed (Lemna japonica) | Plant Biotechnology Journal | 21(2) 317–30 |
| 2023 | 10.1039/D3GC01481A | Garcia, V. E., V. Pidatala, C. A. Barcelos, D. Liu, P. Otoupal, et al. | Enhanced microbial production of protocatechuate from engineered sorghum using an integrated feedstock-to-product conversion technology | Green Chemistry | 25(17) 6797–808 |
| 2023 | 10.1111/1462-2920.16466 | Howard, S. A., C. M. Carr, H. I. Sbahtu, U. Onwukwe, M. J. López, A. D. W. Dobson and R. R. McCarthy | Enrichment of native plastic-associated biofilm communities to enhance polyester degrading activity | Environmental Microbiology | 25(12) 2698–718 |
| 2023 | 10.1111/gcb.16609 | Silverstein, M. R., D. Segrè and J. M. Bhatnagar | Environmental microbiome engineering for the mitigation of climate change | Global Change Biology | 29(8) 2050–66 |
| 2023 | 10.17504/protocols.io.bp2l6b8n5gqe/v2 | Hammer, S., D. Kapadia, S. Hon, M. Maloney, D. Olson and L. Lynd | Enzymatic Ethanol Assay V.2 | protocols.io | |
| 2023 | 10.1038/s41559-022-01936-3 | Price, M. | Erroneous predictions of auxotrophies by CarveMe | Nature Ecology & Evolution | 7(2) 194–95 |
| 2023 | 10.3389/fgeed.2023.1110279 | Tannous, J., C. Sawyer, M. M. Hassan, J. L. Labbe and C. Eckert | Establishment of a genome editing tool using CRISPR-Cas9 ribonucleoprotein complexes in the non-model plant pathogen Sphaerulina musiva | Frontiers in Genome Editing | 5 |
| 2023 | 10.1186/s13068-023-02379-z | Olson, D. G., M. I. Maloney, A. A. Lanahan, N. D. Cervenka, Y. Xia, A. Pech-Canul, S. Hon, L. Tian, S. J. Ziegler, Y. J. Bomble and L. R. Lynd | Ethanol tolerance in engineered strains of Clostridium thermocellum | Biotechnology for Biofuels and Bioproducts | 16(1) 137 |
| 2023 | 10.15252/msb.202311566 | Bernstein, D. B., B. Akkas, M. N. Price and A. P. Arkin | Evaluating E. coli genome-scale metabolic model accuracy with high-throughput mutant fitness data | Molecular Systems Biology | 19(12) e11566 |
| 2023 | 10.1016/j.ymben.2023.04.009 | Dinh, H. V. and C. D. Maranas | Evaluating proteome allocation of Saccharomyces cerevisiae phenotypes with resource balance analysis | Metabolic Engineering | 77 242–55 |
| 2023 | Pastore, C. | Evaluating the inability to store polyphosphate as a biocontainment strategy in genetically modified microalgae | DOE Office of Science’s Science Undergraduate Laboratory Internship Program Final Report | ||
| 2023 | 10.1016/j.ymben.2023.01.003 | Yan, Q., T. B. Jacobson, Z. Ye, Y. R. Cortés-Pena, S. S. Bhagwat, S. Hubbard, W. T. Cordell, R. E. Oleniczak, F. V. Gambacorta, J. R. Vazquez, E. V. Shusta, D. Amador-Noguez, J. S. Guest and B. F. Pfleger | Evaluation of 1,2-diacyl-3-acetyl triacylglycerol production in Yarrowia lipolytica | Metabolic Engineering | 76 18–28 |
| 2023 | 10.1016/j.ymben.2023.02.012 | Jindra, M. A., K. Choe, R. Chowdhury, R. Kong, S. Ghaffari, J. V. Sweedler and B. F. Pfleger | Evaluation of strategies to narrow the product chain-length distribution of microbially synthesized free fatty acids | Metabolic Engineering | 77 21–31 |
| 2023 | 10.1021/acssuschemeng.3c04322 | Shah, R. S., M. Senanayake, H.-H. Zhang, Y. Pu, A. K. Biswal, S. V. Pingali, B. Davison and H. O’Neill | Evidence for Lignin–Carbohydrate Complexes from Studies of Transgenic Switchgrass and a Model Lignin–Pectin Composite | ACS Sustainable Chemistry & Engineering | 11(44) 15941–50 |
| 2023 | 10.1111/nph.18518 | Mottiar, Y., R. A. Smith, S. D. Karlen, J. Ralph and S. D. Mansfield | Evolution of p-coumaroylated lignin in eudicots provides new tools for cell wall engineering | New Phytologist | 237(1) 251–64 |
| 2023 | 10.1021/jacs.2c11027 | Englund, E., M. Schmidt, A. A. Nava, A. Lechner, K. Deng, et al. | Expanding Extender Substrate Selection for Unnatural Polyketide Biosynthesis by Acyltransferase Domain Exchange within a Modular Polyketide Synthase | Journal of the American Chemical Society | 145(16) 8822–32 |
| 2023 | 10.1093/plphys/kiad076 | Liu, Y., G. Yuan, B. Hyden, G. A. Tuskan, P. E. Abraham and X. Yang | Expanding the application of anti-CRISPR proteins in plants for tunable genome editing | Plant Physiology | 192(1) 60–4 |
| 2023 | 10.1016/j.csbj.2022.12.052 | Cope, K. R., E. T. Prates, J. I. Miller, O. N. A. Demerdash, M. Shah, et al. | Exploring the role of plant lysin motif receptor-like kinases in regulating plant-microbe interactions in the bioenergy crop Populus | Computational and Structural Biotechnology Journal | 21 1122–39 |
| 2023 | Chiarelli, D., D. Olson and L. Lynd | Expression and characterization of glycolytic enzymes from Thermoanaerobacterium saccharolyticum and Zymomonas mobilis in Clostridium thermocellum | SBFC: Symposium on Biomaterials, Fuels and Chemicals | ||
| 2023 | 10.1016/j.pep.2023.106317 | Sword, T. T., J. W. Barker, M. Spradley, Y. Chen, C. J. Petzold and C. B. Bailey | Expression of blue pigment synthetase a from Streptomyces lavenduale reveals insights on the effects of refactoring biosynthetic megasynthases for heterologous expression in Escherichia coli | Protein Expression and Purification | 210 106317 |
| 2023 | 10.1111/nph.19126 | Yao, T., J. Zhang, T. B. Yates, H. K. Shrestha, N. L. Engle, et al. | Expression quantitative trait loci mapping identified PtrXB38 as a key hub gene in adventitious root development in Populus | New Phytologist | 239(6) 2248–64 |
| 2023 | 10.3390/plants12081657 | Yuan, G., Y. Liu, T. Yao, W. Muchero, J.-G. Chen, G. A. Tuskan and X. Yang | eYGFPuv-Assisted Transgenic Selection in Populus deltoides WV94 and Multiplex Genome Editing in Protoplasts of P. trichocarpa x P. deltoides Clone ’52-225’ | Plants | 12(8) 1657 |
| 2023 | 10.1016/j.jaridenv.2022.104876 | Reeve, S., B. Palmer, P. Cobb, N. Pietrasiak and D. A. Lipson | Facilitating restoration of degraded biological soil crusts using mixed culture inoculation | Journal of Arid Environments | 208 104876 |
| 2023 | 10.3389/fenrg.2023.1212719 | Wolski, P., B. W. Blankenship, A. Umar, M. Cabrera, B. A. Simmons, K. L. Sale and E. C. Achinivu | Factors that influence the activity of biomass-degrading enzymes in the presence of ionic liquids—a review | Frontiers in Energy Research | 11 |
| 2023 | 10.1038/s41592-023-01868-1 | Liu, L., Y. Huang and H. H. Wang | Fast and efficient template-mediated synthesis of genetic variants | Nature Methods | 20(6) 841–48 |
| 2023 | 10.34133/plantphenomics.0072 | Lagergren, J., M. Pavicic, H. B. Chhetri, L. M. York, D. Hyatt, D. Kainer, E. M. Rutter, K. Flores, J. Bailey-Bale, M. Klein, G. Taylor, D. Jacobson and J. Streich | Few-Shot Learning Enables Population-Scale Analysis of Leaf Traits in Populus trichocarpa | Plant Phenomics | 5 0072 |
| 2023 | 10.3389/fpls.2023.1181035 | Eudes, A., C.-Y. Lin, C. De Ben, J. Ortega, M. Y. Lee, Y.-C. Chen, G. Li, D. H. Putnam, J. C. Mortimer, P. C. Ronald, C. D. Scown and H. V. Scheller | Field performance of switchgrass plants engineered for reduced recalcitrance | Frontiers in Plant Science | 14 |
| 2023 | 10.1111/gcbb.13078 | Ferin, K. M., T. Balson, E. Audia, A. S. Ward, S. Liess, T. E. Twine and A. VanLoocke | Field-scale analysis of miscanthus production indicates climate change may increase the opportunity for water quality improvement in a key Iowa watershed | GCB Bioenergy | 15(8) 994–1010 |
| 2023 | 10.1038/s43705-023-00265-1 | Acharya, S. M., M. O. Yee, S. Diamond, P. F. Andeer, N. F. Baig, O. T. Aladesanmi, T. R. Northen, J. F. Banfield and R. Chakraborty | Fine scale sampling reveals early differentiation of rhizosphere microbiome from bulk soil in young Brachypodium plant roots | ISME Communications | 3(1) 54 |
| 2023 | 10.1099/ijsem.0.006026 | Kim, Y., P. Subramanian, H. Choi, H.-Y. Weon, S. Kim, S.-W. Kwon, D. Lee, B.-H. Han, S.-B. Hong and J. Heo | Five novel Hymenobacter species isolated from air: Hymenobacter cellulosilyticus sp. nov., Hymenobacter cellulosivorans sp. nov., Hymenobacter aerilatus sp. nov., Hymenobacter sublimis sp. nov. and Hymenobacter volaticus sp. nov | International Journal of Systematic and Evolutionary Microbiology | 73(9) |
| 2023 | 10.1371/journal.pcbi.1011563 | Nambiar, A., V. Dubinkina, S. Liu and S. Maslov | FUN-PROSE: A deep learning approach to predict condition-specific gene expression in fungi | PLOS Computational Biology | 19(11) e1011563 |
| 2023 | 10.1016/j.ijbiomac.2023.124743 | Zhou, F., H. Wu, Y. Chen, M. Wang, G. A. Tuskan and T. Yin | Function and molecular mechanism of a poplar placenta limited MIXTA gene in regulating differentiation of plant epidermal cells | International Journal of Biological Macromolecules | 242 124743 |
| 2023 | 10.1002/pld3.546 | Hyden, B., D. L. Carper, P. E. Abraham, G. Yuan, T. Yao, L. Baumgart, Y. Zhang, C. Chen, R. O'Malley, J.-G. Chen, X. Yang, R. L. Hettich, G. A. Tuskan and L. B. Smart | Functional analysis of Salix purpurea genes support roles for ARR17 and GATA15 as master regulators of sex determination | Plant Direct | 7(11) e546 |
| 2023 | 10.1111/pce.14705 | King, W. L., C. F. Yates, L. Cao, S. O'Rourke-Ibach, S. M. Fleishman, et al. | Functionally discrete fine roots differ in microbial assembly, microbial functional potential, and produced metabolites | Plant, Cell & Environment | 46(12) 3919–32 |
| 2023 | 10.1002/chem.202300330 | Choudhary, H., L. Das, J. G. Pelton, L. Sheps, B. A. Simmons, J. M. Gladden and S. Singh | Funneled Depolymerization of Ionic Liquid-Based Biorefinery “Heterogeneous” Lignin into Guaiacols over Reusable Palladium Catalyst | Chemistry – A European Journal | 29(27) e202300330 |
| 2023 | 10.1128/msystems.00038-23 | Hoover, R. L., J. L. Keffer, S. W. Polson and C. S. Chan | Gallionellaceae pangenomic analysis reveals insight into phylogeny, metabolic flexibility, and iron oxidation mechanisms | mSystems | 8(6) e00038-23 |
| 2023 | 10.3389/fmars.2022.1067482 | Lim, S. J., L. R. Thompson and K. D. Goodwin | Genetic features of the marine polychaete Sirsoe methanicola from metagenomic data | Frontiers in Marine Science | 9 |
| 2023 | 10.1128/mra.01237-22 | Mamphogoro, T. P., C. N. Kamutando, M. M. Maboko, O. O. Babalola and O. A. Aiyegoro | Genome Assembly of a Putative Plant Growth-Stimulating Bacterial Sweet Pepper Fruit Isolate, Enterobacter hormaechei SRU4.4 | Microbiology Resource Announcements | 12(2) e01237-22 |
| 2023 | 10.1038/s41586-023-06205-2 | Sha, G., P. Sun, X. Kong, X. Han, Q. Sun, et al. | Genome editing of a rice CDP-DAG synthase confers multipathogen resistance | Nature | 618(7967) 1017–23 |
| 2023 | 10.1094/mpmi-08-22-0169-a | Deyett, E., V. E. T. M. Ashworth, B. DiSalvo, Flavia Campos F. Vieira, M. C. Roper and P. E. Rolshausen | Genome Sequence Data of Achromobacter vitis, an Endophytic Species with Biocontrol Properties Against Xylella fastidiosa | Molecular Plant-Microbe Interactions® | 36(7) 457–59 |
| 2023 | 10.1128/MRA.00509-23 | Chakraborty, S., J. B. Benoit, A. R. Rowe and J. D. Sackett | Genome sequence of Asaia bogorensis strain SC1 isolated from an Aedes aegypti mosquito crop | Microbiology Resource Announcements | 12(11) e00509-23 |
| 2023 | 10.1128/MRA.00479-23 | Hassen, A. I., L. S. Khambani and R. Pierneef | Genome sequence of an indole-3-acetic acid and siderophores producing Pseudomonas monsensis SARCC-3054 with the potential as a microbial inoculant for enhanced crop production | Microbiology Resource Announcements | 12(9) e00479-23 |
| 2023 | 10.1007/s11356-023-25893-x | Kumar, J., N. Sharma and S. P. Singh | Genome-resolved metagenomics inferred novel insights into the microbial community, metabolic pathways, and biomining potential of Malanjkhand acidic copper mine tailings | Environmental Science and Pollution Research | 30(17) 50864–82 |
| 2023 | 10.1038/s41587-022-01628-0 | Heinken, A., J. Hertel, G. Acharya, D. A. Ravcheev, M. Nyga, et al. | Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine | Nature Biotechnology | 41(9) 1320–31 |
| 2023 | 10.1111/gcbb.13097 | Njuguna, J. N., L. V. Clark, A. E. Lipka, K. G. Anzoua, L. Bagmet, et al. | Genome-wide association and genomic prediction for yield and component traits of Miscanthus sacchariflorus | GCB Bioenergy | 15(11) 1355–72 |
| 2023 | 10.3390/ijms241813883 | Apostolakos, I., T. Skarlatoudi, K. Vatavali, A. Giannouli, L. Bosnea and M. Mataragas | Genomic and Phenotypic Characterization of Mastitis-Causing Staphylococci and Probiotic Lactic Acid Bacteria Isolated from Raw Sheep’s Milk | International Journal of Molecular Sciences | 24(18) 13883 |
| 2023 | 10.3389/sjss.2023.11302 | Fadiji, A. E., A. S. Ayangbenro and O. O. Babalola | Genomic Assessment of Enterobacter mori AYS9: A Potential Plant Growth-Promoting Drought-Resistant Rhizobacteria | Spanish Journal of Soil Science | 13 |
| 2023 | 10.3390/microorganisms11061425 | Uljanovas, D., G. Gölz, S. Fleischmann, E. Kudirkiene, N. Kasetiene, A. Grineviciene, E. Tamuleviciene, J. Aksomaitiene, T. Alter and M. Malakauskas | Genomic Characterization of Arcobacter butzleri Strains Isolated from Various Sources in Lithuania | Microorganisms | 11(6) 1425 |
| 2023 | 10.1016/j.hal.2023.102405 | Valadez-Cano, C., A. Reyes-Prieto, D. G. Beach, C. Rafuse, P. McCarron and J. Lawrence | Genomic characterization of coexisting anatoxin-producing and non-toxigenic Microcoleus subspecies in benthic mats from the Wolastoq, New Brunswick, Canada | Harmful Algae | 124 102405 |
| 2023 | 10.1007/s00203-023-03728-0 | Srivastava, S. and N. A. Dafale | Genomic dissection of Niallia sp. for potential application in lignocellulose hydrolysis and bioremediation | Archives of Microbiology | 206 2 |
| 2023 | 10.1007/s10482-022-01804-x | Saticioglu, I. B., H. Ay, S. Altun, E. Karakaya, E. S. Gunduz, D. Aydogdu, D. Yarim, N. Erkek and M. Duman | Genomic insight into Myroides oncorhynchi sp. nov., a new member of the Myroides genus, isolated from the internal organ of rainbow trout (Oncorhynchus mykiss) | Antonie van Leeuwenhoek | 116(3) 291–302 |
| 2023 | 10.1038/s43705-023-00297-7 | Carlson, H. K., D. Piya, M. L. Moore, R. T. Magar, N. H. Elisabeth, A. M. Deutschbauer, A. P. Arkin and V. K. Mutalik | Geochemical constraints on bacteriophage infectivity in terrestrial environments | ISME Communications | 3(1) 78 |
| 2023 | 10.1111/gcbb.13024 | Kim, S., B. E. Dale, R. Martinez-Feria, B. Basso, K. Thelen, C. T. Maravelias, D. Landis, T. J. Lark and G. P. Robertson | Global warming intensity of biofuel derived from switchgrass grown on marginal land in Michigan | GCB Bioenergy | 15(3) 319–31 |
| 2023 | 10.1002/biot.202200535 | Lane, S., T. L. Turner and Y.-S. Jin | Glucose assimilation rate determines the partition of flux at pyruvate between lactic acid and ethanol in Saccharomyces cerevisiae | Biotechnology Journal | 18(4) 2200535 |
| 2023 | 10.1111/gcbb.13101 | Freer-Smith, P., J. H. Bailey-Bale, C. L. Donnison and G. Taylor | The good, the bad, and the future: Systematic review identifies best use of biomass to meet air quality and climate policies in California | GCB Bioenergy | 15(11) 1312–28 |
| 2023 | 10.1038/s41467-023-44104-2 | Guo, Y., E. H. Boughton, S. Bohlman, C. Bernacchi, P. J. Bohlen, et al. | Grassland intensification effects cascade to alter multifunctionality of wetlands within metaecosystems | Nature Communications | 14(1) 8267 |
| 2023 | 10.1038/s41467-023-41424-1 | Lim, J. J., C. Diener, J. Wilson, J. J. Valenzuela, N. S. Baliga and S. M. Gibbons | Growth phase estimation for abundant bacterial populations sampled longitudinally from human stool metagenomes | Nature Communications | 14(1) 5682 |
| 2023 | 10.1038/s41598-023-29220-9 | Herring, C. D., M. P. Ajie and L. R. Lynd | Growth-uncoupled propanediol production in a Thermoanaerobacterium thermosaccharolyticum strain engineered for high ethanol yield | Scientific Reports | 13(1) 2394 |
| 2023 | 10.1093/hr/uhad125 | Nagle, M. F., J. Yuan, D. Kaur, C. Ma, E. Peremyslova, Y. Jiang, B. Zahl, A. Niño de Rivera, W. Muchero, L. Fuxin and S. H. Strauss | GWAS identifies candidate genes controlling adventitious rooting in Populus trichocarpa | Horticulture Research | 10(8) uhad125 |
| 2023 | 10.1111/tpj.16454 | Zhou, R., J. W. Jenkins, Y. Zeng, S. Shu, H. Jang, et al. | Haplotype-resolved genome assembly of Populus tremula x P. alba reveals aspen-specific megabase satellite DNA | The Plant Journal | 116(4) 1003–17 |
| 2023 | 10.1016/j.xpro.2023.102190 | Yin, K., P. Cruz-Morales, C. M. Whitford and J. D. Keasling | Heterologous production of polycyclopropanated fatty acids and their methyl esters in Streptomyces | STAR Protocols | 4(2) 102190 |
| 2023 | 10.1021/acssuschemeng.2c05199 | Sumer, Z. and R. C. Van Lehn | Heuristic Computational Model for Predicting Lignin Solubility in Tailored Organic Solvents | ACS Sustainable Chemistry & Engineering | 11(1) 187–98 |
| 2023 | 10.1128/MRA.00371-23 | Kitzmiller, C. E., W. C. Tran, B. Sullivan, F. Cortez, M. Choudoir, R. Simoes, N. Dayarathne and K. M. DeAngelis | High-quality genomes of Paenibacillus spp. RC334 and RC343, isolated from a long-term forest soil warming experiment | Microbiology Resource Announcements | 12(9) e00371-23 |
| 2023 | 10.1126/sciadv.ade1285 | Elmore, J. R., G. N. Dexter, H. Baldino, J. D. Huenemann, R. Francis, G. L. Peabody, J. Martinez-Baird, L. A. Riley, T. Simmons, D. Coleman-Derr, A. M. Guss and R. G. Egbert | High-throughput genetic engineering of nonmodel and undomesticated bacteria via iterative site-specific genome integration | Science Advances | 9(10) eade1285 |
| 2023 | 10.1093/plphys/kiac580 | O’Leary, B. M., A. P. Scafaro and L. M. York | High-throughput, dynamic, multi-dimensional: an expanding repertoire of plant respiration measurements | Plant Physiology | 191(4) 2070–83 |
| 2023 | 10.1186/s40168-023-01646-3 | Ji, N., D. Liang, L. V. Clark, E. J. Sacks and A. D. Kent | Host genetic variation drives the differentiation in the ecological role of the native Miscanthus root-associated microbiome | Microbiome | 11(1) 216 |
| 2023 | 10.1073/pnas.2302721120 | Ingham, C. S., T. Engl, B. Matarrita-Carranza, P. Vogler, B. Huettel, N. Wielsch, A. Svatoš and M. Kaltenpoth | Host hydrocarbons protect symbiont transmission from a radical host defense | Proceedings of the National Academy of Sciences | 120(31) e2302721120 |
| 2023 | 10.1371/journal.pbio.3002190 | Alamos, S. and P. M. Shih | How to engineer the unknown: Advancing a quantitative and predictive understanding of plant and soil biology to address climate change | PLOS Biology | 21(7) e3002190 |
| 2023 | 10.1007/s10482-023-01818-z | Sreya, P. K., K. Gaurav, S. Ahmed, C. Sasikala and C. V. Ramana | Blastopirellula sediminis sp. nov. a new member of Pirellulaceae isolated from the Andaman and Nicobar Islands | Antonie van Leeuwenhoek | 116(5) 463–75 |
| 2023 | 10.1016/j.syapm.2023.126452 | Claassens, R., S. N. Venter, C. W. Beukes, T. Stępkowski, W. Y. Chan and E. T. Steenkamp | Bradyrhizobium xenonodulans sp. nov. isolated from nodules of Australian Acacia species invasive to South Africa | Systematic and Applied Microbiology | 46(5) 126452 |
| 2023 | 10.1099/ijsem.0.006204 | Kim, S., J. Heo, S.-W. Kwon, D. Lee, B.-H. Han, S.-B. Hong and Y. Kim | Brevibacillus ruminantium sp. nov., isolated from cow faeces | International Journal of Systematic and Evolutionary Microbiology | 73(12) |
| 2023 | 10.1099/ijsem.0.005720 | Furlan, J. P. R., T. G. Ribeiro, Â. Novais, H. Cabral, L. Peixe and E. G. Stehling | Citrobacter meridianamericanus sp. nov., isolated from a soil sample | International Journal of Systematic and Evolutionary Microbiology | 73(3) |
| 2023 | 10.1007/s10482-023-01873-6 | Jo, H., C. Baek, Y. M. Heo, H.-B. Kim, H. Lee, S. Kang, S. Mun, Y. Oh, D. Ko, K. Han, R. Riesco, M. E. Trujillo and D.-G. Lee | Dermatobacter hominis gen. nov., sp. nov., a new member of the family Iamiaceae, revealed the potential utilisation of skin-derived metabolites | Antonie van Leeuwenhoek | 116(11) 1139–50 |
| 2023 | 10.1099/ijsem.0.006098 | Kim, Y., S. Kim, S.-W. Kwon, H.-Y. Weon, H. Naito, T. Asano, M. Hamada and J. Heo | Halobacillus salinarum sp. nov., Halobacillus shinanisalinarum sp. nov. and Halobacillus amylolyticus sp. nov., isolated from saltern soil | International Journal of Systematic and Evolutionary Microbiology | 73(10) |
| 2023 | 10.1016/j.cels.2023.04.006 | Yu, T., A. G. Boob, N. Singh, Y. Su and H. Zhao | In vitro continuous protein evolution empowered by machine learning and automation | Cell Systems | 14(8) 633–44 |
| 2023 | 10.1111/nph.18624 | Ortega, M. A., R. Zhou, M. S. S. Chen, W. P. Bewg, B. Simon and C.-J. Tsai | In vitro floral development in poplar: insights into seed trichome regulation and trimonoecy | New Phytologist | 237(4) 1078–81 |
| 2023 | 10.1128/mbio.01010-23 | Suo, Z., D. A. Cummings, A. W. Puri, A. L. Schaefer and E. P. Greenberg | A Mesorhizobium japonicum quorum sensing circuit that involves three linked genes and an unusual acyl-homoserine lactone signal | mBio | 14(4) e01010-23 |
| 2023 | 10.3389/fmicb.2023.1284397 | Fourie, A., S. N. Venter, B. Slippers and G. Fourie | Pantoea bathycoeliae sp. nov and Sodalis sp. are core gut microbiome symbionts of the two-spotted stink bug | Frontiers in Microbiology | 14 |
| 2023 | 10.1007/s11356-023-25618-0 | Ajayi-Odoko, A. O., A. D. V. Ayansina, O. O. Ikhimiukor, J. A. Müller and O. O. Adelowo | Proteus mirabilis isolated from untreated hospital wastewater, Ibadan, Southwestern Nigeria showed low-level resistance to fluoroquinolone and carried qnrD3 on Col3M plasmids | Environmental Science and Pollution Research | 30(16) 47158–67 |
| 2023 | 10.1007/s00792-023-01316-0 | Miyazaki, U., M. Sanari, A. Tame, M. Kitajima, A. Okamoto, S. Sawayama, J. Miyazaki, K. Takai and S. Nakagawa | Pyrofollis japonicus gen. nov. sp. nov., a novel member of the family Pyrodictiaceae isolated from the Iheya North hydrothermal field | Extremophiles | 27(3) 28 |
| 2023 | 10.1128/mra.00069-23 | Chapman, A. R., J. M. Wright, N. A. Kaiser, P. M. Jones, E. M. Driver, R. U. Halden, A. Varsani, M. Scotch and T. O. C. Faleye | Rhizobium Phage-Like Microvirus Genome Sequence Identified in Wastewater in Arizona, USA, in November 2020 Encodes an Endolysin and a Putative Multiheme Cytochrome c-like Protein | Microbiology Resource Announcements | 12(5) e00069-23 |
| 2023 | 10.1099/ijsem.0.005704 | Allemann, M. N., G. N. Presley, J. G. Elkins and J. K. Michener | Sphingobium lignivorans sp. nov., isolated from river sediment downstream of a paper mill | International Journal of Systematic and Evolutionary Microbiology | 73(2) |
| 2023 | 10.3390/microorganisms11010199 | Mazoyon, C., B. Hirel, A. Pecourt, M. Catterou, L. Gutierrez, V. Sarazin, F. Dubois and J. Duclercq | Sphingomonas sediminicola Is an Endosymbiotic Bacterium Able to Induce the Formation of Root Nodules in Pea (Pisum sativum L.) and to Enhance Plant Biomass Production | Microorganisms | 11(1) 199 |
| 2023 | 10.1099/ijsem.0.006063 | Klaysubun, C., W. Butdee, C. Suriyachadkun, Y. Igarashi and K. Duangmal | Streptomyces silvisoli sp. nov., a polyene producer, and Streptomyces tropicalis sp. nov., two novel actinobacterial species from peat swamp forests in Thailand | International Journal of Systematic and Evolutionary Microbiology | 73(9) |
| 2023 | 10.1093/bioinformatics/btad466 | Cunha, E., D. Lagoa, J. P. Faria, F. Liu, C. S. Henry and O. Dias | TranSyT, an innovative framework for identifying transport systems | Bioinformatics | 39(8) |
| 2023 | 10.1016/j.hal.2023.102433 | Dreher, T. W., R. Matthews, E. W. Davis and R. S. Mueller | Woronichinia naegeliana: A common nontoxigenic component of temperate freshwater cyanobacterial blooms with 30% of its genome in transposons | Harmful Algae | 125 102433 |
| 2023 | 10.1002/pro.4730 | Seppälä, S., T. Gierke, E. E. Schauer, J. L. Brown and M. A. O'Malley | Identification and expression of small multidrug resistance transporters in early-branching anaerobic fungi | Protein Science | 32(9) e4730 |
| 2023 | 10.3390/antibiotics12111571 | Falco, A., M. Á. Villaquirán-Muriel, J. D. Gallo Pérez, A. Mondragón-Quiguanas, C. Aranaga and A. Correa | Identification of Vibrio metschnikovii and Vibrio injensis Isolated from Leachate Ponds: Characterization of Their Antibiotic Resistance and Virulence-Associated Genes | Antibiotics | 12(11) 1571 |
| 2023 | 10.1007/978-1-0716-3159-1_15 | Tannous, J., J. Labbé and N. P. Keller | Identifying Fungal Secondary Metabolites and Their Role in Plant Pathogenesis | Plant-Pathogen Interactions | 193–218 |
| 2023 | Suzuki, Y., A. Murao, J. Sebesta, B. Yang, D. H. Hernandez, et al. | IMAGINE BioSecurity: Genome-Scale Engineering and Modeling for Secure Biosystems Design | DOE Genomic Sciences Program Annual Meeting | ||
| 2023 | Arnolds, K., R. C. Higgins, N. Lamb, G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Mesocosm-based Methods to Evaluate Biocontainment Strategies and Impact of Industrial Microbes Upon Native Ecosystems | Center for Microbiome Innovation International Microbiome Meeting | ||
| 2023 | Arnolds, K., R. C. Higgins, G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Mesocosm-based Methods to Evaluate Biocontainment Strategies and Impact of Industrial Microbes Upon Native Ecosystems | DOE Genomic Sciences Program Annual Meeting | ||
| 2023 | 10.1126/sciadv.adg8292 | Farokh Payam, A. and A. Passian | Imaging beyond the surface region: Probing hidden materials via atomic force microscopy | Science Advances | 9(26) eadg8292 |
| 2023 | 10.7717/peerj.15754 | Mula-Michel, H., P. White and A. Hale | Immediate impacts of soybean cover crop on bacterial community composition and diversity in soil under long-term Saccharum monoculture | PeerJ | 11 e15754 |
| 2023 | 10.1002/tpg2.20401 | Njuguna, J. N., L. V. Clark, A. E. Lipka, K. G. Anzoua, L. Bagmet, et al. | Impact of genotype-calling methodologies on genome-wide association and genomic prediction in polyploids | The Plant Genome | 16(4) e20401 |
| 2023 | 10.1021/acs.est.2c07936 | Stewart, D. W., Y. R. Cortés-Peña, Y. Li, A. S. Stillwell, M. Khanna and J. S. Guest | Implications of Biorefinery Policy Incentives and Location-Specific Economic Parameters for the Financial Viability of Biofuels | Environmental Science & Technology | 57(6) 2262–71 |
| 2023 | 10.1111/gcb.16903 | Kantola, I. B., E. Blanc-Betes, M. D. Masters, E. Chang, A. Marklein, C. E. Moore, A. von Haden, C. J. Bernacchi, A. Wolf, D. Z. Epihov, D. J. Beerling and E. H. DeLucia | Improved net carbon budgets in the US Midwest through direct measured impacts of enhanced weathering | Global Change Biology | 29(24) 7012–28 |
| 2023 | 10.1038/s42255-023-00830-x | Zhan, C., N. Lee, G. Lan, Q. Dan, A. Cowan, et al. | Improved polyketide production in C. glutamicum by preventing propionate-induced growth inhibition | Nature Metabolism | 5(7) 1127–40 |
| 2023 | 10.1128/msystems.00961-22 | Kishore, D., G. Birzu, Z. Hu, C. DeLisi, K. S. Korolev and D. Segrè | Inferring microbial co-occurrence networks from amplicon data: a systematic evaluation | mSystems | 8(4) e00961-22 |
| 2023 | 10.1016/j.ymben.2023.02.006 | McNaught, K. J., E. Kuatsjah, M. Zahn, É. T. Prates, H. Shao, et al. | Initiation of fatty acid biosynthesis in Pseudomonas putida KT2440 | Metabolic Engineering | 76 193–203 |
| 2023 | 10.1038/s41477-022-01294-9 | Fu, X., L. M. Gregory, S. E. Weise and B. J. Walker | Integrated flux and pool size analysis in plant central metabolism reveals unique roles of glycine and serine during photorespiration | Nature Plants | 9(1) 169–78 |
| 2023 | 10.1016/j.ces.2022.118406 | Taifan, G. S. P. and C. T. Maravelias | Integrated membrane material design and system synthesis | Chemical Engineering Science | 269 118406 |
| 2023 | 10.1002/pld3.544 | Carrell, A. A., M. Clark, S. Jawdy, W. Muchero, G. Alexandre, J. L. Labbé and T. A. Rush | Interactions with microbial consortia have variable effects in organic carbon and production of exometabolites among genotypes of Populus trichocarpa | Plant Direct | 7(11) e544 |
| 2023 | 10.3389/frmbi.2023.1078024 | Naylor, D., K. Naasko, M. Smith, S. Couvillion, C. Nicora, J. Trejo, S. Fransen, R. Danczak, R. McClure, K. S. Hofmockel and J. K. Jansson | Interactive effects of depth and differential irrigation on soil microbiome composition and functioning | Frontiers in Microbiomes | 2 |
| 2023 | 10.1186/s13068-023-02393-1 | Cao, V. D., G. Luo, S. Korynta, H. Liu, Y. Liang, J. Shanklin and F. Altpeter | Intron-mediated enhancement of DIACYLGLYCEROL ACYLTRANSFERASE1 expression in energycane promotes a step change for lipid accumulation in vegetative tissues | Biotechnology for Biofuels and Bioproducts | 16(1) 153 |
| 2023 | 10.1021/acssynbio.2c00658 | Dinglasan, J. L. N., T. T. Sword, J. W. Barker, M. J. Doktycz and C. B. Bailey | Investigating and Optimizing the Lysate-Based Expression of Nonribosomal Peptide Synthetases Using a Reporter System | ACS Synthetic Biology | 12(5) 1447–60 |
| 2023 | 10.1637/aviandiseases-D-22-00091 | Günther, E., R. Moore and S. Rautenschlein | Investigation of Spotty Liver Disease and Campylobacter hepaticus in Layer Flocks—A Field Study | Avian Diseases | 67(2) 202–08 |
| 2023 | 10.3389/fmicb.2023.1219318 | Schaedig, E., M. Cantrell, C. Urban, X. Zhao, D. Greene, J. Dancer, M. Gross, J. Sebesta, K. J. Chou, J. Grabowy, M. Gross, K. Kumar and J. Yu | Isolation of phosphorus-hyperaccumulating microalgae from revolving algal biofilm (RAB) wastewater treatment systems | Frontiers in Microbiology | 14 |
| 2023 | 10.1093/nar/gkad616 | Sreedasyam, A., C. Plott, M. S. Hossain, John T. Lovell, J. Grimwood, et al. | JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom | Nucleic Acids Research | 51(16) 8383–401 |
| 2023 | 10.1128/mbio.00769-23 | Tannous, J., C. M. Cosetta, M. T. Drott, T. A. Rush, P. E. Abraham, R. J. Giannone, N. P. Keller and B. E. Wolfe | LaeA-Regulated Fungal Traits Mediate Bacterial Community Assembly | mBio | 14(3) e00769-23 |
| 2023 | 10.1016/j.ymben.2023.06.010 | Fatma, Z., S.-I. Tan, A. G. Boob and H. Zhao | A landing pad system for multicopy gene integration in Issatchenkia orientalis | Metabolic Engineering | 78 200–08 |
| 2023 | 10.3389/fmicb.2023.1095191 | Trotter, V. V., M. Shatsky, M. N. Price, T. R. Juba, G. M. Zane, et al. | Large-scale genetic characterization of the model sulfate-reducing bacterium, Desulfovibrio vulgaris Hildenborough | Frontiers in Microbiology | 14 |
| 2023 | 10.1038/s41467-023-37897-9 | Hasnain, A., S. Balakrishnan, D. M. Joshy, J. Smith, S. B. Haase and E. Yeung | Learning perturbation-inducible cell states from observability analysis of transcriptome dynamics | Nature Communications | 14(1) 3148 |
| 2023 | 10.3390/cells12071082 | Shrestha, H., T. Yao, Z. Qiao, W. Muchero, R. L. Hettich, J.-G. Chen and P. E. Abraham | Lectin Receptor-like Kinase Signaling during Engineered Ectomycorrhiza Colonization | Cells | 12(7) 1082 |
| 2023 | 10.1186/s40793-023-00462-4 | King, W. L., S. C. Richards, L. M. Kaminsky, B. A. Bradley, J. P. Kaye and T. H. Bell | Leveraging microbiome rediversification for the ecological rescue of soil function | Environmental Microbiome | 18(1) 7 |
| 2023 | 10.3389/fbioe.2023.991784 | Wang, Q., H. Kim, T. M. Halvorsen, S. Chen, C. S. Hayes and C. R. Buie | Leveraging microfluidic dielectrophoresis to distinguish compositional variations of lipopolysaccharide in E. coli | Frontiers in Bioengineering and Biotechnology | 11 |
| 2023 | 10.1093/femsec/fiad151 | Touchette, D., C. Gostinčar, L. G. Whyte and I. Altshuler | Lichen-associated microbial members are prevalent in the snow microbiome of a sub-arctic alpine tundra | FEMS Microbiology Ecology | 99(12) fiad151 |
| 2023 | 10.1038/s41396-022-01354-0 | Stone, B. W. G., P. Dijkstra, B. K. Finley, R. Fitzpatrick, M. M. Foley, et al. | Life history strategies among soil bacteria—dichotomy for few, continuum for many | The ISME Journal | 17(4) 611–9 |
| 2023 | 10.1126/sciadv.adj0053 | Werner, A. Z., W. T. Cordell, C. W. Lahive, B. C. Klein, C. A. Singer, E. C. D. Tan, M. A. Ingraham, K. J. Ramirez, D. H. Kim, J. N. Pedersen, C. W. Johnson, B. F. Pfleger, G. T. Beckham and D. Salvachúa | Lignin conversion to β-ketoadipic acid by Pseudomonas putida via metabolic engineering and bioprocess development | Science Advances | 9(36) eadj0053 |
| 2023 | 10.1038/s41564-023-01336-8 | Lankiewicz, T. S., H. Choudhary, Y. Gao, B. Amer, S. P. Lillington, et al. | Lignin deconstruction by anaerobic fungi | Nature Microbiology | 8(4) 596–610 |
| 2023 | 10.1111/gcbb.13074 | Pagliaro, Z., J. Burke, E. Morrissey, J. Ridgeway, V. Singh, F. Altpeter and E. R. Brzostek | Lipid-enhanced Oilcane does not impact soil carbon dynamics compared with wild-type Sugarcane | GCB Bioenergy | 15(8) 969–78 |
| 2023 | 10.1016/j.envres.2023.116421 | Schreiber, L., B. Hunnie, I. Altshuler, E. Góngora, M. Ellis, C. Maynard, J. Tremblay, J. Wasserscheid, N. Fortin, K. Lee, G. Stern and C. W. Greer | Long-term biodegradation of crude oil in high-arctic backshore sediments: The Baffin Island Oil Spill (BIOS) after nearly four decades | Environmental Research | 233 116421 |
| 2023 | 10.1145/3592979.3593402 | Cashman, M., V. G. M. Vergara, J. Lagergren, M. Lane, J. Merlet, M. Atkinson, J. Streich, C. Bradburne, R. Plowright, W. Joubert and D. Jacobson | Longitudinal Effects on Plant Species Involved in Agriculture and Pandemic Emergence Undergoing Changes in Abiotic Stress | Proceedings of the Platform for Advanced Scientific Computing Conference | 1–10 |
| 2023 | 10.1016/j.biortech.2022.128528 | Huntington, T., N. R. Baral, M. Yang, E. Sundstrom and C. D. Scown | Machine learning for surrogate process models of bioproduction pathways | Bioresource Technology | 370 128528 |
| 2023 | 10.1016/j.ab.2023.115169 | Choe, K., M. A. Jindra, S. C. Hubbard, B. F. Pfleger and J. V. Sweedler | MALDI-MS screening of microbial colonies with isomer resolution to select fatty acid desaturase variants | Analytical Biochemistry | 672 115169 |
| 2023 | 10.1016/j.scitotenv.2022.158863 | Loiola, M., A. E. T. Silva, M. Krull, F. A. Barbosa, E. H. Galvão, V. F. Patire, I. C. S. Cruz, F. Barros, V. Hatje and P. M. Meirelles | Mangrove microbial community recovery and their role in early stages of forest recolonization within shrimp ponds | Science of The Total Environment | 855 158863 |
| 2023 | 10.3390/md21010034 | Almeida, J. F., M. Marques, V. Oliveira, C. Egas, D. Mil-Homens, R. Viana, D. F. R. Cleary, Y. M. Huang, A. M. Fialho, M. C. Teixeira, N. C. M. Gomes, R. Costa and T. Keller-Costa | Marine Sponge and Octocoral-Associated Bacteria Show Versatile Secondary Metabolite Biosynthesis Potential and Antimicrobial Activities against Human Pathogens | Marine Drugs | 21(1) 34 |
| 2023 | 10.1016/j.jbc.2023.102939 | de Raad, M., K. Koper, K. Deng, B. P. Bowen, H. A. Maeda and T. R. Northen | Mass spectrometry imaging-based assays for aminotransferase activity reveal a broad substrate spectrum for a previously uncharacterized enzyme | Journal of Biological Chemistry | 299(3) |
| 2023 | 10.1021/acs.analchem.2c04845 | Zhou, S., Z. Fatma, P. Xue, S. Mishra, M. Cao, H. Zhao and J. V. Sweedler | Mass Spectrometry-Based High-Throughput Quantification of Bioproducts in Liquid Culture | Analytical Chemistry | 95(8) 4067–76 |
| 2023 | 10.1016/j.celrep.2023.113087 | Eng, T., D. Banerjee, J. Menasalvas, Y. Chen, J. Gin, et al. | Maximizing microbial bioproduction from sustainable carbon sources using iterative systems engineering | Cell Reports | 42(9) 113087 |
| 2023 | 10.3390/metabo13020140 | Dahal, S., G. B. Hurst, K. Chourey, N. L. Engle, L. H. Burdick, J. L. Morrell-Falvey, T. J. Tschaplinski, M. J. Doktycz and D. A. Pelletier | Mechanism for Utilization of the Populus-Derived Metabolite Salicin by a Pseudomonas—Rahnella Co-Culture | Metabolites | 13(2) 140 |
| 2023 | 10.1186/s12934-023-02223-x | Jilani, S. B. and D. G. Olson | Mechanism of furfural toxicity and metabolic strategies to engineer tolerance in microbial strains | Microbial Cell Factories | 22(1) 221 |
| 2023 | 10.1038/s41929-022-00899-9 | Bloomer, B. J., S. N. Natoli, M. Garcia-Borràs, J. H. Pereira, D. B. Hu, P. D. Adams, K. N. Houk, D. S. Clark and J. F. Hartwig | Mechanistic and structural characterization of an iridium-containing cytochrome reveals kinetically relevant cofactor dynamics | Nature Catalysis | 6(1) 39–51 |
| 2023 | 10.1098/rsfs.2022.0070 | Borer, B. and S. Magnúsdóttir | The media composition as a crucial element in high-throughput metabolic network reconstruction | Interface Focus | 13(2) 20220070 |
| 2023 | 10.1016/j.virusres.2023.199121 | Buivydaitė, Ž., L. Aryal, F. B. Corrêa, T. Chen, V. Langlois, et al. | Meeting report: The first soil viral workshop 2022 | Virus Research | 331 199121 |
| 2023 | 10.1016/j.xplc.2022.100512 | Di, X., D. Ortega-Alarcon, R. Kakumanu, J. Iglesias-Fernandez, L. Diaz, E. E. K. Baidoo, A. Velazquez-Campoy, M. Rodríguez-Concepción and J. Perez-Gil | MEP pathway products allosterically promote monomerization of deoxy-D-xylulose-5-phosphate synthase to feedback-regulate their supply | Plant Communications | 4(3) 100512 |
| 2023 | Alexander, W. and D. Olson | Metabolic Engineering for Fuels and Chemicals I (commodity chemicals) | Society for Industrial Microbiology and Biotechnology Annual Meeting | ||
| 2023 | 10.1016/j.mec.2023.e00220 | Wu, Z.-Y., W. Sun, Y. Shen, J. Pratas, P. F. Suthers, P.-H. Hsieh, S. Dwaraknath, J. D. Rabinowitz, C. D. Maranas, Z. Shao and Y. Yoshikuni | Metabolic engineering of low-pH-tolerant non-model yeast, Issatchenkia orientalis, for production of citramalate | Metabolic Engineering Communications | 16 e00220 |
| 2023 | 10.1111/pbi.13935 | Mottiar, Y., S. D. Karlen, R. E. Goacher, J. Ralph and S. D. Mansfield | Metabolic engineering of p-hydroxybenzoate in poplar lignin | Plant Biotechnology Journal | 21(1) 176–88 |
| 2023 | 10.1021/acs.chemrev.2c00403 | Volk, M. J., V. G. Tran, S.-I. Tan, S. Mishra, Z. Fatma, A. Boob, H. Li, P. Xue, T. A. Martin and H. Zhao | Metabolic Engineering: Methodologies and Applications | Chemical Reviews | 123(9) 5521–70 |
| 2023 | 10.3389/fmicb.2023.1216591 | Balbay, M. G., M. D. Shlafstein, C. Cockell, S. L. Cady, R. D. Prescott, D. S. S. Lim, P. S. G. Chain, S. P. Donachie, A. W. Decho and J. H. Saw | Metabolic versatility of Caldarchaeales from geothermal features of Hawai’i and Chile as revealed by five metagenome-assembled genomes | Frontiers in Microbiology | 14 |
| 2023 | 10.1038/s41596-022-00747-x | Chivian, D., S. P. Jungbluth, P. S. Dehal, E. M. Wood-Charlson, R. S. Canon, et al. | Metagenome-assembled genome extraction and analysis from microbiomes using KBase | Nature Protocols | 18(1) 208–38 |
| 2023 | 10.1099/mgen.0.001131 | Hay, M. C., A. C. Mitchell, A. R. Soares, A. R. Debbonaire, D. C. Mogrovejo, N. Els and A. Edwards | Metagenome-assembled genomes from High Arctic glaciers highlight the vulnerability of glacier-associated microbiota and their activities to habitat loss | Microbial Genomics | 9(11) |
| 2023 | 10.1128/mra.01162-22 | Rastegar, K., S. T. Kelley and V. G. Thackray | Metagenome-Assembled Genomes from Murine Fecal Microbiomes Dominated by Uncharacterized Bacteria | Microbiology Resource Announcements | 12(3) e01162-22 |
| 2023 | 10.1128/mra.00210-23 | Barnes, S. J., R. C. Althouse, B. F. Costa, B. Hu, M. Kovalev, et al. | Metagenome-Assembled Genomes from Photo-Oxidized and Nonoxidized Oil-Degrading Marine Microcosms | Microbiology Resource Announcements | 12(6) e00210-23 |
| 2023 | 10.1128/mra.01098-22 | Akpudo, Y. M., O. K. Bezuidt and T. P. Makhalanyane | Metagenome-Assembled Genomes of Four Southern Ocean Archaea Harbor Multiple Genes Linked to Polyethylene Terephthalate and Polyhydroxybutyrate Plastic Degradation | Microbiology Resource Announcements | 12(3) e01098-22 |
| 2023 | 10.3390/foods12183342 | Yasir, M., A. A. Alkhaldy, S. A. Soliman, S. A. Turkistani and E. I. Azhar | Metagenomic Insights into the Microbiome and Resistance Genes of Traditional Fermented Foods in Arabia | Foods | 12(18) 3342 |
| 2023 | 10.1016/j.fbio.2023.103277 | Tamang, J. P., P. Kharnaior, M. Das, S. Ek and N. Thapa | Metagenomics and metagenome-assembled genomes analysis of sieng, an ethnic fermented soybean food of Cambodia | Food Bioscience | 56 103277 |
| 2023 | 10.1016/j.onehlt.2023.100538 | Quero, S., M. Serras-Pujol, N. Párraga-Niño, C. Torres, M. Navarro, et al. | Methicillin-resistant and methicillin-sensitive Staphylococcus aureus in pork industry workers, Catalonia, Spain | One Health | 16 100538 |
| 2023 | 10.1186/s13068-023-02301-7 | Carruthers, D. N., J. Kim, D. Mendez-Perez, E. Monroe, N. Myllenbeck, Y. Liu, R. W. Davis, E. Sundstrom and T. S. Lee | Microbial production of high octane and high sensitivity olefinic ester biofuels | Biotechnology for Biofuels and Bioproducts | 16(1) 60 |
| 2023 | 10.1111/gcb.16614 | AminiTabrizi, R., N. Graf-Grachet, R. K. Chu, J. G. Toyoda, D. W. Hoyt, R. Hamdan, R. M. Wilson and M. M. Tfaily | Microbial sensitivity to temperature and sulfate deposition modulates greenhouse gas emissions from peat soils | Global Change Biology | 29(7) 1951–70 |
| 2023 | 10.1016/j.ijfoodmicro.2023.110417 | Kharnaior, P. and J. P. Tamang | Microbiome and metabolome in home-made fermented soybean foods of India revealed by metagenome-assembled genomes and metabolomics | International Journal of Food Microbiology | 407 110417 |
| 2023 | 10.1186/s13068-023-02302-6 | Yang, J., T. Sooksa-nguan, B. Kannan, S. Cano-Alfanar, H. Liu, A. Kent, J. Shanklin, F. Altpeter and A. Howe | Microbiome differences in sugarcane and metabolically engineered oilcane accessions and their implications for bioenergy production | Biotechnology for Biofuels and Bioproducts | 16(1) 56 |
| 2023 | 10.1016/j.mib.2022.102263 | Shade, A. | Microbiome rescue: directing resilience of environmental microbial communities | Current Opinion in Microbiology | 72 102263 |
| 2023 | 10.1007/978-1-0716-2639-9_4 | Kim, S.-J. and F. Brandizzi | Microscopy and Immunocytochemistry-Based Methods to Study Cell Wall Biosynthetic Enzymes in the Golgi | Golgi: Methods and Protocols | 2557 39–51 |
| 2023 | 10.1016/j.tibtech.2023.05.002 | Cordell, W. T., G. Avolio, R. Takors and B. F. Pfleger | Milligrams to kilograms: making microbes work at scale | Trends in Biotechnology | 41(11) 1442–57 |
| 2023 | 10.1038/s41396-022-01351-3 | Goff, J. L., Y. Chen, M. P. Thorgersen, L. T. Hoang, F. L. Poole, E. G. Szink, G. Siuzdak, C. J. Petzold and M. W. W. Adams | Mixed heavy metal stress induces global iron starvation response | The ISME Journal | 17(3) 382–92 |
| 2023 | 10.1016/j.envpol.2023.122674 | Thorgersen, M. P., J. L. Goff, F. L. Poole, K. F. Walker, A. D. Putt, L. M. Lui, T. C. Hazen, A. P. Arkin and M. W. W. Adams | Mixed nitrate and metal contamination influences operational speciation of toxic and essential elements | Environmental Pollution | 338 122674 |
| 2023 | Schroeder, W., D. Olson, L. R. Lynd and C. D. Maranas | Modeling Cocultures of Clostridium Thermocellum and Thermoanaerobacterium Saccharolyticum for Lignocellulosic Ethanol Production | AIChE Annual Meeting | ||
| 2023 | 10.1016/j.isci.2023.108400 | Chowdhury, N. B., M. Simons-Senftle, B. Decouard, I. Quillere, M. Rigault, K. A. Sajeevan, B. Acharya, R. Chowdhury, B. Hirel, A. Dellagi, C. Maranas and R. Saha | A multi-organ maize metabolic model connects temperature stress with energy production and reducing power generation | iScience | 26(12) 108400 |
| 2023 | 10.1038/s41589-023-01269-7 | Adler, B. A., K. Chamakura, H. Carion, J. Krog, A. M. Deutschbauer, R. Young, V. K. Mutalik and A. P. Arkin | Multicopy suppressor screens reveal convergent evolution of single-gene lysis proteins | Nature Chemical Biology | 19(6) 759–66 |
| 2023 | 10.1089/crispr.2022.0096 | Chen, Y.-H., S. Sharma, W. P. Bewg, L.-J. Xue, C. R. Gizelbach and C.-J. Tsai | Multiplex Editing of the Nucleoredoxin1 Tandem Array in Poplar: From Small Indels to Translocations and Complex Inversions | The CRISPR Journal | 6(4) 339–49 |
| 2023 | 10.1016/j.celrep.2023.112847 | Bleem, A., R. Kato, Z. A. Kellermyer, R. Katahira, M. Miyamoto, K. Niinuma, N. Kamimura, E. Masai and G. T. Beckham | Multiplexed fitness profiling by RB-TnSeq elucidates pathways for lignin-related aromatic catabolism in Sphingobium sp. SYK-6 | Cell Reports | 42(8) 112847 |
| 2023 | 10.1038/s41598-022-25372-2 | Mohan, M., B. A. Simmons, K. L. Sale and S. Singh | Multiscale molecular simulations for the solvation of lignin in ionic liquids | Scientific Reports | 13(1) 271 |
| 2023 | 10.1128/MRA.00426-23 | Jagtap, S. S., J.-J. Liu, H. E. Walukiewicz, J. Pangilinan, A. Lipzen, et al. | Near-complete genome sequence of Lipomyces tetrasporous NRRL Y-64009, an oleaginous yeast capable of growing on lignocellulosic hydrolysates | Microbiology Resource Announcements | 12(11) e00426-23 |
| 2023 | 10.3390/pathogens12091185 | Tamayo-Ordóñez, M. C., N. M. Rosas-García, B. A. Ayil-Gutiérrez, J. M. Bello-López, F. A. Tamayo-Ordóñez, F. Anguebes-Franseschi, S. Damas-Damas and Y. d. J. Tamayo-Ordóñez | Non-Structural Proteins (Nsp): A Marker for Detection of Human Coronavirus Families | Pathogens | 12(9) 1185 |
| 2023 | 10.3389/fpls.2023.1153113 | Bryant, N., J. Zhang, K. Feng, M. Shu, R. Ployet, J.-G. Chen, W. Muchero, C. G. Yoo, T. J. Tschaplinski, Y. Pu and A. J. Ragauskas | Novel candidate genes for lignin structure identified through genome-wide association study of naturally varying Populus trichocarpa | Frontiers in Plant Science | 14 |
| 2023 | 10.1186/s13068-023-02400-5 | Patel, M. H., S.-Y. Lu, S. Liu and C. D. Skory | Novel endolysin LysMP for control of Limosilactobacillus fermentum contamination in small-scale corn mash fermentation | Biotechnology for Biofuels and Bioproducts | 16(1) 144 |
| 2023 | 10.1038/s41396-023-01528-4 | Michalik, A., E. Bauer, T. Szklarzewicz and M. Kaltenpoth | Nutrient supplementation by genome-eroded Burkholderia symbionts of scale insects | The ISME Journal | 17(12) 2221–31 |
| 2023 | 10.1007/s00442-023-05322-z | Stone, B. W., S. J. Blazewicz, B. J. Koch, P. Dijkstra, M. Hayer, K. S. Hofmockel, X. J. A. Liu, R. L. Mau, J. Pett-Ridge, E. Schwartz and B. A. Hungate | Nutrients strengthen density dependence of per-capita growth and mortality rates in the soil bacterial community | Oecologia | 201(3) 771–82 |
| 2023 | 10.1093/plphys/kiad377 | Zhang, J., X. Wang, H.-T. Wang, Z. Qiao, T. Yao, et al. | Overexpression of REDUCED WALL ACETYLATION C increases xylan acetylation and biomass recalcitrance in Populus | Plant Physiology | 194(1) 243–57 |
| 2023 | 10.1128/aem.01097-23 | Peoples, L. M., J. E. Dore, E. M. Bilbrey, T. J. Vick-Majors, J. R. Ranieri, K. A. Evans, A. M. Ross, S. P. Devlin and M. J. Church | Oxic methane production from methylphosphonate in a large oligotrophic lake: limitation by substrate and organic carbon supply | Applied and Environmental Microbiology | 89(12) e01097-23 |
| 2023 | 10.1111/1462-2920.16387 | McGuire, P. M., N. Butkevich, A. V. Saksena, M. T. Walter, J. P. Shapleigh and M. C. Reid | Oxic–anoxic cycling promotes coupling between complex carbon metabolism and denitrification in woodchip bioreactors | Environmental Microbiology | 25(9) 1696–712 |
| 2023 | 10.1039/D2IM00059H | Han, Y., B. A. Simmons and S. Singh | Perspective on oligomeric products from lignin depolymerization: their generation, identification, and further valorization | Industrial Chemistry & Materials | 1(2) 207–23 |
| 2023 | 10.1016/j.copbio.2022.102881 | Martin, H. G., T. Radivojevic, J. Zucker, K. Bouchard, J. Sustarich, et al. | Perspectives for self-driving labs in synthetic biology | Current Opinion in Biotechnology | 79 102881 |
| 2023 | 10.1039/D2SU00066K | Banerjee, D. and A. Mukhopadhyay | Perspectives in growth production trade-off in microbial bioproduction | RSC Sustainability | 1(2) 224–33 |
| 2023 | 10.1128/spectrum.00373-23 | Pearson, A. N., M. G. Thompson, L. D. Kirkpatrick, C. Ho, K. M. Vuu, L. M. Waldburger, J. D. Keasling and P. M. Shih | The pGinger Family of Expression Plasmids | Microbiology Spectrum | 11(3) e00373-23 |
| 2023 | 10.3390/jof9030371 | Hirakawa, M. P., A. Rodriguez, M. B. Tran-Gyamfi, Y. K. Light, S. Martinez, H. Diamond-Pott, B. A. Simmons and K. L. Sale | Phenothiazines Rapidly Induce Laccase Expression and Lignin-Degrading Properties in the White-Rot Fungus Phlebia radiata | Journal of Fungi | 9(3) 371 |
| 2023 | 10.1126/sciadv.adg8687 | Hackmann, T. J. and B. Zhang | The phenotype and genotype of fermentative prokaryotes | Science Advances | 9(39) eadg8687 |
| 2023 | 10.1016/j.aquaculture.2023.739933 | Saticioglu, I. B., E. E. Onuk, H. Ay, N. Ajmi, E. Demirbas and S. Altun | Phenotypic and molecular differentiation of Lactococcus garvieae and Lactococcus petauri isolated from trout | Aquaculture | 577 739933 |
| 2023 | 10.1038/s41929-023-00994-5 | Zhang, Z., J. Feng, C. Yang, H. Cui, W. Harrison, D. Zhong, B. Wang and H. Zhao | Photoenzymatic enantioselective intermolecular radical hydroamination | Nature Catalysis | 6(8) 687–94 |
| 2023 | 10.1094/Pbiomes-08-22-0046-Fi | Mechan-Llontop, M. E., J. Mullet and A. Shade | Phyllosphere Exudates Select for Distinct Microbiome Members in Sorghum Epicuticular Wax and Aerial Root Mucilage | Phytobiomes Journal | 7(2) 184–97 |
| 2023 | 10.1093/pcp/pcad106 | Sah, S. K., J. Fan, J. Blanford, J. Shanklin and C. Xu | Physiological Functions of Phospholipid:Diacylglycerol Acyltransferases | Plant and Cell Physiology | pcad106 |
| 2023 | 10.1371/journal.pbio.3002292 | Murali, R., H. Yu, D. R. Speth, F. Wu, K. S. Metcalfe, A. Crémière, R. Laso-Pèrez, R. R. Malmstrom, D. Goudeau, T. Woyke, R. Hatzenpichler, G. L. Chadwick, S. A. Connon and V. J. Orphan | Physiological potential and evolutionary trajectories of syntrophic sulfate-reducing bacterial partners of anaerobic methanotrophic archaea | PLOS Biology | 21(9) e3002292 |
| 2023 | 10.1039/d2np00077f | Sirirungruang, S., C. R. Barnum, S. N. Tang and P. M. Shih | Plant glycosyltransferases for expanding bioactive glycoside diversity | Natural Product Reports | 40(7) 1170–80 |
| 2023 | 10.1016/j.cub.2023.06.057 | O’Banion, B. S., P. Jones, A. A. Demetros, B. R. Kelley, L. H. Knoor, A. S. Wagner, J.-G. Chen, W. Muchero, T. B. Reynolds, D. Jacobson and S. L. Lebeis | Plant myo-inositol transport influences bacterial colonization phenotypes | Current Biology | 33(15) 3111-3124.e5 |
| 2023 | 10.34133/bdr.0013 | Brooks, E. G., E. Elorriaga, Y. Liu, J. R. Duduit, G. Yuan, C.-J. Tsai, G. A. Tuskan, T. G. Ranney, X. Yang and W. Liu | Plant Promoters and Terminators for High-Precision Bioengineering | BioDesign Research | 5 0013 |
| 2023 | 10.1016/j.tree.2023.03.001 | de Vries, F., J. Lau, C. Hawkes and M. Semchenko | Plant-soil feedback under drought: does history shape the future? | Trends in Ecology & Evolution | 38(8) 708–18 |
| 2023 | 10.1039/D3VA00091E | Rodge, S. P., M. J. Dhanavade, S. C. Kajale and N. P. Patil | A polyhydroxyalkanoate synthesised by halophilic archaeon Natrialba swarupiae | Environmental Science: Advances | 2(7) 990–1000 |
| 2023 | Sebesta, J., M. Cantrell, E. Schaedig, H. Hou, C. Pastore, K. Chou, W. Xiong, M. Guarnieri and J. Yu | Polyphosphate kinase deletion in Synechocystis sp. PCC6803 increases productivity in controlled conditions but decreases tolerance to a variety of stress conditions | Gorden Conference Photosynthesis | ||
| 2023 | 10.1039/D2GC03446H | Cheng, F., S. Liu, S. D. Karlen, H. Kim, F. Lu, J. Ralph, L. M. Vázquez Ramos, G. W. Huber and J. A. Dumesic | Poplar lignin structural changes during extraction in γ-valerolactone (GVL) | Green Chemistry | 25(1) 336–47 |
| 2023 | 10.1007/s00438-022-01987-y | Srivastava, S., S. Bombaywala, S. J. Jakhesara, N. V. Patil, C. G. Joshi, H. J. Purohit and N. A. Dafale | Potential of camel rumen derived Bacillus subtilis and Bacillus velezensis strains for application in plant biomass hydrolysis | Molecular Genetics and Genomics | 298(2) 361–74 |
| 2023 | 10.1063/5.0147052 | Mohan, M., M. D. Smith, O. Demerdash, M. K. Kidder and J. C. Smith | Predictive understanding of the surface tension and velocity of sound in ionic liquids using machine learning | The Journal of Chemical Physics | 158(21) 214502 |
| 2023 | Hou, H. J. M., J. Sebesta, C. Pastore and J. Yu | Probing CO2 uptake of genetically engineered microalgae using MIMS | The 2023 Alabama State University STEM Research Symposium | ||
| 2023 | 10.1016/j.biortech.2023.129104 | Cheng, M.-H., S. Singh, A. N. Carr Clennon, B. S. Dien and V. Singh | Production of Designer Xylose-Acetic Acid Enriched Hydrolysate from Bioenergy Sorghum, Oilcane, and Energycane Bagasses | Bioresource Technology | 380 129104 |
| 2023 | 10.1007/10_2022_213 | Sattayawat, P., I. S. Yunus and P. R. Jones | Production of Fatty Acids and Derivatives Using Cyanobacteria | Cyanobacteria in Biotechnology | 183 145–69 |
| 2023 | 10.1093/nar/gkad484 | Chlebek, J. L., S. P. Leonard, C. Kang-Yun, M. C. Yung, D. P. Ricci, Y. Jiao and D. M. Park | Prolonging genetic circuit stability through adaptive evolution of overlapping genes | Nucleic Acids Research | 51(13) 7094–108 |
| 2023 | 10.1093/jxb/erad267 | Liu, X., D. P. Wickland, Z. Lin, Q. Liu, L. B. Dos Santos, K. A. Hudson and M. E. Hudson | Promoter deletion in the soybean Compact mutant leads to overexpression of a gene with homology to the C20-gibberellin 2-oxidase family | Journal of Experimental Botany | 74(17) 5153–65 |
| 2023 | 10.1016/j.engmic.2023.100074 | Wei, H., W. Wang, Y.-C. Chou, M. E. Himmel, X. Chen, Y. J. Bomble and M. Zhang | Prospects for engineering Ralstonia eutropha and Zymomonas mobilis for the autotrophic production of 2,3-butanediol from CO2 and H2 | Engineering Microbiology | 3(2) 100074 |
| 2023 | 10.1021/acssuschemeng.3c00115 | Kenny, J. K., J. W. Medlin and G. T. Beckham | Quantification of Phenolic Hydroxyl Groups in Lignin via 19F NMR Spectroscopy | ACS Sustainable Chemistry & Engineering | 11(14) 5644–55 |
| 2023 | 10.1038/s41467-022-35677-5 | Ascensao, J. A., K. M. Wetmore, B. H. Good, A. P. Arkin and O. Hallatschek | Quantifying the local adaptive landscape of a nascent bacterial community | Nature Communications | 14(1) 248 |
| 2023 | 10.1093/erae/jbad036 | Lee, Y., M. Khanna, L. Chen, R. Shi, J. Guest, E. Blanc-Betes, C. Jiang, K. Guan, T. Hudiburg and E. H. De Lucia | Quantifying uncertainties in greenhouse gas savings and abatement costs with cellulosic biofuels | European Review of Agricultural Economics | 50(5) 1659–84 |
| 2023 | 10.1002/cbic.202300357 | Takasuka, T. E., H. Kim, K. Deng, C. M. Bianchetti, K. Yamashita, E. T. Beebe, L. F. Bergeman, K. A. Vander Meulen, S. Deutsch, J. Ralph, P. D. Adams, T. R. Northen and B. G. Fox | Quantitative Analysis of The High-Yield Hydrolysis of Kelp by Laminarinase and Alginate Lyase | ChemBioChem | 24(20) e202300357 |
| 2023 | 10.1093/nar/gkad736 | Noshay, Jaclyn M., T. Walker, William G. Alexander, Dawn M. Klingeman, J. Romero, Angelica M. Walker, E. Prates, C. Eckert, S. Irle, D. Kainer and Daniel A. Jacobson | Quantum biological insights into CRISPR-Cas9 sgRNA efficiency from explainable-AI driven feature engineering | Nucleic Acids Research | 51(19) 10147–61 |
| 2023 | 10.1021/acssuschemeng.3c00624 | Mohan, M., M. D. Smith, O. N. Demerdash, B. A. Simmons, S. Singh, M. K. Kidder and J. C. Smith | Quantum Chemistry-Driven Machine Learning Approach for the Prediction of the Surface Tension and Speed of Sound in Ionic Liquids | ACS Sustainable Chemistry & Engineering | 11(20) 7809–21 |
| 2023 | 10.1002/ijch.202200083 | Stephens, K. and W. E. Bentley | Quorum Sensing from Two Engineers' Perspectives | Israel Journal of Chemistry | 63(45418) e202200083 |
| 2023 | 10.1186/s13007-023-01022-0 | Lee, J. H., L. H. Burdick, B. Piatkowski, A. A. Carrell, M. J. Doktycz, D. A. Pelletier and D. J. Weston | A rapid assay for assessing bacterial effects on Arabidopsis thermotolerance | Plant Methods | 19(1) 63 |
| 2023 | 10.1007/s11104-023-05988-7 | Andrews, H. B., M. Z. Martin, A. M. Wymore and U. C. Kalluri | Rapid in situ nutrient element distribution in plants and soils using laser-induced breakdown spectroscopy (LIBS) | Plant and Soil | |
| 2023 | 10.1016/j.ab.2022.114997 | Deng, K., X. Wang, N. Ing, P. Opgenorth, M. de Raad, J. Kim, B. A. Simmons, P. D. Adams, A. K. Singh, T. S. Lee and T. R. Northen | Rapid quantification of alcohol production in microorganisms based on nanostructure-initiator mass spectrometry (NIMS) | Analytical Biochemistry | 662 114997 |
| 2023 | 10.1186/s40168-022-01427-4 | Couvillion, S. P., R. E. Danczak, D. Naylor, M. L. Smith, K. G. Stratton, et al. | Rapid remodeling of the soil lipidome in response to a drying-rewetting event | Microbiome | 11(1) 34 |
| 2023 | 10.1186/s13068-023-02287-2 | Harman-Ware, A. E., M. Z. Martin, N. L. Engle, C. Doeppke and T. J. Tschaplinski | Rapid screening of secondary aromatic metabolites in Populus trichocarpa leaves | Biotechnology for Biofuels and Bioproducts | 16(1) 41 |
| 2023 | 10.1128/mbio.02622-23 | Garber, M. E., V. Frank, A. E. Kazakov, M. R. Incha, A. A. Nava, H. Zhang, L. E. Valencia, J. D. Keasling, L. Rajeev and A. Mukhopadhyay | REC protein family expansion by the emergence of a new signaling pathway | mBio | 14(6) e02622-23 |
| 2023 | 10.1039/D3GC00271C | Li, R., Y. Zheng, X. Zhao, Q. Yong, X. Meng, A. Ragauskas and C. Huang | Recent advances in biomass pretreatment using biphasic solvent systems | Green Chemistry | 25(7) 2505–23 |
| 2023 | 10.1016/j.copbio.2023.102913 | Pfleger, B. F. and R. Takors | Recent progress in the synthesis of advanced biofuel and bioproducts | Current Opinion in Biotechnology | 80 102913 |
| 2023 | US11629356B2 | Xie, M., W. Muchero, J.-G. Chen and G. A. Tuskan | Regulating lignin biosynthesis and sugar release in plants | United States Patent | UT Battelle LLC |
| 2023 | 10.1038/s41557-023-01368-x | Li, M., W. Harrison, Z. Zhang, Y. Yuan and H. Zhao | Remote stereocontrol with azaarenes via enzymatic hydrogen atom transfer | Nature Chemistry | |
| 2023 | 10.3389/fmicb.2022.1046661 | McClure, R., M. Garcia, S. Couvillion, Y. Farris and K. S. Hofmockel | Removal of primary nutrient degraders reduces growth of soil microbial communities with genomic redundancy | Frontiers in Microbiology | 13 |
| 2023 | 10.1002/anie.202212440 | Zhou, Y., E. N. Mirts, S. Yook, M. Waugh, R. Martini, Y.-S. Jin and Y. Lu | Reshaping the 2-Pyrone Synthase Active Site for Chemoselective Biosynthesis of Polyketides | Angewandte Chemie International Edition | 62(5) e202212440 |
| 2023 | 10.1111/1462-2920.16296 | Park, M.-R., R. Gauttam, B. Fong, Y. Chen, H. G. Lim, A. M. Feist, A. Mukhopadhyay, C. J. Petzold, B. A. Simmons and S. W. Singer | Revealing oxidative pentose metabolism in new Pseudomonas putida isolates | Environmental Microbiology | 25(2) 493–504 |
| 2023 | 10.1007/s10482-022-01801-0 | Sreya, P., G. Suresh, A. Rai, B. Ria, L. Vighnesh, V. C. Agre, U. Jagadeeshwari, C. Sasikala and C. V. Ramana | Revisiting the taxonomy of the genus Rhodopirellula with the proposal for reclassification of the genus to Rhodopirellula sensu stricto, Aporhodopirellula gen. nov., Allorhodopirellula gen. nov. and Neorhodopirellula gen. nov | Antonie van Leeuwenhoek | 116(3) 243–64 |
| 2023 | 10.1093/synbio/ysad007 | Dinglasan, J. L. N. and M. J. Doktycz | Rewiring cell-free metabolic flux in E. coli lysates using a block—push—pull approach | Synthetic Biology | 8(1) ysad007 |
| 2023 | 10.1016/j.biortech.2023.129263 | Seo, H., P. Singh, C. E. Wyman, C. M. Cai and C. T. Trinh | Rewiring metabolism of Clostridium thermocellum for consolidated bioprocessing of lignocellulosic biomass poplar to produce short-chain esters | Bioresource Technology | 384 129263 |
| 2023 | 10.1016/j.cej.2022.138886 | Lee, J. W., S. S. Bhagwat, N. Kuanyshev, Y. B. Cho, L. Sun, Y.-G. Lee, Y. R. Cortés-Peña, Y. Li, C. V. Rao, J. S. Guest and Y.-S. Jin | Rewiring yeast metabolism for producing 2,3-butanediol and two downstream applications: Techno-economic analysis and life cycle assessment of methyl ethyl ketone (MEK) and agricultural biostimulant production | Chemical Engineering Journal | 451 138886 |
| 2023 | 10.1016/j.biombioe.2023.106898 | Yang, B., P. Yang, E. Golub and X. Cai | The role of social support on midwestern farmers’ willingness to grow perennial bioenergy crops | Biomass and Bioenergy | 175 106898 |
| 2023 | 10.1128/aem.01753-22 | Yayo, J., T. Rydzak, T. Kuil, A. Karlsson, D. J. Harding, A. M. Guss and A. J. A. v. Maris | The Roles of Nicotinamide Adenine Dinucleotide Phosphate Reoxidation and Ammonium Assimilation in the Secretion of Amino Acids as Byproducts of Clostridium thermocellum | Applied and Environmental Microbiology | 89(1) e01753-22 |
| 2023 | 10.1007/s11104-023-06301-2 | Lynch, J. P., T. Galindo-Castañeda, H. M. Schneider, J. S. Sidhu, H. Rangarajan and L. M. York | Root phenotypes for improved nitrogen capture | Plant and Soil | |
| 2023 | 10.1038/s41467-023-36515-y | Howe, A., N. Stopnisek, S. K. Dooley, F. Yang, K. L. Grady and A. Shade | Seasonal activities of the phyllosphere microbiome of perennial crops | Nature Communications | 14(1) 1039 |
| 2023 | 10.3389/fpls.2022.1023571 | Tejera-Nieves, M., M. Abraha, J. Chen, S. K. Hamilton, G. P. Robertson and B. J. Walker | Seasonal decline in leaf photosynthesis in perennial switchgrass explained by sink limitations and water deficit | Frontiers in Plant Science | 13 |
| 2023 | 10.1016/j.scitotenv.2022.159496 | Semedo, M. and B. Song | Sediment metagenomics reveals the impacts of poultry industry wastewater on antibiotic resistance and nitrogen cycling genes in tidal creek ecosystems | Science of The Total Environment | 857(Part 2) 159496 |
| 2023 | 10.1016/j.hal.2023.102409 | Shaalan, H., E. Cattan-Tsaushu, K. Li and S. Avrani | Sequencing the genomes of LPP-1, the first isolated cyanophage, and its relative LPP-2 reveal different integration mechanisms in closely related phages | Harmful Algae | 124 102409 |
| 2023 | 10.1126/science.adl1198 | Mohnen, D. | A signaling peptide locks pollen tube walls | Science | 382(6671) 648–49 |
| 2023 | 10.1073/pnas.2313591120 | Li, S., A. D. B. Leakey, C. A. Moller, C. M. Montes, E. J. Sacks, D. Lee and E. A. Ainsworth | Similar photosynthetic but different yield responses of C3 and C4 crops to elevated O3 | Proceedings of the National Academy of Sciences | 120(46) e2313591120 |
| 2023 | 10.1128/jb.00338-22 | Riley, L. A., I. C. Payne, M. Tumen-Velasquez and A. M. Guss | Simple and Rapid Site-Specific Integration of Multiple Heterologous DNAs into the Escherichia coli Chromosome | Journal of Bacteriology | 205(2) e00338-22 |
| 2023 | 10.1080/00103624.2023.2296988 | Nelson, J. T., T. A. Adjuik, E. B. Moore, A. D. VanLoocke, A. Ramirez Reyes and M. D. McDaniel | A Simple, Affordable, Do-It-Yourself Method for Measuring Soil Maximum Water Holding Capacity | Communications in Soil Science and Plant Analysis | 1–15 |
| 2023 | 10.1128/aem.00852-23 | Shrestha, S., D. Awasthi, Y. Chen, J. Gin, C. J. Petzold, P. D. Adams, B. A. Simmons and S. W. Singer | Simultaneous carbon catabolite repression governs sugar and aromatic co-utilization in Pseudomonas putida M2 | Applied and Environmental Microbiology | 89(10) e00852-23 |
| 2023 | 10.1186/s13068-023-02291-6 | Kim, S.-K., Y. J. Bomble and J. Westpheling | Simultaneous expression of an endogenous spermidine synthase and a butanol dehydrogenase from Thermoanaerobacter pseudethanolicus in Clostridium thermocellum results in increased resistance to acetic acid and furans, increased ethanol production and an increase in thermotolerance | Biotechnology for Biofuels and Bioproducts | 16(1) 46 |
| 2023 | 10.1111/pbi.14186 | Dwivedi, N., S. Yamamoto, Y. Zhao, G. Hou, F. Bowling, Y. Tobimatsu and C.-J. Liu | Simultaneous suppression of lignin, tricin and wall-bound phenolic biosynthesis via the expression of monolignol 4-O-methyltransferases in rice | Plant Biotechnology Journal | |
| 2023 | 10.1093/jxb/erad255 | Choi, S., P. K. Prabhakar, R. Chowdhury, T. H. Pendergast, IV, B. R. Urbanowicz, C. Maranas and K. M. Devos | A single amino acid change led to structural and functional differentiation of PvHd1 to control flowering in switchgrass | Journal of Experimental Botany | 74(18) 5532–46 |
| 2023 | 10.1016/j.cub.2023.04.010 | George, E. E., D. Barcytė, G. Lax, S. Livingston, D. Tashyreva, F. Husnik, J. Lukeš, M. Eliáš and P. J. Keeling | A single cryptomonad cell harbors a complex community of organelles, bacteria, a phage, and selfish elements | Current Biology | 33(10) 1982–96.e4 |
| 2023 | 10.1038/s41467-023-41179-9 | Mayali, X., T. J. Samo, J. A. Kimbrel, M. M. Morris, K. Rolison, C. Swink, C. Ramon, Y.-M. Kim, N. Munoz-Munoz, C. Nicora, S. Purvine, M. Lipton, R. K. Stuart and P. K. Weber | Single-cell isotope tracing reveals functional guilds of bacteria associated with the diatom Phaeodactylum tricornutum | Nature Communications | 14(1) 5642 |
| 2023 | Kerfoot, M., A. Pech and D. Olson | Site-directed mutagenesis on C252 and H734 from adhE in a shuttle vector | Wetterhahn Science Symposium | ||
| 2023 | 10.1093/bioadv/vbad005 | Chang, C. H., W. C. Nelson, A. Jerger, A. T. Wright, R. G. Egbert and J. E. McDermott | Snekmer: a scalable pipeline for protein sequence fingerprinting based on amino acid recoding | Bioinformatics Advances | 3(1) |
| 2023 | 10.1038/s41587-023-01932-3 | Jansson, J. K., R. McClure and R. G. Egbert | Soil microbiome engineering for sustainability in a changing environment | Nature Biotechnology | 41(12) 1716–28 |
| 2023 | 10.1111/gcbb.13020 | Hussain, M. Z., S. K. Hamilton and G. P. Robertson | Soil phosphorus drawdown by perennial bioenergy cropping systems in the Midwestern US | GCB Bioenergy | 15(2) 254–63 |
| 2023 | 10.1038/s41579-022-00811-z | Jansson, J. K. and R. Wu | Soil viral diversity, ecology and climate change | Nature Reviews Microbiology | 21(5) 296–311 |
| 2023 | 10.1021/acssuschemeng.2c06500 | Hubble, D., S. Nordahl, T. Zhu, N. Baral, C. D. Scown and G. Liu | Solvent-Assisted Poly(lactic acid) Upcycling under Mild Conditions | ACS Sustainable Chemistry & Engineering | 11(22) 8208–16 |
| 2023 | 10.1038/s42003-023-04950-8 | Yuan, G., H. Lu, K. De, M. M. Hassan, Y. Liu, M. T. Islam, W. Muchero, G. A. Tuskan and X. Yang | Split selectable marker systems utilizing inteins facilitate gene stacking in plants | Communications Biology | 6(1) 567 |
| 2023 | 10.1128/aem.00171-23 | Kato, R., K. Maekawa, S. Kobayashi, S. Hishiyama, R. Katahira, M. Nambo, Y. Higuchi, E. Kuatsjah, G. T. Beckham, N. Kamimura and E. Masai | Stereoinversion via Alcohol Dehydrogenases Enables Complete Catabolism of β-1-Type Lignin-Derived Aromatic Isomers | Applied and Environmental Microbiology | 89(6) e00171-23 |
| 2023 | 10.1038/s41477-023-01358-4 | Prabhakar, P. K., J. H. Pereira, R. Taujale, W. Shao, V. S. Bharadwaj, D. Chapla, J.-Y. Yang, Y. J. Bomble, K. W. Moremen, N. Kannan, M. Hammel, P. D. Adams, H. V. Scheller and B. R. Urbanowicz | Structural and biochemical insight into a modular β-1,4-galactan synthase in plants | Nature Plants | 9(3) 486–500 |
| 2023 | 10.1038/s41467-023-39010-6 | Pang, C., J. Chai, P. Zhu, J. Shanklin and Q. Liu | Structural mechanism of intracellular autoregulation of zinc uptake in ZIP transporters | Nature Communications | 14(1) 3404 |
| 2023 | 10.1007/s00253-023-12684-0 | Dementiev, A., S. P. Lillington, S. Jin, Y. Kim, R. Jedrzejczak, K. Michalska, A. Joachimiak and M. A. O’Malley | Structure and enzymatic characterization of CelD endoglucanase from the anaerobic fungus Piromyces finnis | Applied Microbiology and Biotechnology | 107(19) 5999–6011 |
| 2023 | 10.1038/s41467-023-40835-4 | Nicolas, A. M., E. T. Sieradzki, J. Pett-Ridge, J. F. Banfield, M. E. Taga, M. K. Firestone and S. J. Blazewicz | A subset of viruses thrives following microbial resuscitation during rewetting of a seasonally dry California grassland soil | Nature Communications | 14(1) 5835 |
| 2023 | 10.3389/fpls.2023.1233813 | Xue, X., G. Beuchat, J. Wang, Y.-C. Yu, S. Moose, J. Chen and L.-Q. Chen | Sugar accumulation enhancement in sorghum stem is associated with reduced reproductive sink strength and increased phloem unloading activity | Frontiers in Plant Science | 14 |
| 2023 | 10.1021/acssynbio.3c00075 | Zhou, A., L. D. Kirkpatrick, I. J. Ornelas, L. J. Washington, N. F. C. Hummel, C. W. Gee, S. N. Tang, C. R. Barnum, H. V. Scheller and P. M. Shih | A Suite of Constitutive Promoters for Tuning Gene Expression in Plants | ACS Synthetic Biology | 12(5) 1533–45 |
| 2023 | 10.1038/s41396-023-01388-y | Wong, L. L., Y. Lu, J. C. S. Ho, S. Mugunthan, Y. Law, P. Conway, S. Kjelleberg and T. Seviour | Surface-layer protein is a public-good matrix exopolymer for microbial community organisation in environmental anammox biofilms | The ISME Journal | 17(6) 803–12 |
| 2023 | 10.1111/irv.13057 | Faleye, T. O. C., A. Elyaderani, P. Skidmore, S. Adhikari, A. Smith, N. Kaiser, H. Sandrolini, S. Finnerty, R. U. Halden, A. Varsani and M. Scotch | Surveillance of rhinovirus diversity among a university community identifies multiple types from all three species including an unassigned rhinovirus A genotype | Influenza and Other Respiratory Viruses | 17(1) e13057 |
| 2023 | 10.1371/journal.pbio.3002416 | Piya, D., N. Nolan, M. L. Moore, L. A. Ramirez Hernandez, B. F. Cress, R. Young, A. P. Arkin and V. K. Mutalik | Systematic and scalable genome-wide essentiality mapping to identify nonessential genes in phages | PLOS Biology | 21(12) e3002416 |
| 2023 | 10.1186/s13068-023-02339-7 | Ha, C. M., L. Escamilla-Trevino, C. Zhuo, Y. Pu, N. Bryant, A. J. Ragauskas, X. Xiao, Y. Li, F. Chen and R. A. Dixon | Systematic approaches to C-lignin engineering in Medicago truncatula | Biotechnology for Biofuels and Bioproducts | 16(1) 100 |
| 2023 | 10.1128/mbio.00261-23 | Haridas, S., J. B. González, R. Riley, M. Koriabine, M. Yan, V. Ng, A. Rightmyer, I. V. Grigoriev, S. E. Baker and B. G. Turgeon | T-Toxin Virulence Genes: Unconnected Dots in a Sea of Repeats | mBio | 14(2) e00261-23 |
| 2023 | 10.1002/tpg2.20298 | May, D., K. Paldi and F. Altpeter | Targeted mutagenesis with sequence-specific nucleases for accelerated improvement of polyploid crops: Progress, challenges, and prospects | The Plant Genome | 16(2) e20298 |
| 2023 | 10.1128/aem.00825-23 | Eng, A. Y., A. Narayanan, C. J. Alster and K. M. DeAngelis | Thermal adaptation of soil microbial growth traits in response to chronic warming | Applied and Environmental Microbiology | 89(11) e00825-23 |
| 2023 | 10.1186/s13068-023-02429-6 | Woodruff, W., N. N. Deshavath, V. Susanto, C. V. Rao and V. Singh | Tolerance of engineered Rhodosporidium toruloides to sorghum hydrolysates during batch and fed-batch lipid production | Biotechnology for Biofuels and Bioproducts | 16(1) 187 |
| 2023 | 10.1016/B978-0-12-821430-5.00002-X | Blaby-Haas, C. E. and S. S. Merchant | Trace metal nutrition and response to deficiency | The Chlamydomonas Sourcebook (Third Edition) | 2 167–203 |
| 2023 | 10.1016/j.cels.2023.05.002 | Hummel, N. F. C., A. Zhou, B. Li, K. Markel, I. J. Ornelas and P. M. Shih | The trans-regulatory landscape of gene networks in plants | Cell Systems | 14(6) 501-511.e4 |
| 2023 | 10.1128/aem.01768-22 | Gionfriddo, C. M., A. B. Soren, A. M. Wymore, D. S. Hartnett, M. Podar, J. M. Parks, D. A. Elias and C. C. Gilmour | Transcriptional Control of hgcAB by an ArsR-Like Regulator in Pseudodesulfovibrio mercurii ND132 | Applied and Environmental Microbiology | 89(4) e01768-22 |
| 2023 | 10.1128/msystems.00333-23 | Waldburger, L., M. G. Thompson, A. J. Weisberg, N. Lee, J. H. Chang, J. D. Keasling and P. M. Shih | Transcriptome architecture of the three main lineages of agrobacteria | mSystems | 8(4) e00333-23 |
| 2023 | 10.1038/s41598-023-43089-8 | Jawaharraj, K., V. Peta, S. S. Dhiman, E. Z. Gnimpieba and V. Gadhamshetty | Transcriptome-wide marker gene expression analysis of stress-responsive sulfate-reducing bacteria | Scientific Reports | 13(1) 16181 |
| 2023 | 10.1038/s41467-023-38560-z | Session, A. M. and D. S. Rokhsar | Transposon signatures of allopolyploid genome evolution | Nature Communications | 14(1) 3180 |
| 2023 | 10.1111/gcbb.13107 | Cao, V. D., B. Kannan, G. Luo, H. Liu, J. Shanklin and F. Altpeter | Triacylglycerol, total fatty acid, and biomass accumulation of metabolically engineered energycane grown under field conditions confirms its potential as feedstock for drop-in fuel production | GCB Bioenergy | 15(12) 1450–64 |
| 2023 | 10.1038/s41597-023-02118-x | Aspray, E. K., T. A. Mies, J. A. McGrath, C. M. Montes, B. Dalsing, et al. | Two decades of fumigation data from the Soybean Free Air Concentration Enrichment facility | Scientific Data | 10(1) 226 |
| 2023 | 10.1016/j.mtbio.2023.100560 | Jo, C., J. Zhang, J. M. Tam, G. M. Church, A. S. Khalil, D. Segrè and T.-C. Tang | Unlocking the magic in mycelium: Using synthetic biology to optimize filamentous fungi for biomanufacturing and sustainability | Materials Today Bio | 19 100560 |
| 2023 | 10.1016/j.tcsw.2023.100101 | Curry, T. M., M. J. Peña and B. R. Urbanowicz | An update on xylan structure, biosynthesis, and potential commercial applications | The Cell Surface | 9 100101 |
| 2023 | 10.1007/978-1-0716-3131-7_8 | Yuan, G., G. A. Tuskan and X. Yang | Use of Fluorescent Protein Reporters for Assessing and Detecting Genome Editing Reagents and Transgene Expression in Plants | Plant Genome Engineering: Methods and Protocols | 115–27 |
| 2023 | 10.3390/microorganisms11092149 | Griesemer, M. and A. Navid | Uses of Multi-Objective Flux Analysis for Optimization of Microbial Production of Secondary Metabolites | Microorganisms | 11(9) 2149 |
| 2023 | 10.1016/j.cub.2023.05.020 | Yee, D. P., T. J. Samo, R. M. Abbriano, B. Shimasaki, M. Vernet, X. Mayali, P. K. Weber, B. G. Mitchell, M. Hildebrand, J. Decelle and M. Tresguerres | The V-type ATPase enhances photosynthesis in marine phytoplankton and further links phagocytosis to symbiogenesis | Current Biology | 33(12) 2541-2547.e5 |
| 2023 | 10.3389/fpls.2023.1210146 | Saint-Vincent, P. M. B., A. Furches, S. Galanie, E. Teixeira Prates, J. L. Aldridge, et al. | Validation of a metabolite-GWAS network for Populus trichocarpa family 1 UDP-glycosyltransferases | Frontiers in Plant Science | 14 1210146 |
| 2023 | 10.3390/molecules28031427 | Choi, J., A. Rodriguez, B. A. Simmons and J. M. Gladden | Valorization of Hemp-Based Packaging Waste with One-Pot Ionic Liquid Technology | Molecules | 28(3) 1427 |
| 2023 | 10.1039/D3RA01546G | Li, Y., X. Meng, R. Meng, T. Cai, Y. Pu, Z.-M. Zhao and A. J. Ragauskas | Valorization of homogeneous linear catechyl lignin: opportunities and challenges | RSC Advances | 13(19) 12750–9 |
| 2023 | 10.1039/D3RA03142J | Bryant, N., N. Engle, T. Tschaplinski, Y. Pu and A. J. Ragauskas | Variable lignin structure revealed in Populus leaves | RSC Advances | 13(29) 20187–97 |
| 2023 | 10.3389/fevo.2023.1205557 | Untiveros, D. P. M., L. R. S. Sanchez and E. P. Cao | Whole genome sequence analysis of the filamentous Nodosilinea sp. PGN35 isolated from a mining site in Tuba, Benguet, Philippines | Frontiers in Ecology and Evolution | 11 |
| 2023 | 10.21769/BioProtoc.4862 | Choe, K. and J. V. Sweedler | Workflow for High-throughput Screening of Enzyme Mutant Libraries Using Matrix-assisted Laser Desorption/Ionization Mass Spectrometry Analysis of Escherichia coli Colonies | Bio-protocol | 13(21) e4862 |
| 2023 | 10.1007/s00248-022-02137-y | Palmer, B., D. Lawson and D. A. Lipson | Years After a Fire, Biocrust Microbial Communities are Similar to Unburned Communities in a Coastal Grassland | Microbial Ecology | 85(3) 1028–44 |
| 2022 | 10.1021/acs.analchem.1c05338 | Wang, B. and J. D. Young | 13C-Isotope-Assisted Assessment of Metabolic Quenching during Sample Collection from Suspension Cell Cultures | Analytical Chemistry | 94(22) 7787-7794 |
| 2022 | 10.1093/plphys/kiac154 | Young, D. Y., N. Pang and Y. Shachar-Hill | 13C-labeling reveals how membrane lipid components contribute to triacylglycerol accumulation in Chlamydomonas | Plant Physiology | 189(3) 1326-1344 |
| 2022 | 10.1016/j.ymben.2022.03.011 | Dahle, M. L., E. T. Papoutsakis and M. R. Antoniewicz | 13C-metabolic flux analysis of Clostridium ljungdahlii illuminates its core metabolism under mixotrophic culture conditions | Metabolic Engineering | 72 161-170 |
| 2022 | 10.1111/nph.17825 | Hill, R. A., J. Wong-Bajracharya, S. Anwar, D. Coles, M. Wang, A. Lipzen, V. Ng, I. V. Grigoriev, F. Martin, I. C. Anderson, C. I. Cazzonelli, T. Jeffries, K. L. Plett and J. M. Plett | Abscisic acid supports colonization of Eucalyptus grandis roots by the mutualistic ectomycorrhizal fungus Pisolithus microcarpus | New Phytologist | 233(2) 966–82 |
| 2022 | 10.3389/fpls.2022.757810 | Harman-Ware, A. E., R. M. Happs, D. Macaya-Sanz, C. Doeppke, W. Muchero and S. P. DiFazio | Abundance of Major Cell Wall Components in Natural Variants and Pedigrees of Populus trichocarpa | Frontiers in Plant Science | 13 |
| 2022 | 10.3390/metabo12080767 | Wong, T. M., J. H. Sullivan and E. Eisenstein | Acclimation and Compensating Metabolite Responses to UV-B Radiation in Natural and Transgenic Populus spp. Defective in Lignin Biosynthesis | Metabolites | 12(8) |
| 2022 | 10.1007/s12257-022-0217-3 | Lee, Y.-G., Y. Ju, L. Sun, S. Park, Y.-S. Jin and S. R. Kim | Acetate-rich Cellulosic Hydrolysates and Their Bioconversion Using Yeasts | Biotechnology and Bioprocess Engineering | 27(6) 890–9 |
| 2022 | 10.1038/s41396-021-01139-x | McKay, L. J., H. J. Smith, E. P. Barnhart, H. D. Schweitzer, R. R. Malmstrom, D. Goudeau and M. W. Fields | Activity-based, genome-resolved metagenomics uncovers key populations and pathways involved in subsurface conversions of coal to methane | The ISME Journal | 16(4) 915–26 |
| 2022 | 10.1021/acs.iecr.2c01163 | Li, J., C. T. Maravelias and R. C. Van Lehn | Adaptive Conformer Sampling for Property Prediction Using the Conductor-like Screening Model for Real Solvents | Industrial & Engineering Chemistry Research | 61(25) 9025–36 |
| 2022 | 10.1038/s41467-022-29603-y | Kellogg, R. M., M. A. Moosburner, N. R. Cohen, N. J. Hawco, M. R. McIlvin, D. M. Moran, G. R. DiTullio, A. V. Subhas, A. E. Allen and M. A. Saito | Adaptive responses of marine diatoms to zinc scarcity and ecological implications | Nature Communications | 13(1) |
| 2022 | 10.1038/s42003-021-02964-8 | Ko, D. K. and F. Brandizzi | Advanced genomics identifies growth effectors for proteotoxic ER stress recovery in Arabidopsis thaliana | Communications Biology | 5(1) 16 |
| 2022 | 10.1186/s12934-022-01977-0 | Otoupal, P. B., G. M. Geiselman, A. M. Oka, C. A. Barcelos, H. Choudhary, et al. | Advanced one-pot deconstruction and valorization of lignocellulosic biomass into triacetic acid lactone using Rhodosporidium toruloides | Microbial Cell Factories | 21(1) 254 |
| 2022 | 10.1016/B978-0-12-824469-2.00029-4 | Liu, R., L. Liang, M. Habib, E. F. Freed and C. A. Eckert | Advances and application of CRISPR-Cas systems | New Frontiers and Applications of Synthetic Biology | 331–48 |
| 2022 | 10.3389/fmicb.2022.892227 | Morales, D. P., A. J. Robinson, A. C. Pawlowski, C. Ark, J. M. Kelliher, P. Junier, J. H. Werner and P. S. G. Chain | Advances and Challenges in Fluorescence in situ Hybridization for Visualizing Fungal Endobacteria | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/B978-0-12-824469-2.00013-0 | Liu, R., L. Liang, M. P. Lacerda, E. F. Freed and C. A. Eckert | Advances in protein engineering and its application in synthetic biology | New Frontiers and Applications of Synthetic Biology | 147–58 |
| 2022 | 10.1016/j.ymben.2022.01.015 | Pavan, M., K. Reinmets, S. Garg, A. P. Mueller, E. Marcellin, M. Köpke and K. Valgepea | Advances in systems metabolic engineering of autotrophic carbon oxide-fixing biocatalysts towards a circular economy | Metabolic Engineering | 71 117-141 |
| 2022 | 10.3390/rs14061435 | Namoi, N., C. Jang, Z. Robins, C. H. Lin, S. H. Lim, T. Voigt and D. Lee | Aerial Imagery Can Detect Nitrogen Fertilizer Effects on Biomass and Stand Health of Miscanthus × giganteus | Remote Sensing | 14(6) |
| 2022 | Namoi, N., C. Jang, Z. Robins, C.-H. Lin, S.-H. Lim, T. Voigt and D. Lee | Aerial Imagery Can Detect Nitrogen Fertilizer Effects on Biomass and Stand Health of Miscanthus x giganteus | Remote Sensing | 14(6) 1435 | |
| 2022 | 10.3389/fmicb.2022.849573 | Lee, J. A., S. Stolyar and C. J. Marx | Aerobic Methoxydotrophy: Growth on Methoxylated Aromatic Compounds by Methylobacteriaceae | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/j.rser.2022.112745 | Yang, P., X. Cai, X. Hu, Q. Zhao, Y. Lee, M. Khanna, Y. R. Cortés-Peña, J. S. Guest, J. Kent, T. W. Hudiburg, E. Du, S. John and F. Iutzi | An agent-based modeling tool supporting bioenergy and bio-product community communication regarding cellulosic bioeconomy development | Renewable and Sustainable Energy Reviews | 167 112745 |
| 2022 | 10.1111/gcbb.13004 | Bendorf, J., E. Heaton, T. Hartman, G. Aslan-Sungur and A. VanLoocke | Agroecosystem model simulations reveal spatial variability in relative productivity in biomass sorghum and maize in Iowa, USA | GCB Bioenergy | 14(12) 1336–60 |
| 2022 | 10.1111/mec.16640 | Wagner, R., L. Montoya, C. Gao, J. R. Head, J. Remais and J. W. Taylor | The air mycobiome is decoupled from the soil mycobiome in the California San Joaquin Valley | Molecular Ecology | |
| 2022 | 10.3390/land11020283 | Sciusco, P., J. Chen, V. Giannico, M. Abraha, C. Lei, G. Shirkey, J. Yuan and G. P. Robertson | Albedo-Induced Global Warming Impact at Multiple Temporal Scales within an Upper Midwest USA Watershed | Land | 11(2) 283 |
| 2022 | 10.1021/acscatal.1c04518 | Zhang, Z., C. E. Berdugo-Díaz, D. T. Bregante, H. Zhang and D. W. Flaherty | Aldol Condensation and Esterification over Ti-Substituted *BEA Zeolite: Mechanisms and Effects of Pore Hydrophobicity | ACS Catalysis | 12(2) 1481–96 |
| 2022 | 10.1139/facets-2021-0109 | Valadez-Cano, C., K. Hawkes, R. Calvaruso, A. Reyes-Prieto and J. Lawrence | Amplicon-based and metagenomic approaches provide insights into toxigenic potential in understudied Atlantic Canadian lakes | FACETS | 7 194–214 |
| 2022 | 10.1038/s41586-022-04670-9 | Jiang, Y. X., Q. Cao, M. R. Sawaya, R. Abskharon, P. Ge, M. DeTure, D. W. Dickson, J. Y. Fu, R. R. Ogorzalek Loo, J. A. Loo and D. S. Eisenberg | Amyloid fibrils in FTLD-TDP are composed of TMEM106B and not TDP-43 | Nature | 605(7909) 304-309 |
| 2022 | 10.1039/D2EE00625A | Geissler, C. H. and C. T. Maravelias | Analysis of alternative bioenergy with carbon capture strategies: present and future | Energy & Environmental Science | 15(7) 2679–89 |
| 2022 | 10.3389/fmicb.2022.1060160 | Pelicaen, R., S. Weckx, D. Gonze and L. De Vuyst | Application of comparative genomics of Acetobacter species facilitates genome-scale metabolic reconstruction of the Acetobacter ghanensis LMG 23848T and Acetobacter senegalensis 108B cocoa strains | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/j.watres.2021.117933 | Pelivano, B., S. Bryson, K. A. Hunt, M. Denecke, D. A. Stahl and M. Winkler | Application of pyritic sludge with an anaerobic granule consortium for nitrate removal in low carbon systems | Water Research | 209 117933 |
| 2022 | 10.1007/978-1-0716-1585-0_13 | Allen, B. H., N. Gupta, J. N. Edirisinghe, J. P. Faria and C. S. Henry | Application of the Metabolic Modeling Pipeline in KBase to Categorize Reactions, Predict Essential Genes, and Predict Pathways in an Isolate Genome | Microbial Systems Biology: Methods and Protocols | 291–320 |
| 2022 | 10.1016/j.copbio.2022.102709 | Yunus, I. S. and T. S. Lee | Applications of targeted proteomics in metabolic engineering: advances and opportunities | Current Opinion in Biotechnology | 75 102709 |
| 2022 | 10.1111/tpj.15501 | Montes, C. M., H. J. Demler, S. Li, D. G. Martin and E. A. Ainsworth | Approaches to investigate crop responses to ozone pollution: from O3-FACE to satellite-enabled modeling | The Plant Journal | 109(2) 432–46 |
| 2022 | 10.1016/j.apsoil.2021.104218 | Emery, S. M., L. Bell-Dereske, K. A. Stahlheber and K. L. Gross | Arbuscular mycorrhizal fungal community responses to drought and nitrogen fertilization in switchgrass stands | Applied Soil Ecology | 169 104218 |
| 2022 | 10.1128/AEM.01782-21 | Eagar, A. C., R. M. Mushinski, A. L. Horning, K. A. Smemo, R. P. Phillips and C. B. Blackwood | Arbuscular Mycorrhizal Tree Communities Have Greater Soil Fungal Diversity and Relative Abundances of Saprotrophs and Pathogens than Ectomycorrhizal Tree Communities | Applied and Environmental Microbiology | 88(1) |
| 2022 | 10.1016/j.soilbio.2022.108633 | Guber, A., E. Blagodatskaya and A. Kravchenko | Are enzymes transported in soils by water fluxes? | Soil Biology and Biochemistry | 168 108633 |
| 2022 | 10.1145/3500922 | Eslami, M., A. Adler, R. S. Caceres, J. G. Dunn, N. Kelley-Loughnane, V. A. Varaljay and H. G. Martin | Artificial intelligence for synthetic biology | Communications of the ACM | 65(5) 88–97 |
| 2022 | 10.1093/bib/bbab476 | Dhakal, A., C. McKay, J. J. Tanner and J. Cheng | Artificial intelligence in the prediction of protein-ligand interactions: recent advances and future directions | Briefings in Bioinformatics | 23(1) |
| 2022 | 10.1021/jacs.1c10975 | Liu, Z., J. Huang, Y. Gu, D. S. Clark, A. Mukhopadhyay, J. D. Keasling and J. F. Hartwig | Assembly and Evolution of Artificial Metalloenzymes within E. coli Nissle 1917 for Enantioselective and Site-Selective Functionalization of C─H and C═C Bonds | Journal of the American Chemical Society | 144(2) 883–90 |
| 2022 | 10.1016/j.str.2022.08.004 | Shao, C., S. Bittrich, S. Wang and S. K. Burley | Assessing PDB macromolecular crystal structure confidence at the individual amino acid residue level | Structure | 30(10) 1385-1394.e3 |
| 2022 | 10.1002/jaa2.23 | Zhong, J. and M. Khanna | Assessing the efficiency implications of renewable fuel policy design in the United States | Journal of the Agricultural and Applied Economics Association | 1(3) 222–35 |
| 2022 | 10.1016/j.ymben.2021.12.012 | Foster, C., V. S. Boorla, S. Dash, S. Gopalakrishnan, T. B. Jacobson, D. G. Olson, D. Amador-Noguez, L. R. Lynd and C. D. Maranas | Assessing the impact of substrate-level enzyme regulations limiting ethanol titer in Clostridium thermocellum using a core kinetic model | Metabolic Engineering | 69 286–301 |
| 2022 | 10.3389/fmicb.2022.791110 | Chai, Y. N., S. Futrell and D. P. Schachtman | Assessment of Bacterial Inoculant Delivery Methods for Cereal Crops | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/j.agrformet.2022.109046 | Wu, G., K. Guan, C. Jiang, H. Kimm, G. Miao, C. J. Bernacchi, C. E. Moore, E. A. Ainsworth, X. Yang, J. A. Berry, C. Frankenberg and M. Chen | Attributing differences of solar-induced chlorophyll fluorescence (SIF)-gross primary production (GPP) relationships between two C4 crops: corn and miscanthus | Agricultural and Forest Meteorology | 323 109046 |
| 2022 | 10.1038/s41467-022-32829-5 | LaFleur, T. L., A. Hossain and H. M. Salis | Automated model-predictive design of synthetic promoters to control transcriptional profiles in bacteria | Nature Communications | 13(1) |
| 2022 | 10.1111/tpj.15903 | Huß, S., R. S. Judd, K. Koper, H. A. Maeda and Z. Nikoloski | An automated workflow that generates atom mappings for large-scale metabolic models and its application to Arabidopsis thaliana | Plant Journal | 111(5) 1486-1500 |
| 2022 | 10.3390/plants11060721 | Gilbert, S., A. Poulev, W. Chrisler, K. Acosta, G. Orr, S. Lebeis and E. Lam | Auxin-Producing Bacteria from Duckweeds Have Different Colonization Patterns and Effects on Plant Morphology | Plants | 11(6) |
| 2022 | 10.1128/msphere.00231-22 | Morris, M. M., J. A. Kimbrel, H. Geng, M. B. Tran-Gyamfi, E. T. Yu, K. L. Sale, T. W. Lane and X. Mayali | Bacterial Community Assembly, Succession, and Metabolic Function during Outdoor Cultivation of Microchloropsis salina | mSphere | 7(4) e00231-22 |
| 2022 | 10.1016/j.soilbio.2022.108761 | Barbour, K. M., C. Weihe, S. D. Allison and J. B. H. Martiny | Bacterial community response to environmental change varies with depth in the surface soil | Soil Biology and Biochemistry | 172 |
| 2022 | 10.1093/femsec/fiac091 | Windler, M., R. Stuart, J. S. Deutzmann, X. Mayali, A. Navid, P. D'haeseleer, O. E. Marcu, M. Lipton, C. Nicora and A. M. Spormann | Bacterial exometabolites influence Chlamydomonas cell cycle and double algal productivity | FEMS Microbiology Ecology | 98(9) fiac091 |
| 2022 | 10.1038/s41564-022-01208-7 | Rosconi, F., E. Rudmann, J. Li, D. Surujon, J. Anthony, M. Frank, D. S. Jones, C. Rock, J. W. Rosch, C. D. Johnston and T. van Opijnen | A bacterial pan-genome makes gene essentiality strain-dependent and evolvable | Nature Microbiology | 7(10) 1580–92 |
| 2022 | 10.1038/s41396-021-01147-x | Kim, H., J. A. Kimbrel, C. A. Vaiana, J. R. Wollard, X. Mayali and C. R. Buie | Bacterial response to spatial gradients of algal-derived nutrients in a porous microplate | The ISME Journal | 16(4) 1036–45 |
| 2022 | 10.1080/03772063.2020.1739571 | Koteswara Rao, S. | Bearings-only Passive Target Tracking: Range Uncertainty Ellipse Zone | IETE Journal of Research | 68(4) 2968-2978 |
| 2022 | 10.1007/978-1-0716-1585-0_15 | Navid, A. | A Beginner’s Guide to the COBRA Toolbox | Microbial Systems Biology: Methods and Protocols | 339–65 |
| 2022 | 10.1016/j.soilbio.2021.108519 | Fossum, C., K. Y. Estera-Molina, M. Yuan, D. J. Herman, I. Chu-Jacoby, P. S. Nico, K. D. Morrison, J. Pett-Ridge and M. K. Firestone | Belowground allocation and dynamics of recently fixed plant carbon in a California annual grassland | Soil Biology and Biochemistry | 165 108519 |
| 2022 | 10.1038/s41597-022-01762-z | Meslier, V., B. Quinquis, K. Da Silva, F. Plaza Oñate, N. Pons, H. Roume, M. Podar and M. Almeida | Benchmarking second and third-generation sequencing platforms for microbial metagenomics | Scientific Data | 9(1) 694 |
| 2022 | 10.1016/j.pbi.2022.102191 | Busta, L., K. D. Chapman and E. B. Cahoon | Better together: Protein partnerships for lineage-specific oil accumulation | Current Opinion in Plant Biology | 66 102191 |
| 2022 | 10.1016/bs.mie.2022.07.034 | Koper, K., S. Hataya, A. G. Hall, T. E. Takasuka and H. A. Maeda | Biochemical characterization of plant aromatic aminotransferases | Methods in Enzymology | |
| 2022 | 10.3389/fpls.2022.839446 | Sebesta, J., W. Xiong, M. T. Guarnieri and J. Yu | Biocontainment of Genetically Engineered Algae | Frontiers in Plant Science | 13 |
| 2022 | 10.1111/tpj.15960 | Yu, K. M. J., J. Oliver, B. McKinley, B. Weers, H. T. Fabich, N. Evetts, M. S. Conradi, S. A. Altobelli, A. Marshall-Colon and J. Mullet | Bioenergy sorghum stem growth regulation: intercalary meristem localization, development, and gene regulatory network analysis | The Plant Journal | 112(2) 476–92 |
| 2022 | 10.1111/gcbb.12907 | Lamb, A., B. Weers, B. McKinley, W. Rooney, C. Morgan, A. Marshall-Colon and J. Mullet | Bioenergy sorghum’s deep roots: A key to sustainable biomass production on annual cropland | GCB Bioenergy | 14(2) 132–56 |
| 2022 | 10.1002/ppj2.20028 | York, L. M., J. R. Cumming, A. Trusiak, G. Bonito, A. C. von Haden, et al. | Bioenergy Underground: Challenges and opportunities for phenotyping roots and the microbiome for sustainable bioenergy crop production | The Plant Phenome Journal | 5(1) e20028 |
| 2022 | 10.1089/ast.2021.0137 | Vishnivetskaya, T. A., V. A. Mironov, A. A. Abramov, V. A. Shcherbakova and E. M. Rivkina | Biogeochemical Characteristics of Earth's Volcanic Permafrost: An Analog of Extraterrestrial Environments | Astrobiology | 22(7) 812-828 |
| 2022 | 10.34133/2022/9863496 | Liu, Y., G. Yuan, M. M. Hassan, P. E. Abraham, J. C. Mitchell, et al. | Biological and Molecular Components for Genetically Engineering Biosensors in Plants | BioDesign Research | 2022 9863496 |
| 2022 | 10.3389/fceng.2022.1036084 | Umana, G. E., J. M. Perez, F. Unda, C.-Y. Lin, C. Sener, S. D. Karlen, S. D. Mansfield, A. Eudes, J. Ralph, T. J. Donohue and D. R. Noguera | Biological funneling of phenolics from transgenic plants engineered to express the bacterial 3-dehydroshikimate dehydratase (qsuB) gene | Frontiers in Chemical Engineering | 4 |
| 2022 | 10.1002/pld3.419 | Payyavula, R. S., R. Badmi, S. S. Jawdy, M. Rodriguez Jr, L. Gunter, R. W. Sykes, K. A. Winkeler, C. M. Collins, W. H. Rottmann, J.-G. Chen, X. Yang, G. A. Tuskan and U. C. Kalluri | Biomass formation and sugar release efficiency of Populus modified by altered expression of a NAC transcription factor | Plant Direct | 6(8) e419 |
| 2022 | 10.1111/gcbb.12983 | Tilhou, N. W. and M. D. Casler | Biomass yield improvement in switchgrass through genomic prediction of flowering time | GCB Bioenergy | 14(9) 1023–34 |
| 2022 | 10.1021/acssuschemeng.2c05327 | Maitra, S., M. B. Viswanathan, K. Park, B. Kannan, S. C. Alfanar, S. M. McCoy, E. B. Cahoon, F. Altpeter, A. D. B. Leakey and V. Singh | Bioprocessing, Recovery, and Mass Balance of Vegetative Lipids from Metabolically Engineered “Oilcane” Demonstrates Its Potential as an Alternative Feedstock for Drop-In Fuel Production | ACS Sustainable Chemistry & Engineering | 10(50) 16833–44 |
| 2022 | 10.1038/s41467-021-27852-x | Zhang, Y., J. D. Cortez, S. K. Hammer, C. Carrasco-López, S. Á. García Echauri, J. B. Wiggins, W. Wang and J. L. Avalos | Biosensor for branched-chain amino acid metabolism in yeast and applications in isobutanol and isopentanol production | Nature Communications | 13(1) |
| 2022 | 10.1016/j.joule.2022.05.011 | Cruz-Morales, P., K. Yin, A. Landera, J. R. Cort, R. P. Young, et al. | Biosynthesis of polycyclopropanated high energy biofuels | Joule | 6(7) 1590–605 |
| 2022 | 10.1016/j.jmb.2022.167556 | Sanchez-Garcia, R., J. R. Macias, C. O. S. Sorzano, J. M. Carazo and J. Segura | BIPSPI+: Mining Type-Specific Datasets of Protein Complexes to Improve Protein Binding Site Prediction | Journal of Molecular Biology | 434(11) |
| 2022 | 10.1016/j.memsci.2021.120224 | Chen, H., Y. Tian, Z. Hu, C. Wang, P. Xie, L. Chen, F. Yang, Y. Liang, C. Mu, C. Wei, Y.-P. Ting, G. Qiu and Y. Song | Bis-(3′-5′)-cyclic dimeric guanosine monophosphate (c-di-GMP) mediated membrane fouling in membrane bioreactor | Journal of Membrane Science | 646 120224 |
| 2022 | 10.1088/1748-9326/ac541b | Martinez-Feria, R. A., B. Basso and S. Kim | Boosting climate change mitigation potential of perennial lignocellulosic crops grown on marginal lands | Environmental Research Letters | 17(4) 044004 |
| 2022 | 10.1016/j.cbpa.2022.102207 | Wegner, S. A., R. M. Barocio-Galindo and J. L. Avalos | The bright frontiers of microbial metabolic optogenetics | Current Opinion in Chemical Biology | 71 |
| 2022 | 10.1038/s41564-022-01258-x | Adler, B. A., T. Hessler, B. F. Cress, A. Lahiri, V. K. Mutalik, R. Barrangou, J. Banfield and J. A. Doudna | Broad-spectrum CRISPR-Cas13a enables efficient phage genome editing | Nature Microbiology | 7(12) 1967–79 |
| 2022 | Schroeder, W., D. Olson and C. D. Maranas | Building Bottom-up Kinetic Models for Optimizing Cell-Free Lignocellulose Degradation Systems | AIChE Annual Meeting | ||
| 2022 | 10.1016/j.meegid.2022.105315 | Faleye, T. O. C., P. T. Skidmore, A. Elyaderani, A. Smith, N. Kaiser, S. Adhikari, A. Yanez, T. Perleberg, E. M. Driver, R. U. Halden, A. Varsani and M. Scotch | Canine picornaviruses detected in wastewater in Arizona, USA 2019 and 2021 | Infection, Genetics and Evolution | 103 105315 |
| 2022 | 10.1128/aem.00188-22 | Anderson, C. E., J. Zhang, L. M. Markillie, H. D. Mitchell, W. B. Chrisler, M. J. Gaffrey, G. Orr and J. S. Schilling | Capturing an Early Gene Induction Event during Wood Decay by the Brown Rot Fungus Rhodonia placenta | Applied and Environmental Microbiology | 88(8) |
| 2022 | 10.1029/2021GB007113 | Holmes, M. E., P. M. Crill, W. C. Burnett, C. K. McCalley, R. M. Wilson, S. Frolking, K. Y. Chang, W. J. Riley, R. K. Varner, S. B. Hodgkins, A. P. McNichol, S. R. Saleska, V. I. Rich and J. P. Chanton | Carbon accumulation, flux, and fate in stordalen mire, a permafrost peatland in transition | Global Biogeochemical Cycles | 36(1) |
| 2022 | 10.1038/s41587-021-01195-w | Liew, F. E., R. Nogle, T. Abdalla, B. J. Rasor, C. Canter, et al. | Carbon-negative production of acetone and isopropanol by gas fermentation at industrial pilot scale | Nature Biotechnology | 40(3) 335-344 |
| 2022 | 10.1021/acs.jafc.2c04251 | Lee, Y.-G., C. Kim, N. Kuanyshev, N. K. Kang, Z. Fatma, Z.-Y. Wu, M.-H. Cheng, V. Singh, Y. Yoshikuni, H. Zhao and Y.-S. Jin | Cas9-Based Metabolic Engineering of Issatchenkia orientalis for Enhanced Utilization of Cellulosic Hydrolysates | Journal of Agricultural and Food Chemistry | 70(38) 12085–94 |
| 2022 | 10.1039/D2RE00160H | Yun, D., Z. Zhang and D. W. Flaherty | Catalyst and reactor design considerations for selective production of acids by oxidative cleavage of alkenes and unsaturated fatty acids with H2O2 | Reaction Chemistry & Engineering | 7 2054–65 |
| 2022 | 10.1039/D2RE00275B | Kenny, J. K., D. G. Brandner, S. R. Neefe, W. E. Michener, Y. Román-Leshkov, G. T. Beckham and J. W. Medlin | Catalyst choice impacts aromatic monomer yields and selectivity in hydrogen-free reductive catalytic fractionation | Reaction Chemistry & Engineering | 7 2527–33 |
| 2022 | 10.1111/pce.14464 | Jardine, K. J., R. A. Dewhirst, S. Som, J. Lei, E. Tucker, R. P. Young, M. Portillo-Estrada, Y. Gao, L. Su, S. Fares, C. Castanha, H. V. Scheller and J. C. Mortimer | Cell wall ester modifications and volatile emission signatures of plant response to abiotic stress | Plant, Cell & Environment | 45(12) 3429–44 |
| 2022 | 10.1007/978-1-0716-1998-8_12 | Rasor, B. J., B. Vögeli, M. C. Jewett and A. S. Karim | Cell-Free Protein Synthesis for High-Throughput Biosynthetic Pathway Prototyping | Methods in Molecular Biology | 2433 199-215 |
| 2022 | 10.1038/s41467-022-30571-6 | Vögeli, B., L. Schulz, S. Garg, K. Tarasava, J. M. Clomburg, et al. | Cell-free prototyping enables implementation of optimized reverse β-oxidation pathways in heterotrophic and autotrophic bacteria | Nature Communications | 13(1) |
| 2022 | 10.1038/s41467-022-34585-y | Harding, K. J., K. A. Turk-Kubo, E. W. K. Mak, P. K. Weber, X. Mayali and J. P. Zehr | Cell-specific measurements show nitrogen fixation by particle-attached putative non-cyanobacterial diazotrophs in the North Pacific Subtropical Gyre | Nature Communications | 13(1) 6979 |
| 2022 | 10.1126/science.abb3634 | Volland, J.-M., S. Gonzalez-Rizzo, O. Gros, T. Tyml, N. Ivanova, et al. | A centimeter-long bacterium with DNA contained in metabolically active, membrane-bound organelles | Science | 376(6600) 1453–8 |
| 2022 | 10.3389/fbinf.2021.826370 | Hu, B., S. Canon, E. A. Eloe-Fadrosh, Anubhav, M. Babinski, et al. | Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale | Frontiers in Bioinformatics | 1 |
| 2022 | 10.1021/acssynbio.2c00061 | Baas-Thomas, M. S., S. B. Oehm, N. Ostrov and G. M. Church | Characterization of ColE1 Production for Robust tolC Plate Dual-Selection in E. coli | ACS Synthetic Biology | 11(6) 2009-2014 |
| 2022 | 10.1002/pro.4252 | Joyner, P. M., D. P. Tran, M. A. Zenaidee and J. A. Loo | Characterization of protein–ligand binding interactions of enoyl-ACP reductase (FabI) by native MS reveals allosteric effects of coenzymes and the inhibitor triclosan | Protein Science | 31(3) 568-579 |
| 2022 | 10.3390/ijms23116070 | Hengge, N. N., S. J. B. Mallinson, P. Pason, V. V. Lunin, M. Alahuhta, D. Chung, M. E. Himmel, J. Westpheling and Y. J. Bomble | Characterization of the Biomass Degrading Enzyme GuxA from Acidothermus cellulolyticus | International Journal of Molecular Sciences | 23(11) 6070 |
| 2022 | 10.15252/msb.202110785 | Vaiana, C. A., H. Kim, J. Cottet, K. Oai, Z. Ge, K. Conforti, A. M. King, A. J. Meyer, H. Chen, C. A. Voigt and C. R. Buie | Characterizing chemical signaling between engineered “microbial sentinels” in porous microplates | Molecular Systems Biology | 18(3) e10785 |
| 2022 | 10.3389/fmicb.2022.864895 | Cabugao, K. G. M., S. Gushgari-Doyle, S. S. Chacon, X. Wu, A. Bhattacharyya, N. Bouskill and R. Chakraborty | Characterizing Natural Organic Matter Transformations by Microbial Communities in Terrestrial Subsurface Ecosystems: A Critical Review of Analytical Techniques and Challenges | Frontiers in Microbiology | 13 |
| 2022 | 10.1021/acssuschemeng.2c00948 | Liang, L., Y.-Y. Wang, S. Bhagia, V. Sethuraman, Z. Yang, et al. | Chemical and Morphological Structure of Transgenic Switchgrass Organosolv Lignin Extracted by Ethanol, Tetrahydrofuran, and γ-Valerolactone Pretreatments | ACS Sustainable Chemistry & Engineering | 10(28) 9041–52 |
| 2022 | 10.1038/s41396-022-01331-7 | Rogers, T. J., J. Buongiorno, G. L. Jessen, M. O. Schrenk, J. A. Fordyce, J. M. de Moor, C. J. Ramírez, P. H. Barry, M. Yücel, M. Selci, A. Cordone, D. Giovannelli and K. G. Lloyd | Chemolithoautotroph distributions across the subsurface of a convergent margin | ISME Journal | |
| 2022 | 10.1242/dev.200565 | Bossi, F., B. Jin, E. Lazarus, H. Cartwright, Y. Dorone and S. Y. Rhee | CHIQUITA1 maintains the temporal transition between proliferation and differentiation in Arabidopsis thaliana | Development (Cambridge, England) | 149(11) |
| 2022 | 10.1094/pbiomes-12-21-0076-r | Kristy, B., A. A. Carrell, E. Johnston, J. R. Cumming, D. M. Klingeman, K. Gwinn, K. C. Syring, C. Skalla, S. Emrich and M. A. Cregger | Chronic Drought Differentially Alters the Belowground Microbiome of Drought-Tolerant and Drought-Susceptible Genotypes of Populus trichocarpa | Phytobiomes Journal | 6(4) 317–30 |
| 2022 | 10.1128/mbio.02949-21 | Wong, E. O.-Y., E. J. E. Brownlie, K. M. Ng, S. Kathirgamanathan, F. B. Yu, B. D. Merrill, K. C. Huang, A. Martin, C. Tropini and W. W. Navarre | The CIAMIB: a Large and Metabolically Diverse Collection of Inflammation-Associated Bacteria from the Murine Gut | mBio | 13(2) e02949-21 |
| 2022 | 10.1126/sciadv.abp8823 | Demarteau, J., A. R. Epstein, P. R. Christensen, M. Abubekerov, H. Wang, S. J. Teat, T. J. Seguin, C. W. Chan, C. D. Scown, T. P. Russell, J. D. Keasling, K. A. Persson and B. A. Helms | Circularity in mixed-plastic chemical recycling enabled by variable rates of polydiketoenamine hydrolysis | Science Advances | 8(29) eabp8823 |
| 2022 | 10.1111/gcb.16413 | Whalen, E. D., A. S. Grandy, N. W. Sokol, M. Keiluweit, J. Ernakovich, R. G. Smith and S. D. Frey | Clarifying the evidence for microbial- and plant-derived soil organic matter, and the path toward a more quantitative understanding | Global Change Biology | 28(24) 7167–85 |
| 2022 | 10.3389/fevo.2022.841824 | Wang, B. and S. D. Allison | Climate-Driven Legacies in Simulated Microbial Communities Alter Litter Decomposition Rates | Frontiers in Ecology and Evolution | 10 |
| 2022 | 10.3390/cancers14215369 | Pietrzak, B., K. Tomela, A. Olejnik-Schmidt, Ł. Galus, J. Mackiewicz, M. Kaczmarek, A. Mackiewicz and M. Schmidt | A Clinical Outcome of the Anti-PD-1 Therapy of Melanoma in Polish Patients Is Mediated by Population-Specific Gut Microbiome Composition | Cancers | 14(21) 5369 |
| 2022 | 10.3389/fbioe.2022.932363 | Nogle, R., S. Nagaraju, S. M. Utturkar, R. J. Giannone, V. Reynoso, C. Leang, R. L. Hettich, W. P. Mitchell, S. D. Simpson, M. C. Jewett, M. Köpke and S. D. Brown | Clostridium autoethanogenum isopropanol production via native plasmid pCA replicon | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1093/nar/gkac1075 | Tao, X. B., S. LaFrance, Y. Xing, A. A. Nava, Hector G. Martin, Jay D. Keasling and Tyler W. H. Backman | ClusterCAD 2.0: an updated computational platform for chimeric type I polyketide synthase and nonribosomal peptide synthetase design | Nucleic Acids Research | 51(D1) D532–8 |
| 2022 | 10.1038/s41467-022-31343-y | Gao, C., L. Xu, L. Montoya, M. Madera, J. Hollingsworth, L. Chen, E. Purdom, V. Singan, J. Vogel, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Co-occurrence networks reveal more complexity than community composition in resistance and resilience of microbial communities | Nature Communications | 13(1) |
| 2022 | 10.1111/ppl.13812 | Willick, I. R. and D. B. Lowry | Cold acclimation threshold induction temperatures of switchgrass ecotypes grown under a long and short photoperiod | Physiologia Plantarum | 174(6) e13812 |
| 2022 | 10.3389/fbioe.2022.1080024 | Gambacorta, F. V., J. J. Dietrich, J. J. Baerwald, S. J. Brown, Y. Su and B. F. Pfleger | Combinatorial library design for improving isobutanol production in Saccharomyces cerevisiae | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1371/journal.pcbi.1009906 | Wendering, P. and Z. Nikoloski | COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions | PLoS Computational Biology | 18(3) e1009906 |
| 2022 | 10.1128/aem.02109-21 | Yu, H., D. R. Speth, S. A. Connon, D. Goudeau, R. R. Malmstrom, T. Woyke and V. J. Orphan | Community Structure and Microbial Associations in Sediment-Free Methanotrophic Enrichment Cultures from a Marine Methane Seep | Applied and Environmental Microbiology | 88(11) |
| 2022 | 10.1021/acs.biochem.2c00367 | Hallberg, Z. F., E. C. Seth, K. Thevasundaram and M. E. Taga | Comparative Analysis of Corrinoid Profiles across Host-Associated and Environmental Samples | Biochemistry | |
| 2022 | 10.3390/ijms23063135 | Aulitto, M., L. Martinez-Alvarez, G. Fiorentino, D. Limauro, X. Peng and P. Contursi | A Comparative Analysis of Weizmannia coagulans Genomes Unravels the Genetic Potential for Biotechnological Applications | International Journal of Molecular Sciences | 23(6) 3135 |
| 2022 | 10.1093/femsyr/foac036 | Vanacloig-Pedros, E., K. J. Fisher, L. Liu, D. J. Debrauske, M. K. M. Young, M. Place, C. T. Hittinger, T. K. Sato and A. P. Gasch | Comparative chemical genomic profiling across plant-based hydrolysate toxins reveals widespread antagonism in fitness contributions | FEMS Yeast Research | 22(1) foac036 |
| 2022 | 10.1016/j.synbio.2022.02.007 | Gambacorta, F. V., E. R. Wagner, T. B. Jacobson, M. Tremaine, L. K. Muehlbauer, et al. | Comparative functional genomics identifies an iron-limited bottleneck in a Saccharomyces cerevisiae strain with a cytosolic-localized isobutanol pathway | Synthetic and Systems Biotechnology | 7(2) 738–49 |
| 2022 | 10.1128/msphere.00931-21 | Yang, Y., T. Schubert, Y. Lv, X. Li and J. Yan | Comparative Genomic Analysis Reveals Preserved Features in Organohalide-Respiring Sulfurospirillum Strains | mSphere | 7(1) e00931-21 |
| 2022 | 10.1016/j.jplph.2022.153791 | Hu, R., J. Zhang, S. Jawdy, A. Sreedasyam, A. Lipzen, et al. | Comparative genomics analysis of drought response between obligate CAM and C3 photosynthesis plants | Journal of Plant Physiology | 277 153791 |
| 2022 | 10.7717/peerj.12632 | Ramnarine, S., J. Jayaraman and A. Ramsubhag | Comparative genomics of the black rot pathogen Xanthomonas campestris pv. campestris and non-pathogenic co-inhabitant Xanthomonas melonis from Trinidad reveal unique pathogenicity determinants and secretion system profiles | PeerJ | 9 e12632 |
| 2022 | 10.3389/fenrg.2022.868181 | Choudhary, H., B. A. Simmons and J. M. Gladden | Comparative Study on the Pretreatment of Aspen and Maple With 1-Ethyl-3-methylimidazolium Acetate and Cholinium Lysinate | Frontiers in Energy Research | 10 |
| 2022 | 10.1111/nph.18443 | Tiedge, K., X. Li, A. T. Merrill, D. Davisson, Y. Chen, P. Yu, D. J. Tantillo, R. L. Last and P. Zerbe | Comparative transcriptomics and metabolomics reveal specialized metabolite drought stress responses in switchgrass (Panicum virgatum) | New Phytologist | 236(4) 1393–408 |
| 2022 | 10.1073/pnas.2122309119 | Yang, M., D. Liu, N. R. Baral, C.-Y. Lin, B. A. Simmons, J. M. Gladden, A. Eudes and C. D. Scown | Comparing in planta accumulation with microbial routes to set targets for a cost-competitive bioeconomy | Proceedings of the National Academy of Sciences | 119(30) e2122309119 |
| 2022 | 10.1145/3535508.3545536 | Babjac, A., T. Royalty, A. D. Steen and S. J. Emrich | A comparison of dimensionality reduction methods for large biological data | Proceedings of the 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, BCB 2022 | |
| 2022 | 10.1021/acssynbio.2c00386 | Halvorsen, T. M., D. P. Ricci, D. M. Park, Y. Jiao and M. C. Yung | Comparison of Kill Switch Toxins in Plant-Beneficial Pseudomonas fluorescens Reveals Drivers of Lethality, Stability, and Escape | ACS Synthetic Biology | 11(11) 3785–96 |
| 2022 | 10.1128/mra.00145-22 | Goff, J. L., L. M. Lui, T. N. Nielsen, M. P. Thorgersen, E. G. Szink, J.-M. Chandonia, F. L. Poole, J. Zhou, T. C. Hazen, A. P. Arkin and M. W. W. Adams | Complete Genome Sequence of Bacillus cereus Strain CPT56D-587-MTF, Isolated from a Nitrate- and Metal-Contaminated Subsurface Environment | Microbiology Resource Announcements | 11(5) e00145-22 |
| 2022 | 10.1128/mra.00455-21 | Yamamoto, K., Y. Yoneda, A. Makino, Y. Tanaka, X.-Y. Meng, et al. | Complete Genome Sequence of Luteitalea sp. Strain TBR-22 | Microbiology Resource Announcements | 11(2) e00455-21 |
| 2022 | 10.1128/mra.01205-21 | Cross, K. L., D. M. Klingeman and M. Podar | Complete Genome Sequence of Human Oral Saccharibacterium “Candidatus Nanosynbacter sp. HMT352” Strain KC1 | Microbiology Resource Announcements | 11(2) e01205-21 |
| 2022 | 10.1128/mra.00216-22 | Hawkins, J. P., P. A. Ordonez and I. J. Oresnik | Complete Genome Sequences of Rhizobium gallicum M101 and Two Potential New Rhizobium Species Isolated from Soils in Central Canada | Microbiology Resource Announcements | 11(7) e00216-22 |
| 2022 | 10.1128/mra.00987-21 | Park, M.-R., B. Fong, T. Tofaha, B. A. Simmons and S. Singer | Complete Genome Sequences of Five Isolated Pseudomonas Strains that Catabolize Pentose Sugars and Aromatic Compounds Obtained from Lignocellulosic Biomass | Microbiology Resource Announcements | 11(4) e00987-21 |
| 2022 | 10.17776/csj.1195087 | Korkmaz, E. M. | The Complete Mitogenome of Redheaded Pine Sawfly, Neodiprion lecontei (Hymenoptera: Diprionidae): Duplication of trnR Gene and Rearrangement in the ARNS1EF Gene Cluster | Cumhuriyet Science Journal | 43(4) 577–83 |
| 2022 | 10.1186/s13068-022-02119-9 | Biswal, A. K., N. N. Hengge, I. M. Black, M. A. Atmodjo, S. S. Mohanty, D. Ryno, M. E. Himmel, P. Azadi, Y. J. Bomble and D. Mohnen | Composition and yield of non-cellulosic and cellulosic sugars in soluble and particulate fractions during consolidated bioprocessing of poplar biomass by Clostridium thermocellum | Biotechnology for Biofuels and Bioproducts | 15(1) 23 |
| 2022 | 10.1016/j.isci.2022.104562 | Zomorrodi, A. R., C. Hemez, P. Arranz-Gibert, T. Wu, F. J. Isaacs and D. Segrè | Computational design and engineering of an Escherichia coli strain producing the nonstandard amino acid para-aminophenylalanine | iScience | 25(7) 104562 |
| 2022 | 10.1021/acssynbio.1c00189 | Wu, C., J. Yu, M. Guarnieri and W. Xiong | Computational Framework for Machine-Learning-Enabled 13C Fluxomics | ACS Synthetic Biology | 11(1) 103–15 |
| 2022 | 10.1016/j.pbi.2021.102171 | Wang, P., A. M. Schumacher and S.-H. Shiu | Computational prediction of plant metabolic pathways | Current Opinion in Plant Biology | 66 102171 |
| 2022 | 10.1111/1462-2920.15871 | Karasz, D. C., A. I. Weaver, D. H. Buckley and R. C. Wilhelm | Conditional filamentation as an adaptive trait of bacteria and its ecological significance in soils | Environmental Microbiology | 24(1) 1–17 |
| 2022 | 10.1016/j.jclepro.2022.134383 | Maitra, S. and V. Singh | A consolidated bioprocess design to produce multiple high-value platform chemicals from lignocellulosic biomass and its technoeconomic feasibility | Journal of Cleaner Production | 377 134383 |
| 2022 | 10.1111/geb.13489 | Gautam, S., U. Mishra, C. D. Scown, S. A. Wills, K. Adhikari and B. A. Drewniak | Continental United States may lose 1.8 petagrams of soil organic carbon under climate change by 2100 | Global Ecology and Biogeography | 31(6) 1147–60 |
| 2022 | 10.1016/j.joule.2022.08.005 | Stone, M. L., M. S. Webber, W. P. Mounfield, III, D. C. Bell, E. Christensen, A. R. C. Morais, Y. Li, E. M. Anderson, J. S. Heyne, G. T. Beckham and Y. Román-Leshkov | Continuous hydrodeoxygenation of lignin to jet-range aromatic hydrocarbons | Joule | 6(10) 2324–37 |
| 2022 | 10.1016/j.cub.2022.10.025 | Li, Y., H. Liu, J. L. Steenwyk, A. L. LaBella, M.-C. Harrison, M. Groenewald, X. Zhou, X.-X. Shen, T. Zhao, C. T. Hittinger and A. Rokas | Contrasting modes of macro and microsynteny evolution in a eukaryotic subphylum | Current Biology | 32(24) 5335–43.e4 |
| 2022 | 10.1039/D1GC04650K | Gilcher, E. B., H. Chang, G. W. Huber and J. A. Dumesic | Controlled hydrogenation of a biomass-derived platform chemical formed by aldol-condensation of 5-hydroxymethyl furfural (HMF) and acetone over Ru, Pd, and Cu catalysts | Green Chemistry | 24(5) 2146–59 |
| 2022 | 10.1016/j.ymben.2021.12.001 | Lee, J.-W. and C. T. Trinh | Controlling selectivity of modular microbial biosynthesis of butyryl-CoA-derived designer esters | Metabolic Engineering | 69 262–74 |
| 2022 | 10.1038/s41396-021-00916-y | Bates, C. T., A. Escalas, J. Kuang, L. Hale, Y. Wang, et al. | Conversion of marginal land into switchgrass conditionally accrues soil carbon but reduces methane consumption | ISME Journal | 16(1) 45590 |
| 2022 | 10.1016/j.fuel.2021.122459 | Rahaman, M. S., S. Tulaphol, M. A. Hossain, J. B. Jasinski, N. Sun, A. George, B. A. Simmons, T. Maihom, M. Crocker and N. Sathitsuksanoh | Cooperative Brønsted-Lewis acid sites created by phosphotungstic acid encapsulated metal–organic frameworks for selective glucose conversion to 5-hydroxymethylfurfural | Fuel | 310 122459 |
| 2022 | 10.3390/pr10040661 | Jia, Y., D. Kumar, J. K. Winkler-Moser, B. Dien, K. Rausch, M. E. Tumbleson and V. Singh | Coprocessing Corn Germ Meal for Oil Recovery and Ethanol Production: A Process Model for Lipid-Producing Energy Crops | Processes | 10(4) 661 |
| 2022 | 10.1038/s41559-022-01795-y | Wang, W., K. Tang, P. Wang, Z. Zeng, T. Xu, W. Zhan, T. Liu, Y. Wang and X. Wang | The coral pathogen Vibrio coralliilyticus kills non-pathogenic holobiont competitors by triggering prophage induction | Nature Ecology & Evolution | 6(8) 1132–44 |
| 2022 | 10.1093/gigascience/giac089 | Novichkov, P. S., J.-M. Chandonia and A. P. Arkin | CORAL: A framework for rigorous self-validated data modeling and integrative, reproducible data analysis | GigaScience | 11 giac089 |
| 2022 | 10.1186/s40168-022-01229-8 | ter Horst, A. M., C. Santos-Medellín, J. W. Sorensen, L. A. Zinke, R. M. Wilson, E. R. Johnston, G. Trubl, J. Pett-Ridge, S. J. Blazewicz, P. J. Hanson, J. P. Chanton, C. W. Schadt, J. E. Kostka and J. B. Emerson | Correction to: Minnesota peat viromes reveal terrestrial and aquatic niche partitioning for local and global viral populations (Microbiome, (2021), 9, 1, (233), 10.1186/s40168-021-01156-0) | Microbiome | 10(1) |
| 2022 | 10.1016/j.biortech.2021.126367 | Zhao, Z.-M., X. Meng, B. Scheidemantle, Y. Pu, Z.-H. Liu, B.-Z. Li, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Cosolvent enhanced lignocellulosic fractionation tailoring lignin chemistry and enhancing lignin bioconversion | Bioresource Technology | 347 126367 |
| 2022 | 10.1038/s41559-022-01892-y | Buessecker, S., A. F. Sarno, M. C. Reynolds, R. Chavan, J. Park, et al. | Coupled abiotic-biotic cycling of nitrous oxide in tropical peatlands | Nature Ecology & Evolution | 6(12) 1881–90 |
| 2022 | 10.1016/j.cej.2022.137117 | Mokomele, T., L. da Costa Sousa, A. Colbert, B. E. Dale, J. F. Görgens and V. Balan | Coupling AFEX and steam-exploded sugarcane residue pellets with a room temperature CIIII-activation step lowered enzyme dosage requirements for sugar conversion | Chemical Engineering Journal | 446 |
| 2022 | 10.1111/gcb.15970 | Hough, M., S. McCabe, S. R. Vining, E. Pickering Pedersen, R. M. Wilson, et al. | Coupling plant litter quantity to a novel metric for litter quality explains C storage changes in a thawing permafrost peatland | Global Change Biology | 28(3) 950-968 |
| 2022 | 10.1007/978-1-0716-2233-9_5 | Lal, P. B., F. Wells and P. J. Kiley | Creation of Markerless Genome Modifications in a Nonmodel Bacterium by Fluorescence-Aided Recombineering | Recombineering: Methods and Protocols | 53–70 |
| 2022 | 10.1073/pnas.2206744119 | Nethery, M. A., C. Hidalgo-Cantabrana, A. Roberts and R. Barrangou | CRISPR-based engineering of phages for in situ bacterial base editing | Proceedings of the National Academy of Sciences | 119(46) e2206744119 |
| 2022 | 10.1038/s41598-022-15388-z | Jedrzejczyk, D. J., L. D. Poulsen, M. Mohr, N. D. Damas, S. Schoffelen, A. Barghetti, R. Baumgartner, B. T. Weinert, T. Warnecke and R. T. Gill | CRISPR-Cas12a nucleases function with structurally engineered crRNAs: SynThetic trAcrRNA | Scientific Reports | 12(1) |
| 2022 | 10.1038/s41929-022-00747-w | Erickson, E., A. Bleem, E. Kuatsjah, A. Z. Werner, J. L. DuBois, J. E. McGeehan, L. D. Eltis and G. T. Beckham | Critical enzyme reactions in aromatic catabolism for microbial lignin conversion | Nature Catalysis | 5(2) 86–98 |
| 2022 | 10.1186/s12859-022-04593-2 | Paul, H. M., D. D. Istanto, J. Heldenbrand and M. E. Hudson | CROPSR: an automated platform for complex genome-wide CRISPR gRNA design and validation | BMC Bioinformatics | 23(1) 74 |
| 2022 | 10.1073/pnas.2119952119 | Abskharon, R., M. R. Sawaya, Q. Cao, B. A. Nguyen, D. R. Boyer, D. Cascio and D. S. Eisenberg | Cryo-EM structure of RNA-induced tau fibrils reveals a small C-terminal core that may nucleate fibril formation | Proceedings of the National Academy of Sciences of the United States of America | 119(15) |
| 2022 | 10.1038/s42003-022-03213-2 | Liu, W., M. Schoonen, T. Wang, S. McSweeney and Q. Liu | Cryo-EM structure of transmembrane AAA+ protease FtsH in the ADP state | Communications Biology | 5(1) 257 |
| 2022 | 10.3389/fmicb.2022.847563 | Kevorkian, R. T., K. Sipes, R. Winstead, R. Paul and K. G. Lloyd | Cryptic Methane-Cycling by Methanogens During Multi-Year Incubation of Estuarine Sediment | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/j.jbc.2022.102111 | Aoki, M., J. Vinokur, K. Motoyama, R. Ishikawa, M. Collazo, D. Cascio, M. R. Sawaya, T. Ito, J. U. Bowie and H. Hemmi | Crystal structure of mevalonate 3,5-bisphosphate decarboxylase reveals insight into the evolution of decarboxylases in the mevalonate metabolic pathways | Journal of Biological Chemistry | 298(7) |
| 2022 | 10.1007/978-1-0716-1585-0_14 | Navid, A. | Curating COBRA Models of Microbial Metabolism | Microbial Systems Biology: Methods and Protocols | 321–38 |
| 2022 | 10.1021/acssuschemeng.2c01375 | Sumer, Z. and R. C. Van Lehn | Data-Centric Development of Lignin Structure–Solubility Relationships in Deep Eutectic Solvents Using Molecular Simulations | ACS Sustainable Chemistry & Engineering | 10(31) 10144–56 |
| 2022 | 10.1128/aem.02280-21 | Kittredge, H. A., K. M. Dougherty and S. E. Evans | Dead but Not Forgotten: How Extracellular DNA, Moisture, and Space Modulate the Horizontal Transfer of Extracellular Antibiotic Resistance Genes in Soil | Applied and Environmental Microbiology | 88(7) e02280-21 |
| 2022 | 10.1016/j.ymben.2021.12.010 | Kuatsjah, E., C. W. Johnson, D. Salvachúa, A. Z. Werner, M. Zahn, et al. | Debottlenecking 4-hydroxybenzoate hydroxylation in Pseudomonas putida KT2440 improves muconate productivity from p-coumarate | Metabolic Engineering | 70 31–42 |
| 2022 | 10.1038/s42003-022-04069-2 | Diao, J., R. Carr and T. S. Moon | Deciphering the transcriptional regulation of the catabolism of lignin-derived aromatics in Rhodococcus opacus PD630 | Communications Biology | 5(1) |
| 2022 | 10.1186/s13068-022-02110-4 | Kubis, M. R., E. K. Holwerda and L. R. Lynd | Declining carbohydrate solubilization with increasing solids loading during fermentation of cellulosic feedstocks by Clostridium thermocellum: documentation and diagnostic tests | Biotechnology for Biofuels and Bioproducts | 15(1) 12 |
| 2022 | 10.1111/pce.14270 | G. Viana, W., J. D. Scharwies and J. R. Dinneny | Deconstructing the root system of grasses through an exploration of development, anatomy and function | Plant Cell and Environment | 45(3) 602-619 |
| 2022 | 10.3390/rs14215333 | Varela, S., X. Zheng, J. N. Njuguna, E. J. Sacks, D. P. Allen, J. Ruhter and A. D. B. Leakey | Deep Convolutional Neural Networks Exploit High-Spatial- and -Temporal-Resolution Aerial Imagery to Phenotype Key Traits in Miscanthus | Remote Sensing | 14(21) 5333 |
| 2022 | 10.1016/j.soilbio.2022.108697 | Button, E. S., J. Pett-Ridge, D. V. Murphy, Y. Kuzyakov, D. R. Chadwick and D. L. Jones | Deep-C storage: Biological, chemical and physical strategies to enhance carbon stocks in agricultural subsoils | Soil Biology and Biochemistry | 170 108697 |
| 2022 | 10.3389/fmicb.2022.855331 | de Raad, M., Y. V. Li, J. V. Kuehl, P. F. Andeer, S. M. Kosina, et al. | A Defined Medium for Cultivation and Exometabolite Profiling of Soil Bacteria | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/j.phytochem.2022.113122 | Elder, T., J. C. del Río, J. Ralph, J. Rencoret and H. Kim | Density functional theory study on the coupling and reactions of diferuloylputrescine as a lignin monomer | Phytochemistry | 197 113122 |
| 2022 | 10.1039/D1GC03854K | Martinez, D. V., A. Rodriguez, M. A. Juarros, E. J. Martinez, T. M. Alam, B. A. Simmons, K. L. Sale, S. W. Singer and M. S. Kent | Depolymerization of lignin for biological conversion through sulfonation and a chelator-mediated Fenton reaction | Green Chemistry | 24(4) 1627–43 |
| 2022 | 10.1021/acscatal.2c00133 | Chin, M., S. M. Suh, Z. Fang, E. L. Hegg and T. Diao | Depolymerization of Lignin via a Microscopic Reverse Biosynthesis Pathway | ACS Catalysis | 12(4) 2532-2539 |
| 2022 | 10.1007/s12275-022-2250-5 | Gim, D.-H., S.-Y. Lee, J. E. Han, J.-Y. Lee, S. M. Kang and J.-W. Bae | Description of Deefgea piscis sp. nov., and Deefgea tanakiae sp. nov., isolated from the gut of Korean indigenous fish | Journal of Microbiology | 60(11) 1061–9 |
| 2022 | 10.1016/j.syapm.2022.126326 | Aydin, F., I. B. Saticioglu, H. Ay, T. Kayman, E. Karakaya and S. Abay | Description of the two novel species of the genus Helicobacter: Helicobacter anatolicus sp. nov., and Helicobacter kayseriensis sp. nov., isolated from feces of urban wild birds | Systematic and Applied Microbiology | 45(4) 126326 |
| 2022 | 10.1002/cssc.202201230 | Zhang, X., J. Zhang, H. Yang, C. He, Y. Ke, S. Singh and G. Cheng | Determination of the Structures of Lignin Subunits and Nanoparticles in Solution by Small-Angle Neutron Scattering: Towards Improving Lignin Valorization | ChemSusChem | 15(19) e202201230 |
| 2022 | 10.1007/s10570-022-04551-4 | Song, Y., X. Meng, W. Jiang, B. R. Evans, H. Ben, Y. Zhang, Y. Pu, S. V. Pingali, B. H. Davison, S. Zhang, G. Han and A. J. Ragauskas | Deuterium incorporation into cellulose: a mini-review of biological and chemical methods | Cellulose | 29(8) 4269–86 |
| 2022 | 10.1021/acssynbio.1c00503 | Rybnicky, G. A., R. A. Dixon, R. M. Kuhn, A. S. Karim and M. C. Jewett | Development of a Freeze-Dried CRISPR-Cas12 Sensor for Detecting Wolbachia in the Secondary Science Classroom | ACS Synthetic Biology | 11(2) 835-842 |
| 2022 | 10.1128/aem.00401-22 | Tao, X., A. Zhou, M. L. Kempher, J. Liu, M. Peng, Y. Li, J. P. Michael, R. Chakraborty, A. M. Deutschbauer, A. P. Arkin and J. Zhou | Development of a Markerless Deletion Mutagenesis System in Nitrate-Reducing Bacterium Rhodanobacter denitrificans | Applied and Environmental Microbiology | 88(14) e00401-22 |
| 2022 | 10.1039/D2GC00488G | Morais, A. R. C., J. Zhang, H. Dong, W. G. Otto, T. Mokomele, D. Hodge, V. Balan, B. E. Dale, R. M. Lukasik and L. da Costa Sousa | Development of an ammonia pretreatment that creates synergies between biorefineries and advanced biomass logistics models | Green Chemistry | 24(11) 4443–62 |
| 2022 | 10.1094/mpmi-01-22-0011-ta | Appidi, M., A. Webb, D. L. Carper, S. S. Jawdy, R. J. Giannone, R. L. Hettich, J. L. Morrell-Falvey and P. E. Abraham | Development of an experimental approach to achieve spatially resolved plant root-associated metaproteomics using an agar-plate system | Molecular Plant-Microbe Interactions | |
| 2022 | 10.1126/sciadv.abm8145 | Zhuo, C., X. Wang, M. Docampo-Palacios, B. C. Sanders, N. L. Engle, T. J. Tschaplinski, J. I. Hendry, C. D. Maranas, F. Chen and R. A. Dixon | Developmental changes in lignin composition are driven by both monolignol supply and laccase specificity | Science Advances | 8(10) eabm8145 |
| 2022 | 10.1128/aem.02429-21 | Scales, N. C., A. B. Chase, S. S. Finks, A. A. Malik, C. Weihe, S. D. Allison, A. C. Martiny and J. B. H. Martiny | Differential Response of Bacterial Microdiversity to Simulated Global Change | Applied and Environmental Microbiology | 88(6) |
| 2022 | 10.1016/j.checat.2022.04.019 | Bleem, A., E. Kuatsjah, G. N. Presley, D. J. Hinchen, M. Zahn, D. C. Garcia, W. E. Michener, G. König, K. Tornesakis, M. N. Allemann, R. J. Giannone, J. E. McGeehan, G. T. Beckham and J. K. Michener | Discovery, characterization, and metabolic engineering of Rieske non-heme iron monooxygenases for guaiacol O-demethylation | Chem Catalysis | |
| 2022 | 10.1073/pnas.2109995119 | Xiao, N., A. Zhou, M. L. Kempher, B. Y. Zhou, Z. J. Shi, M. Yuan, X. Guo, L. Wu, D. Ning, J. V. Nostrand, M. K. Firestone and J. Zhou | Disentangling direct from indirect relationships in association networks | Proceedings of the National Academy of Sciences | 119(2) e2109995119 |
| 2022 | 10.1111/tpj.15603 | Fan, M., J. K. Jensen, S. Zemelis-Durfee, S.-J. Kim, J.-Y. Chan, C. M. Beaudry, F. Brandizzi and C. G. Wilkerson | Disruption of Brachypodium lichenase alters metabolism of mixed-linkage glucan and starch | The Plant Journal | 109(4) 927–39 |
| 2022 | 10.1002/prot.26269 | Soltanikazemi, E., F. Quadir, R. S. Roy, Z. Guo and J. Cheng | Distance-based reconstruction of protein quaternary structures from inter-chain contacts | Proteins: Structure, Function and Bioinformatics | 90(3) 720-731 |
| 2022 | 10.1186/s12859-022-04683-1 | Chen, X. and J. Cheng | DISTEMA: distance map-based estimation of single protein model accuracy with attentive 2D convolutional neural network | BMC Bioinformatics | 23 |
| 2022 | 10.1016/j.fgb.2022.103673 | Zhang, J., L. Meng Markillie, H. D. Mitchell, M. J. Gaffrey, G. Orr and J. S. Schilling | Distinctive carbon repression effects in the carbohydrate-selective wood decay fungus Rhodonia placenta | Fungal Genetics and Biology | 159 |
| 2022 | 10.1021/acs.est.2c05403 | Kravchenko, A. N., J. A. Richardson, J. H. Lee and A. K. Guber | Distribution of Mn Oxidation States in Grassland Soils and Their Relationships with Soil Pores | Environmental Science & Technology | 56(22) 16462–72 |
| 2022 | 10.1038/s41477-022-01139-5 | Sun, Y., D. H. Oh, L. Duan, P. Ramachandran, A. Ramirez, A. Bartlett, K. N. Tran, G. Wang, M. Dassanayake and J. R. Dinneny | Divergence in the ABA gene regulatory network underlies differential growth control | Nature Plants | 8(5) 549-560 |
| 2022 | 10.1073/pnas.2201160119 | Gan, L., K. Park, J. Chai, E. M. Updike, H. Kim, et al. | Divergent evolution of extreme production of variant plant monounsaturated fatty acids | Proceedings of the National Academy of Sciences | 119(30) e2201160119 |
| 2022 | 10.1016/j.syapm.2022.126358 | García-Santibañez, T., M. Rosenblueth, L. M. Bolaños, J. Martínez-Romero and E. Martínez-Romero | The divergent genome of Scorpion Group 1 (SG1) intracellular bacterium from the venom glands of Vaejovis smithi (Scorpiones: Vaejovidae) | Systematic and Applied Microbiology | 45(6) 126358 |
| 2022 | 10.1038/s41564-022-01244-3 | Conway, J. M., W. G. Walton, I. Salas-González, T. F. Law, C. A. Lindberg, L. E. Crook, S. M. Kosina, C. R. Fitzpatrick, A. D. Lietzan, T. R. Northen, C. D. Jones, O. M. Finkel, M. R. Redinbo and J. L. Dangl | Diverse MarR bacterial regulators of auxin catabolism in the plant microbiome | Nature Microbiology | 7(11) 1817–33 |
| 2022 | 10.1093/hr/uhac043 | Hu, X.-L., J. Zhang, R. Kaundal, R. Kataria, J. L. Labbé, J. C. Mitchell, T. J. Tschaplinski, G. A. Tuskan, Z.-M. Cheng and X. Yang | Diversity and conservation of plant small secreted proteins associated with arbuscular mycorrhizal symbiosis | Horticulture Research | 9 uhac043 |
| 2022 | 10.1111/nph.18407 | Steindorff, A. S., K. Seong, A. Carver, S. Calhoun, M. S. Fischer, et al. | Diversity of genomic adaptations to the post-fire environment in Pezizales fungi points to crosstalk between charcoal tolerance and sexual development | New Phytologist | 236(3) 1154-1167 |
| 2022 | 10.1002/cpz1.533 | Colovas, J., A. F. Bintarti, M. E. Mechan Llontop, K. L. Grady and A. Shade | Do-it-Yourself Mock Community Standard for Multi-Step Assessment of Microbiome Protocols | Current Protocols | 2(9) |
| 2022 | 10.1093/ee/nvab121 | Alred, B., N. Haan, D. A. Landis and M. Szűcs | Does the Presence of the Biological Control Agent, Hypena opulenta (Lepidoptera: Erebidae) on Swallow-Worts Deter Monarch Oviposition? | Environmental Entomology | 51(1) 77–82 |
| 2022 | 10.3390/metabo12040303 | Placido, D., N. Dong, B. Amer, C. Dong, G. Ponciano, T. Kahlon, M. Whalen, E. E. K. Baidoo and C. McMahan | Downregulation of Squalene Synthase Broadly Impacts Isoprenoid Biosynthesis in Guayule | Metabolites | 12(4) 303 |
| 2022 | 10.1128/mra.00983-22 | Babalola, O. O., V. F. Agunbiade and A. E. Fadiji | Draft Genome Sequence of Aeromonas caviae Strain A1-2, a Potential Plant Growth-Promoting Rhizospheric Bacterium | Microbiology Resource Announcements | 11(12) e00983-22 |
| 2022 | 10.1128/mra.00453-21 | Yamamoto, K., Y. Yoneda, A. Makino, Y. Tanaka, X.-Y. Meng, et al. | Draft Genome Sequence of Bryobacteraceae Strain F-183 | Microbiology Resource Announcements | 11(1) e00453-21 |
| 2022 | 10.1128/mra.00691-22 | Fu, H., A. Kugler, P. Huyck, R. L. Brigmon and E. A. Ottesen | Draft Genome Sequence of Cupriavidus basilensis SRS, a Bacterium Isolated from Stream Sediments | Microbiology Resource Announcements | 11(10) e00691-22 |
| 2022 | 10.1128/mra.01008-22 | Fadiji, A. E., A. S. Ayangbenro, A. O. Akanmu and O. O. Babalola | Draft Genome Sequence of Enterobacter mori AYS9, a Potential Plant Growth-Promoting Rhizobacterium | Microbiology Resource Announcements | 11(12) e01008-22 |
| 2022 | 10.1177/11769343211071114 | Alhindi, T. and R. Albdaiwi | Draft Genome Sequence of Oceanobacillus jordanicus Strain GSFE11, a Halotolerant Plant Growth-Promoting Bacterial Endophyte Isolated From the Jordan Valley | Evolutionary Bioinformatics | 18 1–6 |
| 2022 | 10.1128/mra.00938-21 | Trubitsyn, V., E. Rivkina and V. Shcherbakova | Draft Genome Sequence of a Methanogenic Archaeon from West Spitsbergen Permafrost | Microbiology Resource Announcements | 11(2) e00938-21 |
| 2022 | 10.1128/mra.00909-22 | Boone, G., K. Griffey and J. T. Cooper | Draft Genome Sequence of Cold-Tolerant Pseudomonas sp. Strain NKUCC02_KPG, Isolated from Old Alexandria Reservoir in Northern Kentucky, USA | Microbiology Resource Announcements | 11(11) e00909-22 |
| 2022 | 10.1128/mra.00951-21 | Ahmed, H., K. M. DeAngelis and M. A. Morrow | Draft Genome Sequence of Leifsonia poae Strain BS71, Isolated from a Drought Microcosm | Microbiology Resource Announcements | 11(1) e00951-21 |
| 2022 | 10.1128/mra.01125-21 | Mamphogoro, T. P., C. N. Kamutando, M. M. Maboko, O. A. Aiyegoro and O. O. Babalola | Draft Genome Sequence of Sweet Pepper Fruit Epiphyte-Associated Bacillus cereus HRT7.7 | Microbiology Resource Announcements | 11(2) e01125-21 |
| 2022 | 10.1128/mra.00471-22 | Huang, Y., M. K. Nobu, K. Igarashi and S. Kato | Draft Genome Sequence of the Alkaliphilic, Lithoautotrophic Homoacetogen Fuchsiella alkaliacetigena Z-7100T | Microbiology Resource Announcements | 11(8) e00471-22 |
| 2022 | 10.1128/mra.00294-22 | Kono, M., J. N. Martinez, T. Sato and S. Haruta | Draft Genome Sequence of the Thermophilic Unicellular Cyanobacterium Synechococcus sp. Strain C9 | Microbiology Resource Announcements | 11(8) e00294-22 |
| 2022 | 10.1128/mra.00874-22 | McLoon, A. L., T. T. Awad, M. F. Bogardus, M. G. Buono, K. A. Devine, et al. | Draft Genome Sequences for 6 Isolates of Endospore-Forming Class Bacilli Species Isolated from Soil from a Suburban, Wooded, Developed Space | Microbiology Resource Announcements | 11(11) e00874-22 |
| 2022 | 10.1128/mra.00201-22 | Sipes, K., R. Paul, T. C. Onstott, T. A. Vishnivetskaya and K. G. Lloyd | Draft Genome Sequences of 10 Pseudomonas sp. Isolates from the Active Layer of Permafrost in Ny Ålesund, Svalbard, Norway | Microbiology Resource Announcements | 11(6) e00201-22 |
| 2022 | 10.1128/mra.00246-22 | Saito, D., L. N. Lemos, A. T. R. N. Ferreira, C. P. B. Saito, R. F. d. Oliveira, F. d. S. Cannavan and S. M. Tsai | Draft Genome Sequences of Five Putatively Novel Saccharibacteria Species Assembled from the Human Oral Metagenome | Microbiology Resource Announcements | 11(7) e00246-22 |
| 2022 | 10.1128/mra.00730-22 | Babalola, O. O., N. A. Agbodjato, A. S. Ayangbenro, A. Adjanohoun and L. Baba-Moussa | Draft Genome Sequences of Four Strains of Plant Growth-Promoting Bacteria Associated with Maize Rhizosphere | Microbiology Resource Announcements | 11(11) e00730-22 |
| 2022 | 10.1128/mra.00360-22 | Yerlan, A., R. A. Daly, R. K. Afshar, M. Shaffer, K. C. Wrighton and B. B. McGivern | Draft Metagenome-Assembled Genome Sequences of Three Novel Ammonia-Oxidizing Nitrososphaera Strains Recovered from Agricultural Soils in Western Colorado | Microbiology Resource Announcements | 11(9) e00360-22 |
| 2022 | 10.3389/fpls.2021.769194 | Bouché, F., D. P. Woods, J. Linden, W. Li, K. S. Mayer, R. M. Amasino and C. Périlleux | EARLY FLOWERING 3 and Photoperiod Sensing in Brachypodium distachyon | Frontiers in Plant Science | 12 |
| 2022 | 10.1038/s41396-022-01232-9 | Dove, N. C., N. Taş and S. C. Hart | Ecological and genomic responses of soil microbiomes to high-severity wildfire: linking community assembly to functional potential | The ISME Journal | 16(7) 1853–63 |
| 2022 | 10.1007/s10533-021-00851-2 | Graham, E. B. and K. S. Hofmockel | Ecological stoichiometry as a foundation for omics-enabled biogeochemical models of soil organic matter decomposition | Biogeochemistry | 157(1) 31–50 |
| 2022 | 10.1021/acssuschemeng.2c04204 | Cortés-Peña, Y. R., C. Kurambhatti, K. Eilts, V. Singh and J. S. Guest | Economic and Environmental Sustainability of Vegetative Oil Extraction Strategies at Integrated Oilcane and Oil-Sorghum Biorefineries | ACS Sustainable Chemistry & Engineering | 10(42) 13980–90 |
| 2022 | 10.1111/1462-2920.16173 | Goff, J. L., E. G. Szink, M. P. Thorgersen, A. D. Putt, Y. Fan, et al. | Ecophysiological and genomic analyses of a representative isolate of highly abundant Bacillus cereus strains in contaminated subsurface sediments | Environmental Microbiology | 24(11) 5546–60 |
| 2022 | 10.1111/nph.18010 | Moore, J. A. M., P. E. Abraham, Joshua K. Michener, W. Muchero and Melissa A. Cregger | Ecosystem consequences of introducing plant growth promoting rhizobacteria to managed systems and potential legacy effects | New Phytologist | 234(6) 1914–8 |
| 2022 | 10.1111/nph.17940 | Zhang, F., A. Labourel, M. Haon, M. Kemppainen, E. Da Silva Machado, N. Brouilly, C. Veneault-Fourrey, A. Kohler, M.-N. Rosso, A. Pardo, B. Henrissat, J.-G. Berrin and F. Martin | The ectomycorrhizal basidiomycete Laccaria bicolor releases a GH28 polygalacturonase that plays a key role in symbiosis establishment | New Phytologist | 233(6) 2534–47 |
| 2022 | 10.1007/978-981-16-9507-0_11 | Marqués-Gálvez, J. E., C. Veneault-Fourrey and A. Kohler | Ectomycorrhizal Symbiosis: From Genomics to Trans-Kingdom Molecular Communication and Signaling | Microbial Cross-talk in the Rhizosphere | 273–96 |
| 2022 | 10.1016/j.mib.2022.102144 | Donohue, T. J. | Editorial overview: Microbial activities powering society | Current Opinion in Microbiology | 67 102144 |
| 2022 | 10.3389/frai.2022.959470 | van Dijk, A. D. J., S.-H. Shiu and D. de Ridder | Editorial: Artificial Intelligence and Machine Learning Applications in Plant Genomics and Genetics | Frontiers in Artificial Intelligence | 5 |
| 2022 | 10.3389/ffunb.2022.1063609 | Gabaldón, T. and C. T. Hittinger | Editorial: Genomic insights on fungal hybrids | Frontiers in Fungal Biology | 3 |
| 2022 | 10.3389/fmicb.2022.940610 | Kim, S. R., C. A. Eckert and R. Mazzoli | Editorial: Microorganisms for Consolidated 2nd Generation Biorefining | Frontiers in Microbiology | 13 940610 |
| 2022 | 10.3389/fpls.2022.866164 | Cesarino, I., A. Eudes, B. Urbanowicz and M. Xie | Editorial: Phenylpropanoid Systems Biology and Biotechnology | Frontiers in Plant Science | 13 866164 |
| 2022 | 10.1016/j.fluid.2022.113559 | Mohan, M., N. Kumar, V. V. Goud, B. A. Simmons, K. L. Sale, J. M. Gladden, S. Singh and T. Banerjee | Effect of cosolvent on the solubility of glucose in ionic liquids: Experimental and molecular dynamics simulations | Fluid Phase Equilibria | 562 113559 |
| 2022 | 10.1007/s00705-022-05412-y | Muhle, A. A., N. A. Palmer, S. J. Edme, G. Sarath, G. Yuen, R. B. Mitchell and S. Tatineni | Effect of cultivar and temperature on the synergistic interaction between panicum mosaic virus and satellite panicum mosaic virus in switchgrass | Archives of Virology | 167(5) 1247-1256 |
| 2022 | 10.17221/171/2021-PPS | Adeleke, S. B., S. A. Ayangbenro and O. O. Babalola | Effect of endophytic bacterium, Stenotrophomonas maltophilia JVB5 on sunflowers | Plant Protection Science | 58(3) 185–98 |
| 2022 | 10.3389/fmicb.2022.822541 | Lupini, S., J. Peña-Bahamonde, G. Bonito and D. F. Rodrigues | Effect of Endosymbiotic Bacteria on Fungal Resistance Toward Heavy Metals | Frontiers in Microbiology | 13 |
| 2022 | 10.3389/fpls.2022.943585 | Johnston, C., L. T. García Navarrete, E. Ortiz, T. B. Romsdahl, A. Guzha, K. D. Chapman, E. Grotewold and A. P. Alonso | Effective Mechanisms for Improving Seed Oil Production in Pennycress (Thlaspi arvense L.) Highlighted by Integration of Comparative Metabolomics and Transcriptomics | Frontiers in Plant Science | 13 |
| 2022 | 10.3389/fenvs.2021.821882 | Putt, A. D., E. R. Kelly, K. A. Lowe, M. Rodriguez and T. C. Hazen | Effects of Cone Penetrometer Testing on Shallow Hydrogeology at a Contaminated Site | Frontiers in Environmental Science | 9 |
| 2022 | 10.1007/s13399-022-03359-3 | Cheng, M.-H., S. Maitra, A. N. C. Clennon, M. Appell, B. S. Dien and V. Singh | The effects of sequential hydrothermal-mechanical refining pretreatment on cellulose structure changes and sugar recoveries | Biomass Conversion and Biorefinery | |
| 2022 | 10.1093/femsec/fiac069 | Woolet, J., E. Whitman, M. A. Parisien, D. K. Thompson, M. D. Flannigan and T. Whitman | Effects of short-interval reburns in the boreal forest on soil bacterial communities compared to long-interval reburns | FEMS Microbiology Ecology | 98(8) |
| 2022 | 10.1021/acscatal.2c02445 | Gilcher, E. B., H. Chang, M. Rebarchik, G. W. Huber and J. A. Dumesic | Effects of Water Addition to Isopropanol for Hydrogenation of Compounds Derived from 5-Hydroxymethyl Furfural over Pd, Ru, and Cu Catalysts | ACS Catalysis | 12(16) 10186-10198 |
| 2022 | 10.1126/sciadv.abo0902 | Mou, Q., X. Xue, Y. Ma, M. Banik, V. Garcia, W. Guo, J. Wang, T. Song, L.-Q. Chen and Y. Lu | Efficient delivery of a DNA aptamer-based biosensor into plant cells for glucose sensing through thiol-mediated uptake | Science Advances | 8(26) eabo0902 |
| 2022 | 10.1021/acssynbio.1c00522 | VanArsdale, E., J. Pitzer, S. Wang, K. Stephens, C.-y. Chen, G. F. Payne and W. E. Bentley | Electrogenetic Signal Transmission and Propagation in Coculture to Guide Production of a Small Molecule, Tyrosine | ACS Synthetic Biology | 11(2) 877–87 |
| 2022 | 10.1021/acs.chemrev.1c00879 | Saha, A., S. S. Nia and J. A. Rodríguez | Electron Diffraction of 3D Molecular Crystals | Chemical Reviews | 122(17) 13883-13914 |
| 2022 | 10.3390/microorganisms10010080 | Saini, M. K., S. Yoshida, A. Sebastian, E. Hara, H. Tamaki, N. T. Soulier, I. Albert, S. Hanada, M. Tank and D. A. Bryant | Elioraea tepida, sp. nov., a Moderately Thermophilic Aerobic Anoxygenic Phototrophic Bacterium Isolated from the Mat Community of an Alkaline Siliceous Hot Spring in Yellowstone National Park, WY, USA | Microorganisms | 10(1) 80 |
| 2022 | 10.3389/fpls.2022.787265 | Clark, T. J. and J. Schwender | Elucidation of Triacylglycerol Overproduction in the C4 Bioenergy Crop Sorghum bicolor by Constraint-Based Analysis | Frontiers in Plant Science | 13 |
| 2022 | 10.1111/gcbb.12927 | Malmstrom, C. M., A. K. Busch, E. A. Cole, P. Trebicki, P. Bernardo, A. K. Brown, D. A. Landis and B. P. Werling | Emerging wild virus of native grass bioenergy feedstock is well-established in the Midwestern USA and associated with premature stand senescence | GCB Bioenergy | 14(4) 463–80 |
| 2022 | 10.1007/s43393-022-00136-1 | Orr, J. S., E. Zen, X. Wang and C. V. Rao | Emulsion-based evolution of Escherichia coli for higher growth yield on D-xylose identifies central role of cyclic AMP | Systems Microbiology and Biomanufacturing | |
| 2022 | 10.1107/s2059798321011761 | Lian, R., B. Huang, L. Wang, Q. Liu, Y. Lin and H. Ling | End-to-end orientation estimation from 2D cryo-EM images | Acta Crystallographica Section D: Structural Biology | 78(Pt 2) 174–86 |
| 2022 | 10.1038/s42003-022-04336-2 | Valencia, L. E., M. R. Incha, M. Schmidt, A. N. Pearson, M. G. Thompson, J. B. Roberts, M. Mehling, K. Yin, N. Sun, A. Oka, P. M. Shih, L. M. Blank, J. Gladden and J. D. Keasling | Engineering Pseudomonas putida KT2440 for chain length tailored free fatty acid and oleochemical production | Communications Biology | 5(1) 1363 |
| 2022 | 10.3389/fpls.2022.943349 | De Meester, B., P. Oyarce, R. Vanholme, R. Van Acker, Y. Tsuji, T. Vangeel, S. Van den Bosch, J. Van Doorsselaere, B. Sels, J. Ralph and W. Boerjan | Engineering Curcumin Biosynthesis in Poplar Affects Lignification and Biomass Yield | Frontiers in Plant Science | 13 |
| 2022 | 10.1186/s13068-022-02235-6 | Wang, X., E. E. K. Baidoo, R. Kakumanu, S. Xie, A. Mukhopadhyay and T. S. Lee | Engineering isoprenoids production in metabolically versatile microbial host Pseudomonas putida | Biotechnology for Biofuels and Bioproducts | 15(1) 137 |
| 2022 | 10.1016/j.copbio.2022.102730 | Deter, H. S. and T. Lu | Engineering microbial consortia with rationally designed cellular interactions | Current Opinion in Biotechnology | 76 102730 |
| 2022 | 10.1016/j.mec.2022.e00207 | Lin, C.-Y., Y. Tian, K. Nelson-Vasilchik, J. Hague, R. Kakumanu, et al. | Engineering sorghum for higher 4-hydroxybenzoic acid content | Metabolic Engineering Communications | 15 e00207 |
| 2022 | 10.1007/s10529-021-03206-x | Khan, J. A., A. M. Guss and K. C. Kao | Enhancing transcription in Escherichia coli and Pseudomonas putida using bacteriophage lambda anti-terminator protein Q | Biotechnology Letters | 44(2) 253–8 |
| 2022 | 10.1080/10643389.2021.2024484 | Kopittke, P. M., A. A. Berhe, Y. Carrillo, T. R. Cavagnaro, D. Chen, et al. | Ensuring planetary survival: the centrality of organic carbon in balancing the multifunctional nature of soils | Critical Reviews in Environmental Science and Technology | 52(23) 4308–24 |
| 2022 | 10.1073/pnas.2101084119 | Lark, T. J., N. P. Hendricks, A. Smith, N. Pates, S. A. Spawn-Lee, M. Bougie, E. G. Booth, C. J. Kucharik and H. K. Gibbs | Environmental outcomes of the US Renewable Fuel Standard | Proceedings of the National Academy of Sciences | 119(9) e2101084119 |
| 2022 | 10.1021/acsmaterialsau.2c00006 | Smith, P. J., T. M. Curry, J.-Y. Yang, W. J. Barnes, S. J. Ziegler, A. Mittal, K. W. Moremen, W. S. York, Y. J. Bomble, M. J. Peña and B. R. Urbanowicz | Enzymatic Synthesis of Xylan Microparticles with Tunable Morphologies | ACS Materials Au | |
| 2022 | 10.1016/j.crbiot.2021.12.002 | Banerjee, D., M. A. Jindra, A. J. Linot, B. F. Pfleger and C. D. Maranas | EnZymClass: Substrate specificity prediction tool of plant acyl-ACP thioesterases based on ensemble learning | Current Research in Biotechnology | 4 1–9 |
| 2022 | 10.1128/mmbr.00041-22 | Lankiewicz, T. S., S. P. Lillington and M. A. O’Malley | Enzyme Discovery in Anaerobic Fungi (Neocallimastigomycetes) Enables Lignocellulosic Biorefinery Innovation | Microbiology and Molecular Biology Reviews | 86(4) e00041-22 |
| 2022 | 10.1021/acssynbio.1c00367 | Kassaw, T. K., A. J. Paton and G. Peers | Episome-Based Gene Expression Modulation Platform in the Model Diatom Phaeodactylum tricornutum | ACS Synthetic Biology | 11(1) 191-204 |
| 2022 | 10.1371/journal.pgen.1010270 | Lakey, B. D., K. S. Myers, F. Alberge, E. L. Mettert, P. J. Kiley, D. R. Noguera and T. J. Donohue | The essential Rhodobacter sphaeroides CenKR two-component system regulates cell division and envelope biosynthesis | PLoS Genetics | 18(6) e1010270 |
| 2022 | 10.1021/acssuschemeng.1c07442 | Cordon, M. J., J. Zhang, N. R. Samad, J. W. Harris, K. A. Unocic, M. Li, D. Liu and Z. Li | Ethanol Conversion to C4+ Olefins over Bimetallic Copper- And Lanthanum-Containing Beta Zeolite Catalysts | ACS Sustainable Chemistry & Engineering | 10(18) 5702–7 |
| 2022 | 10.1016/j.csbj.2022.06.037 | Walker, A. M., A. Cliff, J. Romero, M. B. Shah, P. Jones, J. G. Felipe Machado Gazolla, D. A. Jacobson and D. Kainer | Evaluating the performance of random forest and iterative random forest based methods when applied to gene expression data | Computational and Structural Biotechnology Journal | 20 3372–86 |
| 2022 | 10.1186/s13068-022-02245-4 | Lin, C.-Y., G. M. Geiselman, D. Liu, H. D. Magurudeniya, A. Rodriguez, et al. | Evaluation of engineered low-lignin poplar for conversion into advanced bioproducts | Biotechnology for Biofuels and Bioproducts | 15(1) 145 |
| 2022 | 10.1016/j.cj.2022.04.005 | Li, J., D. P. Schachtman, C. F. Creech, L. Wang, Y. Ge and Y. Shi | Evaluation of UAV-derived multimodal remote sensing data for biomass prediction and drought tolerance assessment in bioenergy sorghum | Crop Journal | |
| 2022 | 10.1002/eco.2475 | Saha, A., E. H. Boughton, H. Li, G. Sonniér, N. Gomez-Casanovas, N. McMillan and X. Zhang | Evapotranspiration in a subtropical wetland savanna using low-cost lysimeter, eddy covariance and modelling approaches | Ecohydrology | |
| 2022 | 10.1038/s41396-021-01062-1 | Kang-Yun, C. S., X. Liang, P. Dershwitz, W. Gu, A. Schepers, et al. | Evidence for methanobactin “Theft” and novel chalkophore production in methanotrophs: impact on methanotrophic-mediated methylmercury degradation | ISME Journal | 16(1) 211-220 |
| 2022 | 10.1016/j.tig.2021.08.013 | Harrison, M.-C., A. L. LaBella, C. T. Hittinger and A. Rokas | The evolution of the GALactose utilization pathway in budding yeasts | Trends in Genetics | 38(1) 97–106 |
| 2022 | 10.1002/prot.26250 | Lubin, J. H., C. Zardecki, E. M. Dolan, C. Lu, Z. Shen, et al. | Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first 6 months of the COVID-19 pandemic | Proteins: Structure, Function and Bioinformatics | 90(5) 1054-1080 |
| 2022 | 10.1016/j.jbc.2022.102122 | Koper, K., S. W. Han, D. C. Pastor, Y. Yoshikuni and H. A. Maeda | Evolutionary origin and functional diversification of aminotransferases | Journal of Biological Chemistry | 298(8) |
| 2022 | 10.1111/nph.17892 | Looney, B., S. Miyauchi, E. Morin, E. Drula, P. E. Courty, et al. | Evolutionary transition to the ectomycorrhizal habit in the genomes of a hyperdiverse lineage of mushroom-forming fungi | New Phytologist | 233(5) 2294–309 |
| 2022 | 10.1002/btpr.3276 | Suthers, P. F. and C. D. Maranas | Examining organic acid production potential and growth-coupled strategies in Issatchenkia orientalis using constraint-based modeling | Biotechnology Progress | 38(5) e3276 |
| 2022 | 10.3389/ffunb.2022.808578 | Villalobos Solis, M. I., N. L. Engle, M. K. Spangler, S. Cottaz, S. Fort, J. Maeda, J.-M. Ané, T. J. Tschaplinski, J. L. Labbé, R. L. Hettich, P. E. Abraham and T. A. Rush | Expanding the Biological Role of Lipo-Chitooligosaccharides and Chitooligosaccharides in Laccaria bicolor Growth and Development | Frontiers in Fungal Biology | 3 |
| 2022 | 10.1038/s41598-022-11653-3 | Liu, H., M. A. Arbing and J. U. Bowie | Expanding the use of ethanol as a feedstock for cell-free synthetic biochemistry by implementing acetyl-CoA and ATP generating pathways | Scientific Reports | 12(1) |
| 2022 | 10.1021/acssynbio.2c00119 | Borchert, A. J., A. Bleem and G. T. Beckham | Experimental and Analytical Approaches for Improving the Resolution of Randomly Barcoded Transposon Insertion Sequencing (RB-TnSeq) Studies | ACS Synthetic Biology | 11(6) 2015–21 |
| 2022 | 10.1038/s43705-022-00109-4 | Albright, M. B. N., L. V. Gallegos-Graves, K. L. Feeser, K. Montoya, J. B. Emerson, M. Shakya and J. Dunbar | Experimental evidence for the impact of soil viruses on carbon cycling during surface plant litter decomposition | ISME Communications | 2(1) 24 |
| 2022 | 10.1111/tpj.15682 | Gomez-Cano, F., Y. H. Chu, M. Cruz-Gomez, H. M. Abdullah, Y. S. Lee, D. J. Schnell and E. Grotewold | Exploring Camelina sativa lipid metabolism regulation by combining gene co-expression and DNA affinity purification analyses | Plant Journal | 110(2) 589-606 |
| 2022 | 10.1021/acs.jchemed.2c00221 | Goes, S. L., J. E. Nutting, N. J. Hill, S. S. Stahl and M. Rafiee | Exploring Electrosynthesis: Bulk Electrolysis and Cyclic Voltammetry Analysis of the Shono Oxidation | Journal of Chemical Education | 99(9) 3242–8 |
| 2022 | 10.1042/ETLS20210267 | Duarte, J. M., S. Dutta, D. S. Goodsell and S. K. Burley | Exploring protein symmetry at the RCSB Protein Data Bank | Emerging Topics in Life Sciences | 6(3) 231-243 |
| 2022 | 10.1021/acssuschemeng.2c01160 | Tian, Y., M. Yang, C.-Y. Lin, J.-H. Park, C.-Y. Wu, et al. | Expression of Dehydroshikimate Dehydratase in Sorghum Improves Biomass Yield, Accumulation of Protocatechuate, and Biorefinery Economics | ACS Sustainable Chemistry & Engineering | 10(38) 12520–8 |
| 2022 | 10.1021/acsnano.1c08043 | Murray, K. A., D. Evans, M. P. Hughes, M. R. Sawaya, C. J. Hu, K. N. Houk and D. Eisenberg | Extended β-Strands Contribute to Reversible Amyloid Formation | ACS Nano | 16(2) 2154-2163 |
| 2022 | 10.3389/fmicb.2022.915291 | Houfani, A. A., M. Basen, D. G. Olson and S. E. Blumer-Schuette | Extremophiles in Lignocellulose Degradation | Frontiers in Microbiology | 13 915291 |
| 2022 | 10.1146/annurev-phyto-021320-010717 | Busby, P. E., G. Newcombe, A. S. Neat and C. Averill | Facilitating Reforestation Through the Plant Microbiome: Perspectives from the Phyllosphere | Annual Review of Phytopathology | 60 337-356 |
| 2022 | 10.1002/saj2.20382 | Bhattacharyya, A., R. K. Kukkadapu, M. Bowden, J. Pett-Ridge and P. S. Nico | Fast redox switches lead to rapid transformation of goethite in humid tropical soils: A Mössbauer spectroscopy study | Soil Science Society of America Journal | 86(2) 264–74 |
| 2022 | 10.1111/1365-2435.14070 | Gibert, J. P., Z. Y. Han, D. J. Wieczynski, S. Votzke and A. Yammine | Feedbacks between size and density determine rapid eco-phenotypic dynamics | Functional Ecology | 36(7) 1668-1680 |
| 2022 | 10.1371/journal.pgen.1010156 | Price, M. N., A. M. Deutschbauer and A. P. Arkin | Filling gaps in bacterial catabolic pathways with computation and high-throughput genetics | PLoS Genetics | 18(4) e1010156 |
| 2022 | 10.1111/nph.18390 | Scholz, P., K. D. Chapman, R. T. Mullen and T. Ischebeck | Finding new friends and revisiting old ones – how plant lipid droplets connect with other subcellular structures | New Phytologist | 236(3) 833-838 |
| 2022 | 10.1016/j.agrformet.2022.109175 | Shirkey, G., R. John, J. Chen, K. Dahlin, M. Abraha, P. Sciusco, C. Lei and D. E. Reed | Fine resolution remote sensing spectra improves estimates of gross primary production of croplands | Agricultural and Forest Meteorology | 326 109175 |
| 2022 | 10.1371/journal.pcbi.1009828 | Canto-Encalada, G., D. Tec-Campos, J. D. Tibocha-Bonilla, K. Zengler, A. Zepeda and C. Zuñiga | Flux balance analysis of the ammonia-oxidizing bacterium Nitrosomonas europaea ATCC19718 unravels specific metabolic activities while degrading toxic compounds | PLoS Computational Biology | 18(2) |
| 2022 | 10.1038/s41477-022-01146-6 | Huang, X., W. Wang, T. Gong, D. Wickell, L.-Y. Kuo, et al. | The flying spider-monkey tree fern genome provides insights into fern evolution and arborescence | Nature Plants | 8(5) 500–12 |
| 2022 | 10.1111/1365-2435.14091 | Gibert, J. P., J. M. Grady and A. I. Dell | Food web consequences of thermal asymmetries | Functional Ecology | 36(8) 1887-1899 |
| 2022 | 10.1186/s13007-022-00903-0 | Tiedge, K., J. Destremps, J. Solano-Sanchez, M. L. Arce-Rodriguez and P. Zerbe | Foxtail mosaic virus-induced gene silencing (VIGS) in switchgrass (Panicum virgatum L.) | Plant Methods | 18(1) |
| 2022 | 10.1002/ecs2.3968 | Nugent, A. and S. D. Allison | A framework for soil microbial ecology in urban ecosystems | Ecosphere | 13(3) |
| 2022 | 10.1016/j.jmva.2021.104806 | Li, Y., Y. Qiu and Y. Xu | From multivariate to functional data analysis: Fundamentals, recent developments, and emerging areas | Journal of Multivariate Analysis | 188 |
| 2022 | 10.1094/pbiomes-05-21-0033-mr | The Inter-BRC Microbiome Workshop Consortium, A. Howe, G. Bonito, M.-Y. Chou, M. A. Cregger, A. Fedders, J. L. Field, H. G. Martin, J. L. Labbé, M. E. Mechan-Llontop, T. R. Northen, A. Shade and T. J. Tschaplinski | Frontiers and Opportunities in Bioenergy Crop Microbiome Research Networks | Phytobiomes Journal | 6(2) 118–26 |
| 2022 | 10.1099/ijsem.0.005188 | Bae, S. S., Y.-H. Jung, Y. M. Kwon, D. Chung, G. Choi, K. Cho, W.-J. Yu and K. Baek | Fulvivirga lutea sp. nov., a marine bacterium isolated from seawater | International Journal of Systematic and Evolutionary Microbiology | 72(1) |
| 2022 | 10.1128/aem.01857-21 | Kuil, T., S. Hon, J. Yayo, C. Foster, G. Ravagnan, C. D. Maranas, L. R. Lynd, D. G. Olson and A. J. A. v. Maris | Functional Analysis of H+-Pumping Membrane-Bound Pyrophosphatase, ADP-Glucose Synthase, and Pyruvate Phosphate Dikinase as Pyrophosphate Sources in Clostridium thermocellum | Applied and Environmental Microbiology | 88(4) e01857-21 |
| 2022 | 10.1111/nph.18006 | Pereira, W. J., S. Knaack, S. Chakraborty, D. Conde, R. A. Folk, P. M. Triozzi, K. M. Balmant, C. Dervinis, H. W. Schmidt, J. M. Ané, S. Roy and M. Kirst | Functional and comparative genomics reveals conserved noncoding sequences in the nitrogen-fixing clade | New Phytologist | 234(2) 634-649 |
| 2022 | 10.3390/dairy3040055 | Apostolakos, I., S. Paramithiotis and M. Mataragas | Functional and Safety Characterization of Weissella paramesenteroides Strains Isolated from Dairy Products through Whole-Genome Sequencing and Comparative Genomics | Dairy | 3(4) 799–813 |
| 2022 | 10.1016/j.jbc.2022.101761 | Zhang, B., G. R. Munske, V. I. Timokhin, J. Ralph, D. R. Davydov, W. Vermerris, S. E. Sattler and C. Kang | Functional and structural insight into the flexibility of cytochrome P450 reductases from Sorghum bicolor and its implications for lignin composition | Journal of Biological Chemistry | 298(4) 101761 |
| 2022 | 10.1093/nar/gkac985 | Roberts, A., M. A. Nethery and R. Barrangou | Functional characterization of diverse type I-F CRISPR-associated transposons | Nucleic Acids Research | 50(20) 11670–81 |
| 2022 | 10.1093/molbev/msac202 | Krause, D. J. and C. T. Hittinger | Functional Divergence in a Multi-gene Family Is a Key Evolutionary Innovation for Anaerobic Growth in Saccharomyces cerevisiae | Molecular Biology and Evolution | 39(10) msac202 |
| 2022 | 10.3389/fpls.2022.805101 | Sheng, X., C. Y. Hsu, C. Ma and A. M. Brunner | Functional Diversification of Populus FLOWERING LOCUS D-LIKE3 Transcription Factor and Two Paralogs in Shoot Ontogeny, Flowering, and Vegetative Phenology | Frontiers in Plant Science | 13 |
| 2022 | 10.1093/g3journal/jkac224 | Case, N. T., J. Berman, D. S. Blehert, R. A. Cramer, C. Cuomo, et al. | The future of fungi: threats and opportunities | G3 Genes|Genomes|Genetics | 12(11) jkac224 |
| 2022 | 10.1128/msystems.00348-22 | Walker, C., S. Ryu, S. Garcia, D. Dooley, B. Mendoza and C. T. Trinh | Gene Coexpression Connectivity Predicts Gene Targets Underlying High Ionic-Liquid Tolerance in Yarrowia lipolytica | mSystems | 7(4) |
| 2022 | 10.1073/pnas.2118879119 | Napier, J. D., P. P. Grabowski, J. T. Lovell, J. Bonnette, S. Mamidi, et al. | A generalist–specialist trade-off between switchgrass cytotypes impacts climate adaptation and geographic range | Proceedings of the National Academy of Sciences | 119(15) e2118879119 |
| 2022 | 10.1016/j.ces.2022.117482 | Taifan, G. S. P. and C. T. Maravelias | Generalized optimization-based synthesis of membrane systems for multicomponent gas mixture separation | Chemical Engineering Science | 252 117482 |
| 2022 | 10.3389/fpls.2022.893610 | Shrestha, V., H. B. Chhetri, D. Kainer, Y. Xu, L. Hamilton, C. Piasecki, B. Wolfe, X. Wang, M. Saha, D. Jacobson, R. J. Millwood, M. Mazarei and C. N. Stewart | The Genetic Architecture of Nitrogen Use Efficiency in Switchgrass (Panicum virgatum L.) | Frontiers in Plant Science | 13 |
| 2022 | 10.1007/s00122-022-04096-x | Zhang, L., A. MacQueen, X. Weng, K. D. Behrman, J. Bonnette, J. L. Reilley, F. M. Rouquette, P. A. Fay, Y. Wu, F. B. Fritschi, R. B. Mitchell, D. B. Lowry, A. R. Boe and T. E. Juenger | The genetic basis for panicle trait variation in switchgrass (Panicum virgatum) | Theoretical and Applied Genetics | 135(8) 2577–92 |
| 2022 | 10.1038/s41596-021-00675-2 | Jones, T. S., S. M. D. Oliveira, C. J. Myers, C. A. Voigt and D. Densmore | Genetic circuit design automation with Cello 2.0 | Nature Protocols | 17(4) 1097-1113 |
| 2022 | 10.1002/csc2.20767 | Tilhou, N. W. and M. Casler | Genetic correlations between switchgrass performance in sward conditions and surrogate measures | Crop Science | 62(4) 1511–21 |
| 2022 | 10.1016/j.ijfoodmicro.2022.109555 | Montso, P. K., C. C. Bezuidenhout, C. Mienie, Y. M. Somorin, O. A. Odeyemi, V. Mlambo and C. N. Ateba | Genetic diversity and whole genome sequence analysis data of multidrug resistant atypical enteropathogenic Escherichia coli O177 strains: An assessment of food safety and public health implications | International Journal of Food Microbiology | 365 109555 |
| 2022 | 10.1093/genetics/iyac063 | Michel, K. J., D. C. Lima, H. Hundley, V. Singan, Y. Yoshinaga, C. Daum, K. Barry, K. W. Broman, C. Robin Buell, N. de Leon and S. M. Kaeppler | Genetic mapping and prediction of flowering time and plant height in a maize Stiff Stalk MAGIC population | Genetics | 221(2) |
| 2022 | 10.1002/csc2.20818 | Cuevas, H. E., J. E. Knoll, K. R. Harris-Shultz and S. M. Punnuri | Genetic mapping of sugarcane aphid resistance in sorghum line SC112-14 | Crop Science | |
| 2022 | 10.1128/mra.00796-22 | Ferrari, N. A., J. V. G. Takashe, F. F. Aburjaile, V. Azevedo, M. M. d. Costa, B. Brenig, F. E. P. Rocha and U. d. P. Pereira | Genome Report of Emergent Fish Pathogen Edwardsiella piscicida Recovered from Pseudoplatystoma corruscans in Brazil | Microbiology Resource Announcements | 11(12) e00796-22 |
| 2022 | 10.1094/MPMI-10-21-0246-A | Medrano, E. G. and L. K. Prom | Genome Sequence Data of Bacillus sp. Strain LP16S, Which Is Capable of Inhibiting the Growth of Multiple Sorghum Fungal Pathogens | Molecular Plant-Microbe Interactions | 35(3) 290-292 |
| 2022 | 10.1128/mra.00337-22 | Smith, A., N. Kaiser, A. Yanez, T. Perleberg, A. Elyaderani, P. Skidmore, S. Adhikari, E. M. Driver, R. U. Halden, A. Varsani, M. Scotch and T. O. C. Faleye | Genome Sequence of a Microvirus Recovered from Wastewater in Arizona, USA, in October 2020, Encodes a Previously Undescribed DNA-Binding Protein | Microbiology Resource Announcements | 11(10) e00337-22 |
| 2022 | 10.1094/pbiomes-09-21-0054-a | Yang, P., N. Bokros, S. Debolt, Z. Zhao and Y. Xia | Genome Sequence Source of Bacillus amyloliquefaciens Strain GD4a, a Bacterial Endophyte Associated with Switchgrass Plants | Phytobiomes Journal | 6(4) 354–7 |
| 2022 | 10.1099/mgen.0.000853 | Venturini, A. M., J. B. Gontijo, J. A. Mandro, F. S. Paula, C. A. Yoshiura, A. G. da França and S. M. Tsai | Genome-resolved metagenomics reveals novel archaeal and bacterial genomes from Amazonian forest and pasture soils | Microbial Genomics | 8(7) |
| 2022 | 10.3390/metabo12040314 | He, B., C. Cai, T. McCubbin, J. C. Muriel, N. Sonnenschein, S. Hu, Z. Yuan and E. Marcellin | A Genome-Scale Metabolic Model of Methanoperedens nitroreducens: Assessing Bioenergetics and Thermodynamic Feasibility | Metabolites | 12(4) 314 |
| 2022 | 10.1093/plcell/koab251 | Zhu, F., S. Alseekh, K. Koper, H. Tong, Z. Nikoloski, T. Naake, H. Liu, J. Yan, Y. Brotman, W. Wen, H. Maeda, Y. Cheng and A. R. Fernie | Genome-wide association of the metabolic shifts underpinning dark-induced senescence in Arabidopsis | Plant Cell | 34(1) 557-578 |
| 2022 | 10.3389/fpls.2021.806949 | Paape, T., B. Heiniger, M. Santo Domingo, M. R. Clear, M. M. Lucas and J. J. Pueyo | Genome-Wide Association Study Reveals Complex Genetic Architecture of Cadmium and Mercury Accumulation and Tolerance Traits in Medicago truncatula | Frontiers in Plant Science | 12 |
| 2022 | 10.1038/s41467-022-28540-0 | Baisya, D., A. Ramesh, C. Schwartz, S. Lonardi and I. Wheeldon | Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica | Nature Communications | 13(1) |
| 2022 | 10.1093/femsyr/foac032 | Tan, L.-R., J.-J. Liu, A. Deewan, J. W. Lee, P.-F. Xia, C. V. Rao, Y.-S. Jin and S.-G. Wang | Genome-wide transcriptional regulation in Saccharomyces cerevisiae in response to carbon dioxide | FEMS Yeast Research | 22(1) foac032 |
| 2022 | 10.1007/s12042-022-09315-9 | Dhungana, S. R. and D. M. Braun | Genomic Analyses of SUT and TST Sugar Transporter Families in Low and High Sugar Accumulating Sugarcane Species (Saccharum spontaneum and Saccharum officinarum) | Tropical Plant Biology | |
| 2022 | 10.1016/j.ygeno.2021.12.007 | Cardoso, B., F. Esposito, H. Fontana, B. Fuga, Q. Moura, E. Sano, M. I. Z. Sato, C. J. Brandão, F. A. Oliveira, C. E. Levy and N. Lincopan | Genomic analysis of a Kpi (pilus system)-positive and CTX-M-15-producing Klebsiella pneumoniae belonging to the high-risk clone ST15 isolated from an impacted river in Brazil | Genomics | 114(1) 378–83 |
| 2022 | 10.1016/j.scitotenv.2022.157917 | Lobato, A., C. O. Souza, W. M. B. S. Martins, R. R. Barata, D. S. Camargo, L. M. G. Dutra, I. C. R. S. Carneiro, C. J. S. Costa and D. M. Brasiliense | Genomic characterization of BKC-1–producing Klebsiella pneumoniae strain belonging to high-risk clone sequence type 11 isolated from a river in Brazil | Science of The Total Environment | 850 157917 |
| 2022 | 10.1007/s11274-022-03311-7 | Singh, A. K., R. K. Gupta, H. J. Purohit and A. A. Khardenavis | Genomic characterization of denitrifying methylotrophic Pseudomonas aeruginosa strain AAK/M5 isolated from municipal solid waste landfill soil | World Journal of Microbiology and Biotechnology | 38(8) 140 |
| 2022 | 10.1128/spectrum.02591-21 | Peng, M., D. Wang, L. M. Lui, T. Nielsen, R. Tian, et al. | Genomic Features and Pervasive Negative Selection in Rhodanobacter Strains Isolated from Nitrate and Heavy Metal Contaminated Aquifer | Microbiology Spectrum | 10(1) e02591-21 |
| 2022 | 10.1016/j.fgb.2021.103655 | Singh, P., S. Y. Huang, A. G. Hernandez, P. Adhikari, T. M. Jamann and S. X. Mideros | Genomic regions associated with virulence in Setosphaeria turcica identified by linkage mapping in a biparental population | Fungal Genetics and Biology | 159 |
| 2022 | 10.1038/s41598-022-12435-7 | Halder, U., R. Biswas, A. Kabiraj, R. Deora, M. Let, et al. | Genomic, morphological, and biochemical analyses of a multi-metal resistant but multi-drug susceptible strain of Bordetella petrii from hospital soil | Scientific Reports | 12(1) 8439 |
| 2022 | 10.1038/s43705-022-00113-8 | Gushgari-Doyle, S., L. M. Lui, T. N. Nielsen, X. Wu, R. G. Malana, A. J. Hendrickson, H. Carion, F. L. Poole, M. W. W. Adams, A. P. Arkin and R. Chakraborty | Genotype to ecotype in niche environments: adaptation of Arthrobacter to carbon availability and environmental conditions | ISME Communications | 2(1) 32 |
| 2022 | 10.1007/s12155-021-10272-6 | Schetter, A., C. H. Lin, C. Zumpf, C. Jang, L. Hoffmann, W. Rooney and D. K. Lee | Genotype-Environment-Management Interactions in Biomass Yield and Feedstock Composition of Photoperiod-Sensitive Energy Sorghum | BioEnergy Research | 15(2) 1017–32 |
| 2022 | 10.3389/fpls.2022.739133 | Razar, R. M., P. Qi, K. M. Devos and A. M. Missaoui | Genotyping-by-Sequencing and QTL Mapping of Biomass Yield in Two Switchgrass F1 Populations (Lowland x Coastal and Coastal x Upland) | Frontiers in Plant Science | 13 739133 |
| 2022 | 10.1128/msystems.01037-21 | McCausland, H. C., K. M. Wetmore, A. P. Arkin and A. Komeili | Global Analysis of Biomineralization Genes in Magnetospirillum magneticum AMB-1 | mSystems | 7(1) e01037-21 |
| 2022 | 10.1111/1365-2435.14040 | Sokol, N. W., E. D. Whalen, A. Jilling, C. Kallenbach, J. Pett-Ridge and K. Georgiou | Global distribution, formation and fate of mineral-associated soil organic matter under a changing climate: A trait-based perspective | Functional Ecology | 36(6) 1411–29 |
| 2022 | 10.1038/s41589-022-01091-7 | Xiao, T., A. Khan, Y. Shen, L. Chen and J. D. Rabinowitz | Glucose feeds the tricarboxylic acid cycle via excreted ethanol in fermenting yeast | Nature Chemical Biology | 18(12) 1380–7 |
| 2022 | 10.1038/s41592-021-01339-5 | Petras, D., V. V. Phelan, D. Acharya, A. E. Allen, A. T. Aron, et al. | GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser | Nature Methods | 19(2) 134–6 |
| 2022 | 10.1073/pnas.2203708119 | Bai, Y., T. Cao, O. Dautermann, P. Buschbeck, M. B. Cantrell, et al. | Green diatom mutants reveal an intricate biosynthetic pathway of fucoxanthin | Proceedings of the National Academy of Sciences of the United States of America | 119(38) |
| 2022 | 10.1088/1478-3975/ac8514 | Golden, A., I. Dukovski, D. Segrè and K. S. Korolev | Growth instabilities shape morphology and genetic diversity of microbial colonies | Physical Biology | 19(5) 056005 |
| 2022 | 10.1093/plphys/kiac210 | Muro-Villanueva, F., H. Kim, J. Ralph and C. Chapple | H-lignin can be deposited independently of CINNAMYL ALCOHOL DEHYDROGENASE C and D in Arabidopsis | Plant Physiology | 189(4) 2015–28 |
| 2022 | 10.1002/tpg2.20209 | Yoon, S., J. Bragg, S. Aucar-Yamato, L. Chanbusarakum, K. Dluge, P. Cheng, E. Blumwald, Y. Gu and C. M. Tobias | Haploidy and aneuploidy in switchgrass mediated by misexpression of CENH3 | Plant Genome | |
| 2022 | 10.1016/j.cell.2022.08.012 | Chao, G., T. M. Wannier, C. Gutierrez, N. C. Borders, E. Appleton, A. Chadha, T. Lebar and G. M. Church | helixCAM: A platform for programmable cellular assembly in bacteria and human cells | Cell | 185(19) 3551-3567.e39 |
| 2022 | 10.1016/j.algal.2021.102604 | Dahlin, L. R. and M. T. Guarnieri | Heterologous expression of phosphite dehydrogenase in the chloroplast or nucleus enables phosphite utilization and genetic selection in Picochlorum spp | Algal Research | 62 102604 |
| 2022 | 10.21926/cr.2203028 | Mai Pham, L. T., K. Deng, T. Northen, S. Singer, P. Adams, B. Simmons and K. Sale | Heterologous Expression, Characterization, and Comparison of Laccases from the White Rot Causing Basidiomycete Cerrena Unicolor | Catalysis Research | 2(3) 22 |
| 2022 | 10.1007/s12155-021-10305-0 | Carlson, C. H. and L. B. Smart | Heterosis for Biomass-Related Traits in Interspecific Triploid Hybrids of Willow (Salix spp.) | Bioenergy Research | 15(2) 1042-1056 |
| 2022 | 10.1093/g3journal/jkac269 | Abeyratne, C. R., D. Macaya-Sanz, R. Zhou, K. W. Barry, C. Daum, K. Haiby, A. Lipzen, B. Stanton, Y. Yoshinaga, M. Zane, G. A. Tuskan and S. P. DiFazio | High-resolution mapping reveals hotspots and sex-biased recombination in Populus trichocarpa | G3 Genes|Genomes|Genetics | 13(1) jkac269 |
| 2022 | 10.1186/s13059-022-02711-0 | Zhang, R., R. Kuo, M. Coulter, C. P. G. Calixto, J. C. Entizne, et al. | A high-resolution single-molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis | Genome Biology | 23(1) |
| 2022 | 10.1002/pro.4259 | Bruni, R., A. Laguerre, A. M. Kaminska, S. McSweeney, W. A. Hendrickson and Q. Liu | High-throughput cell-free screening of eukaryotic membrane protein expression in lipidic mimetics | Protein Science | 31(3) 639–51 |
| 2022 | 10.1186/s12864-022-08918-6 | Edwards, B., E. D. Hornstein, N. J. Wilson and H. Sederoff | High-throughput detection of T-DNA insertion sites for multiple transgenes in complex genomes | BMC Genomics | 23(1) |
| 2022 | 10.1111/nph.18056 | Wang, P., F. Meng, P. Donaldson, S. Horan, N. L. Panchy, E. Vischulis, E. Winship, J. K. Conner, P. J. Krysan, S.-H. Shiu and M. D. Lehti-Shiu | High-throughput measurement of plant fitness traits with an object detection method using Faster R-CNN | New Phytologist | 234(4) 1521–33 |
| 2022 | 10.1038/s41540-022-00212-1 | Ohnuki, S., I. Ogawa, K. Itto-Nakama, F. Lu, A. Ranjan, et al. | High-throughput platform for yeast morphological profiling predicts the targets of bioactive compounds | npj Systems Biology and Applications | 8(1) 3 |
| 2022 | 10.1126/science.abm1483 | Zheng, W., S. Zhao, Y. Yin, H. Zhang, D. M. Needham, E. D. Evans, C. L. Dai, P. J. Lu, E. J. Alm and D. A. Weitz | High-throughput, single-microbe genomics with strain resolution, applied to a human gut microbiome | Science | 376(6597) eabm1483 |
| 2022 | 10.1007/s11783-023-1650-z | Yan, X., X. Shen, J. Wang, J. Zhuang, Y. Wang, J. Yao, H. Liu, Y. Liu, J. P. Shapleigh and W. Li | Higher N2O production in sequencing batch reactors compared to continuous stirred tank reactors: effect of feast-famine cycles | Frontiers of Environmental Science & Engineering | 17(4) 50 |
| 2022 | 10.1016/j.scitotenv.2022.155408 | Della Chiesa, T., G. Piñeiro, S. J. Del Grosso, W. J. Parton, P. I. Araujo and L. Yahdjian | Higher than expected N2O emissions from soybean crops in the Pampas Region of Argentina: Estimates from DayCent simulations and field measurements | Science of the Total Environment | 835 |
| 2022 | 10.1002/mas.21663 | Cooper, W. T., J. C. Chanton, J. D'Andrilli, S. B. Hodgkins, D. C. Podgorski, A. C. Stenson, M. M. Tfaily and R. M. Wilson | A History of Molecular Level Analysis of Natural Organic Matter by FTICR Mass Spectrometry and The Paradigm Shift in Organic Geochemistry | Mass Spectrometry Reviews | 41(2) 215-239 |
| 2022 | 10.1371/journal.pbio.3001681 | VanWallendael, A., G. M. N. Benucci, P. B. da Costa, L. Fraser, A. Sreedasyam, F. Fritschi, T. E. Juenger, J. T. Lovell, G. Bonito and D. B. Lowry | Host genotype controls ecological change in the leaf fungal microbiome | PLoS Biology | 20(8) e3001681 |
| 2022 | 10.1039/D1LC00705J | Aufrecht, J., M. Khalid, C. L. Walton, K. Tate, J. F. Cahill and S. T. Retterer | Hotspots of root-exuded amino acids are created within a rhizosphere-on-a-chip | Lab on a Chip | 22(5) 954–63 |
| 2022 | 10.1111/gcb.16073 | See, C. R., A. B. Keller, S. E. Hobbie, P. G. Kennedy, P. K. Weber and J. Pett-Ridge | Hyphae move matter and microbes to mineral microsites: Integrating the hyphosphere into conceptual models of soil organic matter stabilization | Global Change Biology | 28(8) 2527–40 |
| 2022 | 10.1093/plphys/kiac588 | Liu, D., D. Tang, M. Xie, J. Zhang, L. Zhai, et al. | Agave REVEILLE1 regulates the onset and release of seasonal dormancy in Populus | Plant Physiology | 191(3) 1492–504 |
| 2022 | 10.1099/ijsem.0.005469 | Nadal-Jimenez, P., S. Siozios, C. L. Frost, R. Court, E. Chrostek, G. C. Drew, J. D. Evans, D. J. Hawthorne, J. B. Burritt and G. D. D. Hurst | Arsenophonus apicola sp. nov., isolated from the honeybee Apis mellifera | International Journal of Systematic and Evolutionary Microbiology | 72(8) |
| 2022 | 10.1080/00275514.2022.2031780 | Romero-Jiménez, M.-J., J. A. Rudgers, A. Jumpponen, J. Herrera, M. Hutchinson, C. Kuske, J. Dunbar, D. G. Knapp, G. M. Kovács and A. Porras-Alfaro | Darksidea phi, sp. nov., a dark septate root-associated fungus in foundation grasses in North American Great Plains | Mycologia | 114(2) 254–69 |
| 2022 | 10.1099/ijsem.0.005456 | Grabowski, S., E. A. Apolinario, N. O. Schneider, C. W. Marshall and K. Sowers | Dethiosulfovibrio faecalis sp. nov., a novel proteolytic, non-sulphur-reducing bacterium isolated from a marine aquaculture solid waste bioreactor | International Journal of Systematic and Evolutionary Microbiology | 72(8) |
| 2022 | 10.1039/D1GC03464B | Mohan, M., J. D. Keasling, B. A. Simmons and S. Singh | In silico COSMO-RS predictive screening of ionic liquids for the dissolution of plastic | Green Chemistry | 24(10) 4140–52 |
| 2022 | 10.1002/ecs2.4292 | Hartman, M. D., M. Burnham, W. J. Parton, A. Finzi, E. H. DeLucia and W. H. Yang | In silico evaluation of plant nitrification suppression effects on agroecosystem nitrogen loss | Ecosphere | 13(12) e4292 |
| 2022 | 10.1007/s12275-022-1647-5 | Lee, S.-Y., P. S. Kim, H. Sung, D.-W. Hyun and J.-W. Bae | Lysobacter ciconiae sp. nov., and Lysobacter avium sp. nov., isolated from the faeces of an Oriental stork | Journal of Microbiology | 60(5) 469–77 |
| 2022 | 10.1111/1462-2920.16148 | Bartoli, C., S. Boivin, M. Marchetti, C. Gris, V. Gasciolli, M. Gaston, M.-C. Auriac, F. Debellé, L. Cottret, A. Carlier, C. Masson-Boivin, M. Lepetit and B. Lefebvre | Rhizobium leguminosarum symbiovar viciae strains are natural wheat endophytes that can stimulate root development | Environmental Microbiology | 24(11) 5509–23 |
| 2022 | 10.1128/spectrum.02346-21 | Chaput, G., J. Ford, L. DeDiego, A. Narayanan, W. Y. Tam, et al. | Sodalis ligni Strain 159R Isolated from an Anaerobic Lignin-Degrading Consortium | Microbiology Spectrum | 10(3) e02346-21 |
| 2022 | 10.1111/mec.16717 | Kiefer, J. S. T., G. Schmidt, R. Krüsemer, M. Kaltenpoth and T. Engl | Wolbachia causes cytoplasmic incompatibility but not male-killing in a grain pest beetle | Molecular Ecology | 31(24) 6570–87 |
| 2022 | 10.1128/jb.00563-21 | Felczak, M. M. and M. A. TerAvest | Zymomonas mobilis ZM4 Utilizes an NADP+-Dependent Acetaldehyde Dehydrogenase To Produce Acetate | Journal of Bacteriology | 204(4) e00563-21 |
| 2022 | 10.1093/plphys/kiac035 | Smith, R. A., E. T. Beebe, C. A. Bingman, K. Vander Meulen, A. Eugene, A. J. Steiner, S. D. Karlen, J. Ralph and B. G. Fox | Identification and characterization of a set of monocot BAHD monolignol transferases | Plant Physiology | 189(1) 37–48 |
| 2022 | 10.1094/mpmi-09-21-0234-r | Huang, R., H. Feng, Z. Xu, N. Zhang, Y. Liu, J. Shao, Q. Shen and R. Zhang | Identification of Adhesins in Plant Beneficial Rhizobacteria Bacillus velezensis SQR9 and Their Effect on Root Colonization | Molecular Plant-Microbe Interactions | 35(1) 64–72 |
| 2022 | 10.1038/s41396-022-01245-4 | Qi, M., J. C. Berry, K. W. Veley, L. O’Connor, O. M. Finkel, et al. | Identification of beneficial and detrimental bacteria impacting sorghum responses to drought using multi-scale and multi-system microbiome comparisons | ISME Journal | 16(8) 1957-1969 |
| 2022 | 10.1093/g3journal/jkac295 | McKenzie, A. M., C. Henry, K. S. Myers, M. M. Place and J. L. Keck | Identification of genetic interactions with priB links the PriA/PriB DNA replication restart pathway to double-strand DNA break repair in Escherichia coli | G3 Genes|Genomes|Genetics | 12(12) |
| 2022 | 10.1186/s12864-022-08797-x | Johnson, A. C., T. H. Pendergast, S. Chaluvadi, J. L. Bennetzen and K. M. Devos | Identification of microRNAs responsive to arbuscular mycorrhizal fungi in Panicum virgatum (switchgrass) | BMC Genomics | 23(1) 688 |
| 2022 | 10.1111/nph.18053 | Yan, H., J. Lee, Q. Song, Q. Li, J. Schiefelbein, B. Zhao and S. Li | Identification of new marker genes from plant single-cell RNA-seq data using interpretable machine learning methods | New Phytologist | 234(4) 1507-1520 |
| 2022 | 10.3390/plants11040566 | Nayak, S., H. Bhandari, M. C. Saha, S. Ali, C. Sams and V. Pantalone | Identification of QTL Associated with Regrowth Vigor Using the Nested Association Mapping Population in Switchgrass | Plants | 11(4) |
| 2022 | 10.1002/csc2.20751 | Lipps, S., W. L. Rooney, S. X. Mideros and T. M. Jamann | Identification of quantitative trait loci for sorghum leaf blight resistance | Crop Science | 62(4) 1550-1558 |
| 2022 | 10.1038/s41594-022-00774-y | Murray, K. A., M. P. Hughes, C. J. Hu, M. R. Sawaya, L. Salwinski, H. Pan, S. W. French, P. M. Seidler and D. S. Eisenberg | Identifying amyloid-related diseases by mapping mutations in low-complexity protein domains to pathologies | Nature Structural and Molecular Biology | 29(6) 529-536 |
| 2022 | Arnolds, K., G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Integrative Modeling and Genome-scale Engineering for Biosystems Security | Front Range Microbiome Symposium | ||
| 2022 | Arnolds, K., G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Mesocosm based methods to evaluate biocontainment strategies and impact of industrial microbes upon native ecosystems | DOE Genomic Sciences Program Annual Meeting | ||
| 2022 | Tibocha-Bonilla, J. D., R. Santibanez, B. Estefan, B. Arianpour, K. Patel, C. Zuniga and K. Zengler | IMAGINE BioSecurity: Modeling Bacterial Metabolism and Expression To Develop Biocontainment Strategies | DOE Genomic Sciences Program Annual Meeting | ||
| 2022 | 10.3390/agronomy12081847 | Buanafina, M. M. D. O. and P. Morris | The Impact of Cell Wall Feruloylation on Plant Growth, Responses to Environmental Stress, Plant Pathogens and Cell Wall Degradability | Agronomy | 12(8) |
| 2022 | 10.3390/genes13010022 | Singer, E., E. M. Carpenter, J. Bonnette, T. Woyke and T. E. Juenger | Impact of harvest on switchgrass leaf microbial communities | Genes | 13(1) |
| 2022 | 10.3390/rs14030733 | Varela, S., T. L. Pederson and A. D. B. Leakey | Implementing Spatio-Temporal 3D-Convolution Neural Networks and UAV Time Series Imagery to Better Predict Lodging Damage in Sorghum | Remote Sensing | 14(3) 733 |
| 2022 | 10.1007/s40820-022-00922-5 | Sharifi, S., N. N. Mahmoud, E. Voke, M. P. Landry and M. Mahmoudi | Importance of Standardizing Analytical Characterization Methodology for Improved Reliability of the Nanomedicine Literature | Nano-Micro Letters | 14(1) |
| 2022 | 10.3389/fmolb.2022.1011981 | Nickels, J. D., K. S. Bonifer, R. R. Tindall, A. Yahya, L. Tan, C. Do, B. H. Davison and J. G. Elkins | Improved chemical and isotopic labeling of biomembranes in Bacillus subtilis by leveraging CRISPRi inhibition of beta-ketoacyl-ACP synthase (fabF) | Frontiers in Molecular Biosciences | 9 |
| 2022 | 10.1016/j.soilbio.2021.108466 | Abramoff, R. Z., B. Guenet, H. Zhang, K. Georgiou, X. Xu, R. A. Viscarra Rossel, W. Yuan and P. Ciais | Improved global-scale predictions of soil carbon stocks with Millennial Version 2 | Soil Biology and Biochemistry | 164 108466 |
| 2022 | 10.1093/femsle/fnac034 | Estoppey, A., L. Weisskopf, E. Di Francesco, A. Vallat-Michel, S. Bindschedler, P. S. Chain and P. Junier | Improved methods to assess the effect of bacteria on germination of fungal spores | FEMS Microbiology Letters | 369(1) fnac034 |
| 2022 | 10.3389/fbinf.2022.866850 | Mageeney, C. M., G. Trubl and K. P. Williams | Improved Mobilome Delineation in Fragmented Genomes | Frontiers in Bioinformatics | 2 |
| 2022 | 10.1111/gcb.16103 | Lamour, J., K. J. Davidson, K. S. Ely, G. Le Moguédec, A. D. B. Leakey, Q. Li, S. P. Serbin and A. Rogers | An improved representation of the relationship between photosynthesis and stomatal conductance leads to more stable estimation of conductance parameters and improves the goodness-of-fit across diverse data sets | Global Change Biology | 28(11) 3537-3556 |
| 2022 | 10.1002/prot.26186 | Liu, J., T. Wu, Z. Guo, J. Hou and J. Cheng | Improving protein tertiary structure prediction by deep learning and distance prediction in CASP14 | Proteins: Structure, Function and Bioinformatics | 90(1) 58-72 |
| 2022 | 10.1186/s13068-022-02125-x | Villalobos Solis, M. I., P. Chirania and R. L. Hettich | In silico evaluation of a targeted metaproteomics strategy for broad screening of cellulolytic enzyme capacities in anaerobic microbiome bioreactors | Biotechnology for Biofuels and Bioproducts | 15(1) 32 |
| 2022 | 10.1021/jasms.2c00081 | Walton, C. L., M. Khalid, A. N. Bible, V. Kertesz, S. T. Retterer, J. Morrell-Falvey and J. F. Cahill | In Situ Detection of Amino Acids from Bacterial Biofilms and Plant Root Exudates by Liquid Microjunction Surface-Sampling Probe Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 33(9) 1615–25 |
| 2022 | 10.1021/acssuschemeng.2c01211 | Achinivu, E. C., M. Cabrera, A. Umar, M. Yang, N. R. Baral, C. D. Scown, B. A. Simmons and J. M. Gladden | In Situ Synthesis of Protic Ionic Liquids for Biomass Pretreatment | ACS Sustainable Chemistry & Engineering | 10(37) 12090–8 |
| 2022 | 10.1016/j.ygeno.2022.01.003 | Kumaran, S., A. C. R. Ngo, F. P. J. Schultes, V. S. Saravanan and D. Tischler | In vitro and in silico analysis of Brilliant Black degradation by Actinobacteria and a Paraburkholderia sp. | Genomics | 114(2) 110266 |
| 2022 | 10.1016/j.nbt.2021.12.003 | Mazzoli, R., D. G. Olson, A. M. Concu, E. K. Holwerda and L. R. Lynd | In vivo evolution of lactic acid hyper-tolerant Clostridium thermocellum | New Biotechnology | 67 12–22 |
| 2022 | 10.1111/nph.18485 | Wang, Y., S. S. Stutz, C. J. Bernacchi, R. A. Boyd, D. R. Ort and S. P. Long | Increased bundle-sheath leakiness of CO2 during photosynthetic induction shows a lack of coordination between the C4 and C3 cycles | New Phytologist | 236(5) 1661–75 |
| 2022 | 10.7554/elife.70056 | Berry, J. C., M. Qi, B. V. Sonawane, A. Sheflin, A. Cousins, J. Prenni, D. P. Schachtman, P. Liu and R. S. Bart | Increased signal-to-noise ratios within experimental field trials by regressing spatially distributed soil properties as principal components | eLife | 11 |
| 2022 | 10.1128/aem.01258-22 | Hon, S., T. Jacobson, D. M. Stevenson, M. I. Maloney, R. J. Giannone, R. L. Hettich, D. Amador-Noguez, D. G. Olson and L. R. Lynd | Increasing the Thermodynamic Driving Force of the Phosphofructokinase Reaction in Clostridium thermocellum | Applied and Environmental Microbiology | 88(22) e01258-22 |
| 2022 | 10.1007/s10534-021-00359-0 | Sen, S., N. Mondal, W. Ghosh and R. Chakraborty | Inducible boron resistance via active efflux in Lysinibacillus and Enterococcus isolates from boron-contaminated agricultural soil | BioMetals | 35(2) 215–28 |
| 2022 | 10.1111/1467-8489.12461 | Khanna, M. and R. Miao | Inducing the adoption of emerging technologies for sustainable intensification of food and renewable energy production: insights from applied economics | Australian Journal of Agricultural and Resource Economics | 66(1) 1–23 |
| 2022 | 10.1111/biom.13624 | Hu, H. and Y. Qiu | Inference for nonparanormal partial correlation via regularized rank-based nodewise regression | Biometrics | |
| 2022 | 10.1094/mpmi-08-21-0211-r | Malvino, M. L., A. J. Bott, C. E. Green, T. Majumdar and S. R. Hind | Influence of Flagellin Polymorphisms, Gene Regulation, and Responsive Memory on the Motility of Xanthomonas Species That Cause Bacterial Spot Disease of Solanaceous Plants | Molecular Plant-Microbe Interactions | 35(2) 157–69 |
| 2022 | 10.3390/metabo12040366 | Linz, A. M., Y. Ma, S. Scholz, D. R. Noguera and T. J. Donohue | iNovo479: Metabolic Modeling Provides a Roadmap to Optimize Bioproduct Yield from Deconstructed Lignin Aromatics by Novosphingobium aromaticivorans | Metabolites | 12(4) 366 |
| 2022 | 10.1016/j.jbc.2021.101464 | Martinez, O. E., B. J. Mahoney, A. K. Goring, S. W. Yi, D. P. Tran, D. Cascio, M. L. Phillips, M. M. Muthana, X. Chen, M. E. Jung, J. A. Loo and R. T. Clubb | Insight into the molecular basis of substrate recognition by the wall teichoic acid glycosyltransferase TagA | Journal of Biological Chemistry | 298(2) |
| 2022 | 10.3390/microorganisms10091747 | Gontijo, J. B., F. S. Paula, A. M. Venturini, J. A. Mandro, P. L. E. Bodelier and S. M. Tsai | Insights into the Genomic Potential of a Methylocystis sp. from Amazonian Floodplain Sediments | Microorganisms | 10(9) 1747 |
| 2022 | 10.1007/s00253-022-12061-3 | Garrido, M. M., F. E. Piccinni, M. Landoni, M. J. Peña, J. Topalian, A. Couto, S. A. Wirth, B. R. Urbanowicz and E. Campos | Insights into the xylan degradation system of Cellulomonas sp. B6: biochemical characterization of rCsXyn10A and rCsAbf62A | Applied Microbiology and Biotechnology | 106(13) 5035–49 |
| 2022 | 10.1080/19390211.2022.2120146 | Hove, P. R., N. J. Nealon, S. H. J. Chan, S. M. Boyer, H. B. Haberecht and E. P. Ryan | Integrated Profiling of Gram-Positive and Gram-Negative Probiotic Genomes, Proteomes and Metabolomes Revealed Small Molecules with Differential Growth Inhibition of Antimicrobial-Resistant Pathogens | Journal of Dietary Supplements | 1–23 |
| 2022 | 10.1016/j.compchemeng.2022.107724 | O'Neill, E. G., R. A. Martinez-Feria, B. Basso and C. T. Maravelias | Integrated spatially explicit landscape and cellulosic biofuel supply chain optimization under biomass yield uncertainty | Computers & Chemical Engineering | 160 107724 |
| 2022 | 10.1039/D1GC03592D | Perez, J. M., C. Sener, S. Misra, G. E. Umana, J. Coplien, D. Haak, Y. Li, C. T. Maravelias, S. D. Karlen, J. Ralph, T. J. Donohue and D. R. Noguera | Integrating lignin depolymerization with microbial funneling processes using agronomically relevant feedstocks | Green Chemistry | 24(7) 2795–811 |
| 2022 | West, C. G., S. E. Honig, L. M. Lui and L. Raschke | Integration of Authentic STEM Practices in Real-World Education and Research Environments: Lessons from the PDP | Leaders in Effective and Inclusive STEM: Twenty Years of the Institute for Scientist & Engineer Educators | 341–58 | |
| 2022 | 10.1111/tpj.15965 | Broddrick, J. T., M. A. Ware, D. Jallet, B. O. Palsson and G. Peers | Integration of physiologically relevant photosynthetic energy flows into whole genome models of light-driven metabolism | Plant Journal | |
| 2022 | 10.1017/qrd.2022.10 | Autin, L., B. A. Barbaro, A. I. Jewett, A. Ekman, S. Verma, A. J. Olson and D. S. Goodsell | Integrative structural modelling and visualisation of a cellular organelle | QRB Discovery | 3 |
| 2022 | 10.1021/acssynbio.1c00507 | Yuan, G., H. Lu, K. De, M. M. Hassan, Y. Liu, Y. Li, W. Muchero, P. E. Abraham, G. A. Tuskan and X. Yang | An Intein-Mediated Split–nCas9 System for Base Editing in Plants | ACS Synthetic Biology | 11(7) 2513–7 |
| 2022 | 10.1128/msystems.00372-22 | McClure, R., Y. Farris, R. Danczak, W. Nelson, H.-S. Song, A. Kessell, J.-Y. Lee, S. Couvillion, C. Henry, J. K. Jansson and K. S. Hofmockel | Interaction Networks Are Driven by Community-Responsive Phenotypes in a Chitin-Degrading Consortium of Soil Microbes | mSystems | 7(5) e00372-22 |
| 2022 | 10.1128/msystems.00705-22 | Price, M. N. and A. P. Arkin | Interactive Analysis of Functional Residues in Protein Families | mSystems | 7(6) e00705-22 |
| 2022 | 10.1111/gcbb.12917 | Burnham, M. B., S. J. Simon, D. Lee, A. D. Kent, E. H. DeLucia and W. H. Yang | Intra- and inter-annual variability of nitrification in the rhizosphere of field-grown bioenergy sorghum | GCB Bioenergy | 14(3) 393–410 |
| 2022 | 10.1016/j.ymben.2021.11.003 | Purdy, H. M., B. F. Pfleger and J. L. Reed | Introduction of NADH-dependent nitrate assimilation in Synechococcus sp. PCC 7002 improves photosynthetic production of 2-methyl-1-butanol and isobutanol | Metabolic Engineering | 69 87-97 |
| 2022 | 10.1016/j.scitotenv.2022.155492 | Trutschel, L. R., G. L. Chadwick, B. Kruger, J. G. Blank, W. J. Brazelton, E. R. Dart and A. R. Rowe | Investigation of microbial metabolisms in an extremely high pH marine-like terrestrial serpentinizing system: Ney Springs | Science of The Total Environment | 836 155492 |
| 2022 | 10.1016/j.virusres.2022.198902 | Karaynir, A., H. Salih, B. Bozdoğan, Ö. Güçlü and D. Keskin | Isolation and characterization of Brochothrix phage ADU4 | Virus Research | 321 198902 |
| 2022 | 10.1016/j.vetmic.2022.109379 | Wang, H., L. Zhang, L. Cao, X. Zeng, B. Gillespie and J. Lin | Isolation and characterization of Escherichia albertii originated from the broiler farms in Mississippi and Alabama | Veterinary Microbiology | 267 109379 |
| 2022 | 10.1016/j.jbc.2021.101396 | Pollard, M. and Y. Shachar-Hill | Kinetic complexities of triacylglycerol accumulation in developing embryos from Camelina sativa provide evidence for multiple biosynthetic systems | Journal of Biological Chemistry | 298(1) |
| 2022 | 10.1111/pce.14208 | Cao, Y., X. Yan, S. Ran, J. Ralph, R. A. Smith, X. Chen, C. Qu, J. Li and L. Liu | Knockout of the lignin pathway gene BnF5H decreases the S/G lignin compositional ratio and improves Sclerotinia sclerotiorum resistance in Brassica napus | Plant, Cell & Environment | 45(1) 248–61 |
| 2022 | 10.1002/biot.202000431 | Kang, N. K., J. W. Lee, D. R. Ort and Y.-S. Jin | L-malic acid production from xylose by engineered Saccharomyces cerevisiae | Biotechnology Journal | 17(3) 2000431 |
| 2022 | 10.1111/pce.14291 | DiMario, R. J., R. Giuliani, N. Ubierna, A. D. Slack, A. B. Cousins and A. J. Studer | Lack of leaf carbonic anhydrase activity eliminates the C4 carbon-concentrating mechanism requiring direct diffusion of CO2 into bundle sheath cells | Plant Cell and Environment | 45(5) 1382-1397 |
| 2022 | 10.1016/j.geoderma.2022.115854 | Sanford, G. R., R. D. Jackson, Y. Rui and C. J. Kucharik | Land use-land cover gradient demonstrates the importance of perennial grasslands with intact soils for building soil carbon in the fertile Mollisols of the North Central US | Geoderma | 418 115854 |
| 2022 | 10.1111/gcb.16267 | Robertson, G. P., S. K. Hamilton, K. Paustian and P. Smith | Land-based climate solutions for the United States | Global Change Biology | 28(16) 4912–9 |
| 2022 | 10.1146/annurev-arplant-071921-100530 | Bachy, C., F. Wittmers, J. Muschiol, M. Hamilton, B. Henrissat and A. Z. Worden | The Land-Sea Connection: Insights Into the Plant Lineage from a Green Algal Perspective | Annual Review of Plant Biology | 73 585-616 |
| 2022 | 10.1111/tpj.15948 | Strenkert, D., A. Yildirim, J. Yan, Y. Yoshinaga, M. Pellegrini, R. C. O'Malley, S. S. Merchant and J. G. Umen | The landscape of Chlamydomonas histone H3 lysine 4 methylation reveals both constant features and dynamic changes during the diurnal cycle | Plant Journal | |
| 2022 | 10.1111/pce.14433 | Li, S., C. A. Moller, N. G. Mitchell, D. G. Martin, E. J. Sacks, S. Saikia, N. R. Labonte, B. S. Baldwin, J. I. Morrison, J. N. Ferguson, A. D. B. Leakey and E. A. Ainsworth | The leaf economics spectrum of triploid and tetraploid C4 grass Miscanthus x giganteus | Plant, Cell & Environment | 45(12) 3462–75 |
| 2022 | 10.1038/s41587-021-01146-5 | Hsu, C., H. Nisonoff, C. Fannjiang and J. Listgarten | Learning protein fitness models from evolutionary and assay-labeled data | Nature Biotechnology | 40(7) 1114–22 |
| 2022 | Yarbrough, J., D. Stich, D. Chung, N. Hengge, T. Vinzant, S. Huang, Y. Zeng, B. Donohoe, M. Himmel, Y. Bomble and G. A. Tuskan | Leveraging Super High Optical Resolution Microscopy to Probe the Interaction Zone Between Clostridium thermocellum and Biomass | Integration 2020: Visualizing the Proteome | ||
| 2022 | 10.1038/s41579-022-00695-z | Sokol, N. W., E. Slessarev, G. L. Marschmann, A. Nicolas, S. J. Blazewicz, et al. | Life and death in the soil microbiome: how ecological processes influence biogeochemistry | Nature Reviews Microbiology | 20(7) 415–30 |
| 2022 | 10.3791/63269 | Hoffman, S. M., M. A. Lalwani and J. L. Avalos | Light-controlled fermentations for microbial chemical and protein production | Journal of Visualized Experiments | 2022(181) |
| 2022 | 10.3389/fpls.2022.938083 | Mottiar, Y. and S. D. Mansfield | Lignin p-Hydroxybenzoylation Is Negatively Correlated With Syringyl Units in Poplar | Frontiers in Plant Science | 13 |
| 2022 | 10.1016/bs.abr.2022.02.002 | Liu, C.-J. and A. Eudes | Lignin synthesis and bioengineering approaches toward lignin modification | Advances in Botanical Research | 104 41–96 |
| 2022 | 10.1016/j.rser.2021.111822 | Huang, C., X. Jiang, X. Shen, J. Hu, W. Tang, X. Wu, A. Ragauskas, H. Jameel, X. Meng and Q. Yong | Lignin-enzyme interaction: A roadblock for efficient enzymatic hydrolysis of lignocellulosics | Renewable and Sustainable Energy Reviews | 154 111822 |
| 2022 | 10.1007/s10681-022-03005-z | Cuevas, H. E. and W. Vermerris | Linkage map construction using limited parental genotypic information | Euphytica | 218(5) |
| 2022 | 10.1093/jxb/erac003 | Xu, C. and J. Fan | Links between autophagy and lipid droplet dynamics | Journal of Experimental Botany | 73(9) 2848–58 |
| 2022 | 10.1128/msystems.01052-22 | Rush, T. A., J. Tannous, M. J. Lane, M. G. Meena, A. A. Carrell, et al. | Lipo-Chitooligosaccharides Induce Specialized Fungal Metabolite Profiles That Modulate Bacterial Growth | mSystems | 7(6) e01052-22 |
| 2022 | 10.1007/s00248-021-01836-2 | Whitaker, B. K., H. Giauque, C. Timmerman, N. Birk and C. V. Hawkes | Local Plants, Not Soils, Are the Primary Source of Foliar Fungal Community Assembly in a C4 Grass | Microbial Ecology | 84(1) 122–30 |
| 2022 | 10.1128/aem.01648-21 | Dunon, V., P. N. Holmsgaard, S. Dealtry, R. Lavigne, S. J. Sørensen, K. Smalla, E. M. Top and D. Springael | Long-Range PCR Reveals the Genetic Cargo of IncP-1 Plasmids in the Complex Microbial Community of an On-Farm Biopurification System Treating Pesticide-Contaminated Wastewater | Applied and Environmental Microbiology | 88(3) e01648-21 |
| 2022 | 10.1128/msystems.01519-21 | Lewin, G. R., N. M. Davis, B. R. McDonald, A. J. Book, M. G. Chevrette, S. Suh, A. Boll and C. R. Currie | Long-term cellulose enrichment selects for highly cellulolytic consortia and competition for public goods | mSystems | 7(2) |
| 2022 | 10.1111/gcbb.12940 | Kantola, I. B., M. D. Masters, E. Blanc-Betes, N. Gomez-Casanovas and E. H. DeLucia | Long-term yields in annual and perennial bioenergy crops in the Midwestern United States | GCB Bioenergy | 14(6) 694–706 |
| 2022 | 10.1016/j.micres.2022.127109 | Hinenoya, A., H. Wang, E. M. Patrick, X. Zeng, L. Cao, X.-P. Li, R. L. Lindsey, B. Gillespie, Q. He, S. Yamasaki and J. Lin | Longitudinal surveillance and comparative characterization of Escherichia albertii in wild raccoons in the United States | Microbiological Research | 262 127109 |
| 2022 | US11473086B2 | Xie, M., J.-G. Chen, L. E. Gunter, S. S. Jawdy, W. Muchero, G. Tuskan and J. Zhang | Loss of function alleles of PtEPSP-TF and its regulatory targets in rice | United States Patent | U.S. Department of Energy, UT Battelle LLC |
| 2022 | 10.1186/s40168-022-01377-x | Tom, L. M., M. Aulitto, Y.-W. Wu, K. Deng, Y. Gao, et al. | Low-abundance populations distinguish microbiome performance in plant cell wall deconstruction | Microbiome | 10(1) 183 |
| 2022 | 10.1126/sciadv.ade5155 | Uchiyama, T., T. Uchihashi, T. Ishida, A. Nakamura, J. V. Vermaas, M. F. Crowley, M. Samejima, G. T. Beckham and K. Igarashi | Lytic polysaccharide monooxygenase increases cellobiohydrolases activity by promoting decrystallization of cellulose surface | Science Advances | 8(51) eade5155 |
| 2022 | 10.1016/j.ymben.2022.04.004 | Lim, H. G., K. Rychel, A. V. Sastry, G. J. Bentley, J. Mueller, H. S. Schindel, P. E. Larsen, P. D. Laible, A. M. Guss, W. Niu, C. W. Johnson, G. T. Beckham, A. M. Feist and B. O. Palsson | Machine-learning from Pseudomonas putida KT2440 transcriptomes reveals its transcriptional regulatory network | Metabolic Engineering | 72 297–310 |
| 2022 | 10.1038/s41396-021-01120-8 | Escalas, A., F. S. Paula, F. Guilhaumon, M. Yuan, Y. Yang, L. Wu, F. Liu, J. Feng, Y. Zhang and J. Zhou | Macroecological distributions of gene variants highlight the functional organization of soil microbial systems | ISME Journal | 16(3) 726-737 |
| 2022 | 10.1093/pcp/pcac031 | Smith, R. A., F. Lu, F. Muro-Villanueva, J. C. Cusumano, C. Chapple and J. Ralph | Manipulation of Lignin Monomer Composition Combined with the Introduction of Monolignol Conjugate Biosynthesis Leads to Synergistic Changes in Lignin Structure | Plant and Cell Physiology | 63(6) 744–54 |
| 2022 | 10.1016/j.soilbio.2022.108809 | Fofana, A., D. Anderson, C. K. McCalley, S. Hodgkins, R. M. Wilson, D. Cronin, N. Raab, M. Torabi, R. K. Varner, P. Crill, S. R. Saleska, J. P. Chanton, M. M. Tfaily and V. I. Rich | Mapping substrate use across a permafrost thaw gradient | Soil Biology and Biochemistry | 175 |
| 2022 | 10.1016/j.mex.2022.101652 | Badr, K., Q. P. He and J. Wang | Matlab implementation of a novel semi-structured kinetic model for methanotroph-photoautotroph cocultures | MethodsX | 9 |
| 2022 | 10.1128/AEM.01841-21 | Dershwitz, P., W. Gu, J. Roche, C. S. Kang-Yun, J. D. Semrau, T. A. Bobik, B. Fulton, H. Zischka and A. A. DiSpirito | MbnC Is Not Required for the Formation of the N-Terminal Oxazolone in the Methanobactin from Methylosinus trichosporium OB3b | Applied and Environmental Microbiology | 88(2) |
| 2022 | 10.1111/nph.18308 | Branco, S., A. Schauster, H. L. Liao and J. Ruytinx | Mechanisms of stress tolerance and their effects on the ecology and evolution of mycorrhizal fungi | New Phytologist | 235(6) 2158-2175 |
| 2022 | 10.1038/s41893-021-00827-y | Schulte, L. A., B. E. Dale, S. Bozzetto, M. Liebman, G. M. Souza, N. Haddad, T. L. Richard, B. Basso, R. C. Brown, J. A. Hilbert and J. G. Arbuckle | Meeting global challenges with regenerative agriculture producing food and energy | Nature Sustainability | 5(5) 384–8 |
| 2022 | 10.1109/TGRS.2022.3141907 | Zarei, A., E. Gonzalez, N. Merchant, D. Pauli, E. Lyons and K. Barnard | MegaStitch: Robust Large-Scale Image Stitching | IEEE Transactions on Geoscience and Remote Sensing | 60 |
| 2022 | 10.1093/nar/gkac459 | Capela, J., D. Lagoa, R. Rodrigues, E. Cunha, F. Cruz, A. Barbosa, J. Bastos, D. Lima, E. C. Ferreira, M. Rocha and O. Dias | merlin, an improved framework for the reconstruction of high-quality genome-scale metabolic models | Nucleic Acids Research | 50(11) 6052–66 |
| 2022 | 10.1111/nph.18427 | Pathare, V. S., R. J. DiMario, N. Koteyeva and A. B. Cousins | Mesophyll conductance response to short-term changes in pCO2 is related to leaf anatomy and biochemistry in diverse C4 grasses | New Phytologist | 236(4) 1281-1295 |
| 2022 | 10.1038/s41396-022-01220-z | Viacava, K., J. Qiao, A. Janowczyk, S. Poudel, N. Jacquemin, K. L. Meibom, H. K. Shrestha, M. C. Reid, R. L. Hettich and R. Bernier-Latmani | Meta-omics-aided isolation of an elusive anaerobic arsenic-methylating soil bacterium | The ISME Journal | 16(7) 1740–9 |
| 2022 | 10.1016/j.ymben.2022.01.005 | Sasaki, Y. and Y. Yoshikuni | Metabolic engineering for valorization of macroalgae biomass | Metabolic Engineering | 71 42-61 |
| 2022 | 10.1186/s12896-022-00753-7 | Luo, G., V. D. Cao, B. Kannan, H. Liu, J. Shanklin and F. Altpeter | Metabolic engineering of energycane to hyperaccumulate lipids in vegetative biomass | BMC Biotechnology | 22(1) |
| 2022 | 10.1002/bit.28159 | Cao, M., V. G. Tran, J. Qin, A. Olson, S. Mishra, John C. Schultz, C. Huang, D. Xie and H. Zhao | Metabolic engineering of oleaginous yeast Rhodotorula toruloides for overproduction of triacetic acid lactone | Biotechnology and Bioengineering | 119(9) 2529–40 |
| 2022 | 10.1186/s12934-022-01750-3 | Schultz, J. C., S. Mishra, E. Gaither, A. Mejia, H. Dinh, C. Maranas and H. Zhao | Metabolic engineering of Rhodotorula toruloides IFO0880 improves C16 and C18 fatty alcohol production from synthetic media | Microbial Cell Factories | 21(1) 26 |
| 2022 | 10.1080/07388551.2021.1924112 | Liu, C.-L., K. Xue, Y. Yang, X. Liu, Y. Li, T. S. Lee, Z. Bai and T. Tan | Metabolic engineering strategies for sesquiterpene production in microorganism | Critical Reviews in Biotechnology | 42(1) 73–92 |
| 2022 | 10.1038/s41467-022-29218-3 | Yan, Q., W. T. Cordell, M. A. Jindra, D. K. Courtney, M. K. Kuckuk, X. Chen and B. F. Pfleger | Metabolic engineering strategies to produce medium-chain oleochemicals via acyl-ACP:CoA transacylase activity | Nature Communications | 13(1) 1619 |
| 2022 | 10.1128/spectrum.01067-22 | Catlett, J. L., S. Carr, M. Cashman, M. D. Smith, M. Walter, Z. Sakkaff, C. Kelley, M. Pierobon, M. B. Cohen and N. R. Buan | Metabolic Synergy between Human Symbionts Bacteroides and Methanobrevibacter | Microbiology Spectrum | 10(3) e01067-22 |
| 2022 | 10.1016/j.cmet.2021.11.005 | Giera, M., O. Yanes and G. Siuzdak | Metabolite discovery: Biochemistry's scientific driver | Cell Metabolism | 34(1) 21–34 |
| 2022 | 10.1128/mra.00645-22 | Aoki, M., N. Nakahara, M. Kusube and K. Syutsubo | Metagenome-Assembled Genome Sequence of Marine Rhizobiaceae sp. Strain MnEN-MB40S, Obtained from Manganese-Oxidizing Enrichment Culture | Microbiology Resource Announcements | 11(9) e00645-22 |
| 2022 | 10.1128/mra.01151-21 | Scarborough, M. J., K. S. Myers, N. W. Fortney, A. T. Ingle, T. J. Donohue and D. R. Noguera | Metagenome-Assembled Genomes from a Microbiome Converting Xylose to Medium-Chain Carboxylic Acids | Microbiology Resource Announcements | 11(4) e01151-21 |
| 2022 | 10.1128/mra.00292-22 | Ingle, A. T., N. W. Fortney, K. S. Myers, K. A. Walters, M. J. Scarborough, T. J. Donohue and D. R. Noguera | Metagenome-Assembled Genomes from a Microbiome Grown in Dairy Manure Hydrolysate | Microbiology Resource Announcements | 11(8) e00292-22 |
| 2022 | 10.1128/mra.00804-22 | Mandro, J. A., F. M. Nakamura, J. B. Gontijo, S. M. Tsai and A. M. Venturini | Metagenome-Assembled Genomes from Amazonian Soil Microbial Consortia | Microbiology Resource Announcements | 11(11) e00804-22 |
| 2022 | 10.1128/mra.00293-22 | Walters, K. A., K. S. Myers, H. Wang, N. W. Fortney, A. T. Ingle, M. J. Scarborough, T. J. Donohue and D. R. Noguera | Metagenomes and Metagenome-Assembled Genomes from Microbial Communities Fermenting Ultrafiltered Milk Permeate | Microbiology Resource Announcements | 11(7) e00293-22 |
| 2022 | 10.1128/mra.00290-22 | Fortney, N. W., K. S. Myers, A. T. Ingle, K. A. Walters, M. J. Scarborough, T. J. Donohue and D. R. Noguera | Metagenomes and Metagenome-Assembled Genomes from Microbiomes Metabolizing Thin Stillage from an Ethanol Biorefinery | Microbiology Resource Announcements | 11(8) e00290-22 |
| 2022 | 10.1128/mra.00212-22 | Beach, N. K., K. S. Myers, T. J. Donohue and D. R. Noguera | Metagenomes from 25 Low-Abundance Microbes in a Partial Nitritation Anammox Microbiome | Microbiology Resource Announcements | 11(6) e00212-22 |
| 2022 | 10.3389/fmicb.2022.825104 | Bryson, S. J., K. A. Hunt, D. A. Stahl and M.-K. H. Winkler | Metagenomic Insights Into Competition Between Denitrification and Dissimilatory Nitrate Reduction to Ammonia Within One-Stage and Two-Stage Partial-Nitritation Anammox Bioreactor Configurations | Frontiers in Microbiology | 13 |
| 2022 | 10.1007/s00294-022-01247-x | Singh, A. K., M. Kumari, N. Sharma, A. K. Rai and S. P. Singh | Metagenomic views on taxonomic and functional profiles of the Himalayan Tsomgo cold lake and unveiling its deterzome potential | Current Genetics | 68(5) 565–79 |
| 2022 | 10.1186/s40168-022-01343-7 | Keller-Costa, T., L. Kozma, S. G. Silva, R. Toscan, J. Gonçalves, A. Lago-Lestón, N. C. Kyrpides, U. Nunes da Rocha and R. Costa | Metagenomics-resolved genomics provides novel insights into chitin turnover, metabolic specialization, and niche partitioning in the octocoral microbiome | Microbiome | 10(1) 151 |
| 2022 | 10.1186/s40168-022-01231-0 | Gregory, A. C., K. Gerhardt, Z. P. Zhong, B. Bolduc, B. Temperton, K. T. Konstantinidis and M. B. Sullivan | MetaPop: a pipeline for macro- and microdiversity analyses and visualization of microbial and viral metagenome-derived populations | Microbiome | 10(1) |
| 2022 | 10.1038/s41467-022-31433-x | Chirania, P., E. K. Holwerda, R. J. Giannone, X. Liang, S. Poudel, J. C. Ellis, Y. J. Bomble, R. L. Hettich and L. R. Lynd | Metaproteomics reveals enzymatic strategies deployed by anaerobic microbiomes to maintain lignocellulose deconstruction at high solids | Nature Communications | 13(1) 3870 |
| 2022 | Muchero, W., G. Tuskan, J.-G. Chen and L. E. Gunter | Methods for improving callus formation and regeneration in plants | Patent, U. S. | ||
| 2022 | 10.1016/j.jbc.2022.102396 | Bowler, J. T., M. R. Sawaya, D. R. Boyer, D. Cascio, M. Bali and D. S. Eisenberg | Micro-electron diffraction structure of the aggregation-driving N terminus of Drosophila neuronal protein Orb2A reveals amyloid-like β-sheets | Journal of Biological Chemistry | 298(10) |
| 2022 | 10.3389/fmicb.2021.799014 | Campbell, T. P., D. E. M. Ulrich, J. Toyoda, J. Thompson, B. Munsky, M. B. N. Albright, V. L. Bailey, M. M. Tfaily and J. Dunbar | Microbial Communities Influence Soil Dissolved Organic Carbon Concentration by Altering Metabolite Composition | Frontiers in Microbiology | 12 |
| 2022 | 10.1038/s41396-022-01222-x | Speth, D. R., F. B. Yu, S. A. Connon, S. Lim, J. S. Magyar, M. E. Peña-Salinas, S. R. Quake and V. J. Orphan | Microbial communities of Auka hydrothermal sediments shed light on vent biogeography and the evolutionary history of thermophily | ISME Journal | 16(7) 1750-1764 |
| 2022 | 10.1128/spectrum.00049-22 | Tinker, K., D. Lipus, J. Gardiner, M. Stuckman and D. Gulliver | The Microbial Community and Functional Potential in the Midland Basin Reveal a Community Dominated by Both Thiosulfate and Sulfate-Reducing Microorganisms | Microbiology Spectrum | 10(4) e00049-22 |
| 2022 | 10.1111/gcb.16321 | Sridhar, B., R. C. Wilhelm, S. J. Debenport, T. J. Fahey, D. H. Buckley and C. L. Goodale | Microbial community shifts correspond with suppression of decomposition 25 years after liming of acidic forest soils | Global Change Biology | 28(18) 5399-5415 |
| 2022 | 10.1525/elementa.2021.00076 | Sorouri, B. and S. D. Allison | Microbial extracellular enzyme activity with simulated climate change | Elementa | 10(1) |
| 2022 | 10.1002/bit.28155 | Hunt, K. A., F. von Netzer, D. Gorman-Lewis and D. A. Stahl | Microbial maintenance energy quantified and modeled with microcalorimetry | Biotechnology and Bioengineering | 119(9) 2413–22 |
| 2022 | 10.1111/gcb.16231 | Ernakovich, J. G., R. A. Barbato, V. I. Rich, C. Schädel, R. E. Hewitt, et al. | Microbiome assembly in thawing permafrost and its feedbacks to climate | Global Change Biology | 28(17) 5007-5026 |
| 2022 | 10.1016/j.mib.2022.102172 | Han, S. W. and Y. Yoshikuni | Microbiome engineering for sustainable agriculture: using synthetic biology to enhance nitrogen metabolism in plant-associated microbes | Current Opinion in Microbiology | 68 |
| 2022 | 10.1038/s41564-022-01174-0 | Needham, D. M., C. Poirier, C. Bachy, E. E. George, S. Wilken, C. C. M. Yung, A. J. Limardo, M. Morando, L. Sudek, R. R. Malmstrom, P. J. Keeling, A. E. Santoro and A. Z. Worden | The microbiome of a bacterivorous marine choanoflagellate contains a resource-demanding obligate bacterial associate | Nature Microbiology | 7(9) 1466–79 |
| 2022 | 10.1021/acssuschemeng.2c00820 | Fang, Z., J. E. Jackson and E. L. Hegg | Mild, Electroreductive Lignin Cleavage: Optimizing the Depolymerization of Authentic Lignins | ACS Sustainable Chemistry & Engineering | 10(23) 7545–52 |
| 2022 | 10.1016/j.tplants.2021.11.005 | Therby-Vale, R., B. Lacombe, S. Y. Rhee, L. Nussaume and H. Rouached | Mineral nutrient signaling controls photosynthesis: focus on iron deficiency-induced chlorosis | Trends in Plant Science | 27(5) 502-509 |
| 2022 | 10.1128/msystems.00913-22 | Bhattacharjee, A., O. Qafoku, J. A. Richardson, L. N. Anderson, K. Schwarz, et al. | A Mineral-Doped Micromodel Platform Demonstrates Fungal Bridging of Carbon Hot Spots and Hyphal Transport of Mineral-Derived Nutrients | mSystems | 7(6) e00913-22 |
| 2022 | 10.1093/plphys/kiac579 | Tomaž, Š., M. Petek, T. Lukan, K. Pogačar, K. Stare, et al. | A mini-TGA protein modulates gene expression through heterogeneous association with transcription factors | Plant Physiology | 191(3) 1934–52 |
| 2022 | 10.1107/S1600576722008998 | Tan, L., M. D. Smith, H. L. Scott, A. Yahya, J. G. Elkins, J. Katsaras, H. M. O'Neill, S. V. Pingali, J. C. Smith, B. H. Davison and J. D. Nickels | Modeling the partitioning of amphiphilic molecules and co-solvents in biomembranes | Journal of Applied Crystallography | 55 1401–12 |
| 2022 | 10.1128/msystems.00169-22 | Dhakar, K., R. Zarecki, S. Medina, H. Ziadna, K. Igbaria, R. Lati, Z. Ronen, H. Eizenberg and S. Freilich | Modeling-Guided Amendments Lead to Enhanced Biodegradation in Soil | mSystems | 7(4) e00169-22 |
| 2022 | 10.1371/journal.pone.0264467 | Chen, Y., N. Kaplan Lease, J. W. Gin, T. L. Ogorzalek, P. D. Adams, N. J. Hillson and C. J. Petzold | Modular automated bottom-up proteomic sample preparation for high-throughput applications | PLoS ONE | 17(2) e0264467 |
| 2022 | 10.1016/j.jenvman.2022.114569 | Sharma, N., R. Kumari, M. Thakur, A. K. Rai and S. P. Singh | Molecular dissemination of emerging antibiotic, biocide, and metal co-resistomes in the Himalayan hot springs | Journal of Environmental Management | 307 114569 |
| 2022 | 10.1038/s41388-022-02424-5 | Goodsell, D. S., S. Dutta, M. Voigt, C. Zardecki and S. K. Burley | Molecular explorations of cancer biology and therapeutics at PDB-101 | Oncogene | 41(38) 4333-4335 |
| 2022 | 10.1016/j.jbc.2022.102627 | Vermaas, J. V., M. F. Crowley and G. T. Beckham | Molecular simulation of lignin-related aromatic compound permeation through gram-negative bacterial outer membranes | Journal of Biological Chemistry | 298(12) |
| 2022 | 10.1111/pbi.13754 | Aregawi, K., J. Shen, G. Pierroz, M. K. Sharma, J. Dahlberg, J. Owiti and P. G. Lemaux | Morphogene-assisted transformation of Sorghum bicolor allows more efficient genome editing | Plant Biotechnology Journal | 20(4) 748-760 |
| 2022 | 10.1007/978-3-030-97185-4_3 | Blaby-Haas, C. E. | The Mosaic Landscape of Algal Metal Transport and Usage | Microbial Metabolism of Metals and Metalloids | 55–75 |
| 2022 | 10.7150/thno.72581 | Zhang, H., X. Su, S. K. Burley and X. F. Steven Zheng | mTOR regulates aerobic glycolysis through NEAT1 and nuclear paraspeckle-mediated mechanism in hepatocellular carcinoma | Theranostics | 12(8) 3518-3533 |
| 2022 | 10.1186/s12859-022-04829-1 | Mahmud, S., Z. Guo, F. Quadir, J. Liu and J. Cheng | Multi-head attention-based U-Nets for predicting protein domain boundaries using 1D sequence features and 2D distance maps | BMC Bioinformatics | 23(1) |
| 2022 | 10.3389/fpls.2022.908649 | Shrestha, H. K., Y. Fichman, N. L. Engle, T. J. Tschaplinski, R. Mittler, R. A. Dixon, R. L. Hettich, J. Barros and P. E. Abraham | Multi-omic characterization of bifunctional peroxidase 4-coumarate 3-hydroxylase knockdown in Brachypodium distachyon provides insights into lignin modification-associated pleiotropic effects | Frontiers in Plant Science | 13 908649 |
| 2022 | 10.1016/j.joule.2022.06.016 | Jang, J. H., D. G. Brandner, R. J. Dreiling, A. J. Ringsby, J. R. Bussard, L. M. Stanley, R. M. Happs, A. S. Kovvali, J. I. Cutler, T. Renders, J. R. Bielenberg, Y. Román-Leshkov and G. T. Beckham | Multi-pass flow-through reductive catalytic fractionation | Joule | 6(8) 1859–75 |
| 2022 | 10.1016/j.rser.2022.112857 | Baral, N. R., S. K. Mishra, A. George, S. Gautam, U. Mishra and C. D. Scown | Multifunctional landscapes for dedicated bioenergy crops lead to low-carbon market-competitive biofuels | Renewable and Sustainable Energy Reviews | 169 112857 |
| 2022 | 10.1111/tpj.15640 | Engle, K. A., R. A. Amos, J.-Y. Yang, J. Glushka, M. A. Atmodjo, L. Tan, C. Huang, K. W. Moremen and D. Mohnen | Multiple Arabidopsis galacturonosyltransferases synthesize polymeric homogalacturonan by oligosaccharide acceptor-dependent or de novo synthesis | The Plant Journal | 109(6) 1441–56 |
| 2022 | 10.3389/fgene.2021.821715 | Robinson, A. J., H. E. Daligault, J. M. Kelliher, E. S. LeBrun and P. S. G. Chain | Multiple Cases of Bacterial Sequence Erroneously Incorporated Into Publicly Available Chloroplast Genomes | Frontiers in Genetics | 12 |
| 2022 | 10.1038/s41467-022-31927-8 | Chen, Y., E. Hysolli, A. Chen, S. Casper, S. Liu, K. Yang, C. Liu and G. Church | Multiplex base editing to convert TAG into TAA codons in the human genome | Nature Communications | 13(1) |
| 2022 | 10.1093/plphys/kiac128 | Bewg, W. P., S. A. Harding, N. L. Engle, B. N. Vaidya, R. Zhou, et al. | Multiplex knockout of trichome-regulating MYB duplicates in hybrid poplar using a single gRNA | Plant Physiology | 189(2) 516–26 |
| 2022 | 10.1021/acssuschemeng.2c03373 | Mohan, M., K. L. Sale, R. S. Kalb, B. A. Simmons, J. M. Gladden and S. Singh | Multiscale Molecular Simulation Strategies for Understanding the Delignification Mechanism of Biomass in Cyrene | ACS Sustainable Chemistry & Engineering | 10(33) 11016–29 |
| 2022 | 10.1111/1462-2920.16115 | Plett, J. M., J. Sabotic, E. Vogt, F. Snijders, A. Kohler, U. N. Nielsen, M. Kunzler, F. Martin and C. Veneault-Fourrey | Mycorrhiza-induced mycocypins of Laccaria bicolor are potent protease inhibitors with nematotoxic and collembola antifeedant activity | Environmental Microbiology | 24(10) 4607–22 |
| 2022 | 10.1016/j.jfueco.2022.100072 | Elkins, J. G., M. Rodriguez, O. N. Cannon, R. M. Connatser, G. B. Oguntimein, M. D. Kass, B. H. West and B. H. Davison | n-Butanol or isobutanol as a value-added fuel additive to inhibit microbial degradation of stored gasoline | Fuel Communications | 12 100072 |
| 2022 | 10.1038/s41565-021-01018-8 | Zhang, H., N. S. Goh, J. W. Wang, R. L. Pinals, E. González-Grandío, G. S. Demirer, S. Butrus, S. C. Fakra, A. Del Rio Flores, R. Zhai, B. Zhao, S. J. Park and M. P. Landry | Nanoparticle cellular internalization is not required for RNA delivery to mature plant leaves | Nature Nanotechnology | 17(2) 197-205 |
| 2022 | 10.7554/eLife.76523 | Tatli, M., S. Moraïs, O. E. Tovar-Herrera, Y. J. Bomble, E. A. Bayer, O. Medalia and I. Mizrahi | Nanoscale resolution of microbial fiber degradation in action | eLife | 11 e76523 |
| 2022 | 10.1093/g3journal/jkac084 | Navarrete, T. G., C. Arias, E. Mukundi, A. P. Alonso and E. Grotewold | Natural variation and improved genome annotation of the emerging biofuel crop field pennycress (Thlaspi arvense) | G3: Genes, Genomes, Genetics | 12(6) |
| 2022 | 10.1016/j.molcel.2022.04.020 | Huang, C. J., B. A. Adler and J. A. Doudna | A naturally DNase-free CRISPR-Cas12c enzyme silences gene expression | Molecular Cell | 82(11) 2148-2160.e4 |
| 2022 | 10.1128/mra.00050-22 | Jagtap, S. S., J.-J. Liu, H. E. Walukiewicz, J. Pangilinan, A. Lipzen, et al. | Near-Complete Genome Sequence of Zygosaccharomyces rouxii NRRL Y-64007, a Yeast Capable of Growing on Lignocellulosic Hydrolysates | Microbiology Resource Announcements | 11(5) e00050-22 |
| 2022 | 10.1021/jasms.1c00343 | Aisporna, A., H. P. Benton, A. Chen, R. J. E. Derks, J. M. Galano, M. Giera and G. Siuzdak | Neutral Loss Mass Spectral Data Enhances Molecular Similarity Analysis in METLIN | Journal of the American Society for Mass Spectrometry | 33(3) 530–4 |
| 2022 | 10.1111/nph.18136 | Unda, F., Y. Mottiar, E. L. Mahon, S. D. Karlen, K. H. Kim, D. Loqué, A. Eudes, J. Ralph and S. D. Mansfield | A new approach to zip-lignin: 3,4-dihydroxybenzoate is compatible with lignification | New Phytologist | 235(1) 234–46 |
| 2022 | 10.1111/gcbb.12914 | Juice, S. M., C. A. Walter, K. E. Allen, D. M. Berardi, T. W. Hudiburg, B. N. Sulman and E. R. Brzostek | A new bioenergy model that simulates the impacts of plant-microbial interactions, soil carbon protection, and mechanistic tillage on soil carbon cycling | GCB Bioenergy | 14(3) 346–63 |
| 2022 | 10.1016/j.foodres.2022.111190 | Yasir, M., I. A. Al-Zahrani, F. Bibi, M. Abd El Ghany and E. I. Azhar | New insights of bacterial communities in fermented vegetables from shotgun metagenomics and identification of antibiotic resistance genes and probiotic bacteria | Food Research International | 157 111190 |
| 2022 | 10.3389/fchem.2021.826625 | Dong, H., L. D. C. Sousa, B. Ubanwa, A. D. Jones and V. Balan | A new method to overcome carboxyamide formation during AFEX pretreatment of lignocellulosic biomass | Frontiers in Chemistry | 9 |
| 2022 | 10.1111/gcb.15986 | Pan, D., I. Gelfand, L. Tao, M. Abraha, K. Sun, X. Guo, J. Chen, G. P. Robertson and M. A. Zondlo | A new open-path eddy covariance method for nitrous oxide and other trace gases that minimizes temperature corrections | Global Change Biology | 28(4) 1446–57 |
| 2022 | 10.3389/fmicb.2022.1033631 | Carrell, A. A., B. B. Hicks, E. Sidelinger, E. R. Johnston, S. S. Jawdy, M. M. Clark, D. M. Klingeman and M. A. Cregger | Nitrogen addition alters soil fungal communities, but root fungal communities are resistant to change | Frontiers in Microbiology | 13 1033631 |
| 2022 | 10.1007/s12155-021-10284-2 | Basyal, B., C. Foster, K. L. Gross and S. M. Emery | Nitrogen Fertilizer, Arbuscular Mycorrhizal Fungi, and Soil Nematodes Affect Lignin Quality and Quantity in Switchgrass (Panicum virgatum L.) | BioEnergy Research | 15(2) 1033–41 |
| 2022 | 10.1128/aem.02430-21 | Schmidt, M., A. N. Pearson, M. R. Incha, M. G. Thompson, E. E. K. Baidoo, R. Kakumanu, A. Mukhopadhyay, P. M. Shih, A. M. Deutschbauer, L. M. Blank and J. D. Keasling | Nitrogen Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing | Applied and Environmental Microbiology | 88(7) e02430-21 |
| 2022 | 10.1504/IJBET.2022.10049492 | Bhattacharjee, R., A. Verma, N. Sharma and S. Sharma | Non-rigid registration (computed tomography - ultrasound) of liver using B-splines and free form deformation | International Journal of Biomedical Engineering and Technology | 39(4) 327-346 |
| 2022 | 10.1093/g3journal/jkab436 | Carlson, C. H., Y. Choi, A. P. Chan, C. D. Town and L. B. Smart | Nonadditive gene expression is correlated with nonadditive phenotypic expression in interspecific triploid hybrids of willow (Salix spp.) | G3: Genes, Genomes, Genetics | 12(3) |
| 2022 | 10.1253/circj.CJ-22-0036 | Minami, T., H. Kawano, T. Yoshimuta, S. Ikeda, C. Otsubo and K. Maemura | Nonbacterial thrombotic endocarditis progressed aortic stenosis of a bicuspid aortic valve in a patient with advanced cancer | Circulation journal : official journal of the Japanese Circulation Society | 86(10) 1589 |
| 2022 | 10.1016/j.mib.2021.11.007 | Khana, D. B., M. M. Callaghan and D. Amador-Noguez | Novel computational and experimental approaches for investigating the thermodynamics of metabolic networks | Current Opinion in Microbiology | 66 21–31 |
| 2022 | 10.3389/fpls.2021.782960 | Biswal, A. K., T.-Y. Wu, D. Urano, R. Pelissier, J.-B. Morel, A. M. Jones and A. K. Biswal | Novel Mutant Alleles Reveal a Role of the Extra-Large G Protein in Rice Grain Filling, Panicle Architecture, Plant Growth, and Disease Resistance | Frontiers in Plant Science | 12 |
| 2022 | 10.1016/j.cej.2021.133461 | Badr, K., Q. P. He and J. Wang | A novel semi-structured kinetic model of methanotroph-photoautotroph cocultures for biogas conversion | Chemical Engineering Journal | 431 |
| 2022 | 10.1093/lambio/ovac049 | Basak, C. and R. Chakraborty | A novel strain of Shigella isolated from the gut of Lepidocephalichthys guntea has in its genome a complete gene package for Type ll secretion system, and elaborate repertoire of genes responsible for multiple antibiotic-resistance and metal resistance via specific efflux channels | Letters in Applied Microbiology | 76(1) ovac049 |
| 2022 | 10.1007/s10021-022-00758-5 | Kashi, N. N., E. A. Hobbie, R. K. Varner, A. S. Wymore, J. G. Ernakovich and R. Giesler | Nutrients Alter Methane Production and Oxidation in a Thawing Permafrost Mire | Ecosystems | |
| 2022 | 10.34133/2022/9879610 | Xu, Z., L. M. York, A. Seethepalli, B. Bucciarelli, H. Cheng and D. A. Samac | Objective Phenotyping of Root System Architecture Using Image Augmentation and Machine Learning in Alfalfa (Medicago sativa L.) | Plant Phenomics | 2022 9879610 |
| 2022 | 10.1016/j.pbi.2022.102222 | Zhao, K. and S. Y. Rhee | Omics-guided metabolic pathway discovery in plants: Resources, approaches, and opportunities | Current Opinion in Plant Biology | 67 |
| 2022 | 10.1016/j.coche.2022.100796 | Je, L., G. W. Huber, R. C. Van Lehn and V. M. Zavala | On the integration of molecular dynamics, data science, and experiments for studying solvent effects on catalysis | Current Opinion in Chemical Engineering | 36 100796 |
| 2022 | 10.1021/acs.analchem.2c01654 | Brown, S. L., M. A. Zenaidee, J. A. Loo, R. R. O. Loo and W. A. Donald | On the mechanism of theta capillary nanoelectrospray ionization for the formation of highly charged protein ions directly from native solutions | Analytical Chemistry | 94(38) 13010-13018 |
| 2022 | 10.1016/j.pbi.2021.102152 | VanWallendael, A., D. B. Lowry and J. A. Hamilton | One hundred years into the study of ecotypes, new advances are being made through large-scale field experiments in perennial plant systems | Current Opinion in Plant Biology | 66 102152 |
| 2022 | 10.1039/D1GC03774A | Pérez Pimienta, J. A., G. Papa, J. Sun, V. Stavila, A. Sanchez, J. M. Gladden and B. A. Simmons | One-pot ethanol production under optimized pretreatment conditions using agave bagasse at high solids loading with low-cost biocompatible protic ionic liquid | Green Chemistry | 24(1) 207–17 |
| 2022 | 10.1016/j.biortech.2021.126061 | Meng, X., C. G. Yoo, Y. Pu and A. J. Ragauskas | Opportunities and challenges for flow-through hydrothermal pretreatment in advanced biorefineries | Bioresource Technology | 343 126061 |
| 2022 | 10.1002/pld3.392 | Strenkert, D., M. Mingay, S. Schmollinger, C. Chen, R. C. O'Malley and S. S. Merchant | An optimized ChIP-Seq framework for profiling histone modifications in Chromochloris zofingiensis | Plant Direct | 6(3) |
| 2022 | 10.3389/fenrg.2022.840418 | Maitra, S., S. P. Long and V. Singh | Optimizing Chemical-Free Pretreatment for Maximizing Oil/Lipid Recovery From Transgenic Bioenergy Crops and Its Rapid Analysis Using Time Domain-NMR | Frontiers in Energy Research | 10 |
| 2022 | 10.1126/sciadv.abn0105 | Steenwyk, J. L., M. A. Phillips, F. Yang, S. S. Date, T. R. Graham, J. Berman, C. T. Hittinger and A. Rokas | An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function | Science Advances | 8(18) eabn0105 |
| 2022 | 10.1042/BCJ20220003 | Fenyk, S., H. K. Woodfield, T. B. Romsdahl, E. J. Wallington, R. E. Bates, D. A. Fell, K. D. Chapman, T. Fawcett and J. L. Harwood | Overexpression of phospholipid: diacylglycerol acyltransferase in Brassica napus results in changes in lipid metabolism and oil accumulation | Biochemical Journal | 479(6) 805-823 |
| 2022 | 10.1126/sciadv.abo5738 | Hoengenaert, L., M. Wouters, H. Kim, B. De Meester, K. Morreel, S. Vandersyppe, J. Pollier, S. Desmet, G. Goeminne, J. Ralph, W. Boerjan and R. Vanholme | Overexpression of the scopoletin biosynthetic pathway enhances lignocellulosic biomass processing | Science Advances | 8(28) eabo5738 |
| 2022 | 10.1186/s40643-021-00491-2 | Sacko, O., N. L. Engle, T. J. Tschaplinski, S. Kumar and J. W. Lee | Ozonized biochar filtrate effects on the growth of Pseudomonas putida and cyanobacteria Synechococcus elongatus PCC 7942 | Bioresources and Bioprocessing | 9(1) 2 |
| 2022 | 10.1093/plphys/kiac485 | Hellinger, J., H. Kim, J. Ralph and S. D. Karlen | p-Coumaroylation of lignin occurs outside of commelinid monocots in the eudicot genus Morus (mulberry) | Plant Physiology | 191(2) 854–61 |
| 2022 | 10.1099/ijsem.0.005294 | Roldán, D. M., A. Costa, S. Králová, H.-J. Busse, V. Amarelle, E. Fabiano and R. J. Menes | Paenibacillus farraposensis sp. nov., isolated from a root nodule of Arachis villosa | International Journal of Systematic and Evolutionary Microbiology | 72(3) |
| 2022 | 10.3390/ijms23105581 | Zhao, Y., Y. Zhang, W. Zhang, Y. Shi, C. Jiang, X. Song, G. A. Tuskan, W. Zeng, J. Zhang and M. Lu | The PagKNAT2/6b-PagBOP1/2a Regulatory Module Controls Leaf Morphogenesis in Populus | International Journal of Molecular Sciences | 23(10) 5581 |
| 2022 | 10.1007/s11033-022-07927-8 | Chávez-Luzanía, R. A., A. C. Montoya-Martínez, F. I. Parra-Cota and S. de los Santos-Villalobos | Pangenomes-identified singletons for designing specific primers to identify bacterial strains in a plant growth-promoting consortium | Molecular Biology Reports | 49(11) 10489–98 |
| 2022 | 10.3390/cells11162467 | Yuan, G., S. Martin, M. M. Hassan, G. A. Tuskan and X. Yang | PARA: A New Platform for the Rapid Assembly of gRNA Arrays for Multiplexed CRISPR Technologies | Cells | 11(16) 2467 |
| 2022 | 10.1021/acssynbio.2c00051 | Bibik, J. D., S. M. Weraduwage, A. Banerjee, K. s. Robertson, R. Espinoza-Corral, T. D. Sharkey, P. K. Lundquist and B. R. Hamberger | Pathway Engineering, Re-targeting, and Synthetic Scaffolding Improve the Production of Squalene in Plants | ACS Synthetic Biology | 11(6) 2121–33 |
| 2022 | 10.1002/pro.4200 | Zardecki, C., S. Dutta, D. S. Goodsell, R. Lowe, M. Voigt and S. K. Burley | PDB-101: Educational resources supporting molecular explorations through biology and medicine | Protein Science | 31(1) 129-140 |
| 2022 | 10.1016/j.jmb.2022.167599 | Westbrook, J. D., J. Y. Young, C. Shao, Z. Feng, V. Guranovic, et al. | PDBx/mmCIF Ecosystem: Foundational semantic tools for structural biology: PDBx/mmCIF ecosystem: Foundational semantic tools | Journal of Molecular Biology | 434(11) |
| 2022 | 10.1111/gcbb.12903 | Zahorec, A., M. L. Reid, L. K. Tiemann and D. A. Landis | Perennial grass bioenergy cropping systems: Impacts on soil fauna and implications for soil carbon accrual | GCB Bioenergy | 14(1) 4–23 |
| 2022 | 10.3389/fmicb.2021.757812 | Sipes, K., R. Paul, A. Fine, P. Li, R. Liang, J. Boike, T. C. Onstott, T. A. Vishnivetskaya, S. Schaeffer and K. G. Lloyd | Permafrost active layer microbes from Ny Ålesund, Svalbard (79°N) show autotrophic and heterotrophic metabolisms with diverse carbon-degrading enzymes | Frontiers in Microbiology | 12 |
| 2022 | 10.1016/j.oneear.2022.03.010 | Wu, R., G. Trubl, N. Taş and J. K. Jansson | Permafrost as a potential pathogen reservoir | One Earth | 5(4) 351–60 |
| 2022 | 10.1098/rsta.2021.0022 | Varner, R. K., P. M. Crill, S. Frolking, C. K. McCalley, S. A. Burke, J. P. Chanton, M. E. Holmes, S. Saleska and M. W. Palace | Permafrost thaw driven changes in hydrology and vegetation cover increase trace gas emissions and climate forcing in Stordalen Mire from 1970 to 2014 | Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences | 380(2215) |
| 2022 | 10.1111/mec.16319 | Wu, L., F. Yang, J. Feng, X. Tao, Q. Qi, C. Wang, E. A. G. Schuur, R. Bracho, Y. Huang, J. R. Cole, J. M. Tiedje and J. Zhou | Permafrost thaw with warming reduces microbial metabolic capacities in subsurface soils | Molecular Ecology | 31(5) 1403-1415 |
| 2022 | 10.1021/acs.est.2c03566 | Vega, M. A. P., R. C. Scholes, A. R. Brady, R. A. Daly, A. B. Narrowe, L. B. Bosworth, K. C. Wrighton, D. L. Sedlak and J. O. Sharp | Pharmaceutical biotransformation is influenced by photosynthesis and microbial nitrogen cycling in a benthic wetland biomat | Environmental Science and Technology | |
| 2022 | 10.1146/annurev-arplant-070721-083240 | Braun, D. M. | Phloem loading and unloading of sucrose: What a long, strange trip from source to sink | Annual Review of Plant Biology | 73 553-584 |
| 2022 | 10.1016/j.cej.2021.133636 | Kang, N. K., M. Kim, K. Baek, Y. K. Chang, D. R. Ort and Y. S. Jin | Photoautotrophic organic acid production: Glycolic acid production by microalgal cultivation | Chemical Engineering Journal | 433 |
| 2022 | 10.1021/acs.accounts.1c00719 | Harrison, W., X. Huang and H. Zhao | Photobiocatalysis for Abiological Transformations | Accounts of Chemical Research | 55(8) 1087–96 |
| 2022 | 10.1038/s41929-022-00777-4 | Huang, X., J. Feng, J. Cui, G. Jiang, W. Harrison, X. Zang, J. Zhou, B. Wang and H. Zhao | Photoinduced chemomimetic biocatalysis for enantioselective intermolecular radical conjugate addition | Nature Catalysis | 5 586–93 |
| 2022 | 10.1093/jxb/erac382 | Tejera, M., N. N. Boersma, S. V. Archontoulis, F. E. Miguez, A. VanLoocke and E. A. Heaton | Photosynthetic decline in aging perennial grass is not fully explained by leaf nitrogen | Journal of Experimental Botany | 73(22) 7582–95 |
| 2022 | 10.1111/gcbb.12899 | Lee, M. S., R. A. Boyd and D. R. Ort | The photosynthetic response of C3 and C4 bioenergy grass species to fluctuating light | GCB Bioenergy | 14(1) 37-53 |
| 2022 | 10.1111/mec.16436 | Barge, E. G., D. R. Leopold, A. Rojas, R. Vilgalys and P. E. Busby | Phylogenetic conservatism of mycoparasitism and its contribution to pathogen antagonism | Molecular Ecology | 31(10) 3018–30 |
| 2022 | 10.1111/1462-2920.15843 | Dang, C., J. G. V. Walkup, B. A. Hungate, R. B. Franklin, E. Schwartz and E. M. Morrissey | Phylogenetic organization in the assimilation of chemically distinct substrates by soil bacteria | Environmental Microbiology | 24(1) 357-369 |
| 2022 | 10.1007/s00203-022-03298-7 | Amulyasai, B., R. Anusha, C. Sasikala and C. V. Ramana | Phylogenomic analysis of a metagenome-assembled genome indicates a new taxon of an anoxygenic phototroph bacterium in the family Chromatiaceae and the proposal of “Candidatus Thioaporhodococcus” gen. nov | Archives of Microbiology | 204(12) 688 |
| 2022 | 10.3390/microorganisms10050955 | Cai, Y., J. Yun and Z. Jia | Phylogeny and Metabolic Potential of the Methanotrophic Lineage MO3 in Beijerinckiaceae from the Paddy Soil through Metagenome-Assembled Genome Reconstruction | Microorganisms | 10(5) 955 |
| 2022 | 10.1038/s41579-021-00600-0 | Montaño López, J., L. Duran and J. L. Avalos | Physiological limitations and opportunities in microbial metabolic engineering | Nature Reviews Microbiology | 20(1) 35-48 |
| 2022 | 10.1016/j.biortech.2022.126780 | Bing, R. G., C. T. Straub, D. B. Sulis, J. P. Wang, M. W. W. Adams and R. M. Kelly | Plant biomass fermentation by the extreme thermophile Caldicellulosiruptor bescii for co-production of green hydrogen and acetone: Technoeconomic analysis | Bioresource Technology | 348 |
| 2022 | 10.1111/nph.18213 | Blumstein, M., A. Sala, D. J. Weston, N. M. Holbrook and R. Hopkins | Plant carbohydrate storage: intra- and inter-specific trade-offs reveal a major life history trait | New Phytologist | 235(6) 2211–22 |
| 2022 | 10.1146/annurev-arplant-072221-092913 | Schwechheimer, C., P. M. Schröder and C. E. Blaby-Haas | Plant GATA Factors: Their Biology, Phylogeny, and Phylogenomics | Annual Review of Plant Biology | 73 123–48 |
| 2022 | 10.1016/j.soilbio.2022.108857 | Ridgeway, J. R., E. M. Morrissey and E. R. Brzostek | Plant litter traits control microbial decomposition and drive soil carbon stabilization | Soil Biology and Biochemistry | 175 108857 |
| 2022 | 10.1016/bs.mie.2022.07.026 | Liu, H., P. Zhu, Q. Zhang, E. Lam and Q. Liu | Plant metacaspase: A case study of microcrystal structure determination and analysis | Methods in Enzymology | 676 103–31 |
| 2022 | 10.1016/j.scitotenv.2021.152757 | Wilson, R. M., M. A. Hough, B. A. Verbeke, S. B. Hodgkins, G. Tyson, et al. | Plant organic matter inputs exert a strong control on soil organic matter decomposition in a thawing permafrost peatland | Science of the Total Environment | 820 |
| 2022 | 10.1016/j.soilbio.2022.108753 | Ulbrich, T. C., A. Rivas-Ubach, L. K. Tiemann, M. L. Friesen and S. E. Evans | Plant root exudates and rhizosphere bacterial communities shift with neighbor context | Soil Biology and Biochemistry | 172 108753 |
| 2022 | 10.1016/j.geoderma.2021.115565 | Zheng, H., A. K. Guber, Y. Kuzyakov, W. Zhang and A. N. Kravchenko | Plant species and plant neighbor identity affect associations between plant assimilated C inputs and soil pores | Geoderma | 407 115565 |
| 2022 | 10.1016/j.tibtech.2022.09.007 | Yang, Y., T. A. Chaffin, A. H. Ahkami, E. Blumwald and C. N. Stewart, Jr. | Plant synthetic biology innovations for biofuels and bioproducts | Trends in Biotechnology | 40(12) 1454–68 |
| 2022 | 10.1038/s41396-022-01308-6 | Hestrin, R., M. Kan, M. Lafler, J. Wollard, J. A. Kimbrel, P. Ray, S. J. Blazewicz, R. Stuart, K. Craven, M. Firestone, E. E. Nuccio and J. Pett-Ridge | Plant-associated fungi support bacterial resilience following water limitation | The ISME Journal | 16(12) 2752–62 |
| 2022 | 10.1039/D2NP00017B | Sirirungruang, S., K. Markel and P. M. Shih | Plant-based engineering for production of high-valued natural products | Natural Product Reports | 39(7) 1492–509 |
| 2022 | 10.1038/s41467-022-30355-y | Enghiad, B., P. Xue, N. Singh, A. G. Boob, C. Shi, V. A. Petrov, R. Liu, S. S. Peri, S. T. Lane, E. D. Gaither and H. Zhao | PlasmidMaker is a versatile, automated, and high throughput end-to-end platform for plasmid construction | Nature Communications | 13(1) 2697 |
| 2022 | 10.1038/s41559-022-01721-2 | Blaby-Haas, C. E. | Polar algae flaunt their zinc assets | Nature Ecology & Evolution | 6(7) 851–2 |
| 2022 | 10.1021/acsnano.1c06343 | Jackson, C. T., J. W. Wang, E. González-Grandío, N. S. Goh, J. Mun, S. Krishnan, F. L. Geyer, H. Keller, S. Ebert, K. Molawi, N. Kaiser and M. P. Landry | Polymer-Conjugated Carbon Nanotubes for Biomolecule Loading | ACS Nano | 16(2) 1802-1812 |
| 2022 | 10.1038/s41477-022-01270-3 | Amos, R. A., M. A. Atmodjo, C. Huang, Z. Gao, A. Venkat, R. Taujale, N. Kannan, K. W. Moremen and D. Mohnen | Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I | Nature Plants | 8(11) 1289–303 |
| 2022 | 10.1016/j.chom.2021.12.006 | Feng, J., Y. Qian, Z. Zhou, S. Ertmer, E. I. Vivas, F. Lan, J. J. Hamilton, F. E. Rey, K. Anantharaman and O. S. Venturelli | Polysaccharide utilization loci in Bacteroides determine population fitness and community-level interactions | Cell Host and Microbe | 30(2) 200-215.e12 |
| 2022 | 10.1002/biot.202000427 | Zheng, A. O., A. Sher, D. Fridman, C. J. Musante and J. D. Young | Pool size measurements improve precision of flux estimates but increase sensitivity to unmodeled reactions outside the core network in isotopically nonstationary metabolic flux analysis (INST-MFA) | Biotechnology Journal | 17(3) 2000427 |
| 2022 | 10.3389/fbioe.2022.965614 | Otten, J. K., Y. Zou and E. T. Papoutsakis | The potential of caproate (hexanoate) production using Clostridium kluyveri syntrophic cocultures with Clostridium acetobutylicum or Clostridium saccharolyticum | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.3389/fevo.2022.833170 | Kemmerling, L. R., C. E. Rutkoski, S. E. Evans, J. A. Helms, E. S. Cordova-Ortiz, J. D. Smith, J. A. Vázquez Custodio, C. Vizza and N. M. Haddad | Prairie Strips and Lower Land Use Intensity Increase Biodiversity and Ecosystem Services | Frontiers in Ecology and Evolution | 10 |
| 2022 | 10.1002/biot.202100673 | Hassan, M. M., G. Yuan, Y. Liu, M. Alam, C. A. Eckert, G. A. Tuskan, J. F. Golz and X. Yang | Precision genome editing in plants using gene targeting and prime editing: Existing and emerging strategies | Biotechnology Journal | 2100673 |
| 2022 | 10.1186/s13068-022-02226-7 | Lin, H.-H., D. Mendez‐Perez, J. Park, X. Wang, Y. Cheng, J. Huo, A. Mukhopadhyay, T. S. Lee and B. H. Shanks | Precursor prioritization for p-cymene production through synergistic integration of biology and chemistry | Biotechnology for Biofuels and Bioproducts | 15(1) 126 |
| 2022 | 10.1021/acssuschemeng.1c05916 | Starace, A. K., D. D. Lee, K. T. Hietala, Y. Kim, S. Kim, A. E. Harman-Ware and D. L. Carpenter | Predicting Catalytic Pyrolysis Aromatic Selectivity from Pyrolysis Vapor Composition Using Mass Spectra Coupled with Statistical Analysis | ACS Sustainable Chemistry & Engineering | 10(1) 234–44 |
| 2022 | 10.1016/j.soilbio.2021.108472 | Wilhelm, R. C., H. M. van Es and D. H. Buckley | Predicting measures of soil health using the microbiome and supervised machine learning | Soil Biology and Biochemistry | 164 |
| 2022 | 10.1038/s41540-022-00259-0 | Tibocha-Bonilla, J. D., C. Zuñiga, A. Lekbua, C. Lloyd, K. Rychel, K. Short and K. Zengler | Predicting stress response and improved protein overproduction in Bacillus subtilis | npj Systems Biology and Applications | 8(1) 50 |
| 2022 | 10.1039/D1GC03798F | Mohan, M., K. Huang, V. R. Pidatala, B. A. Simmons, S. Singh, K. L. Sale and J. M. Gladden | Prediction of solubility parameters of lignin and ionic liquids using multi-resolution simulation approaches | Green Chemistry | 24(3) 1165–76 |
| 2022 | 10.1186/s40793-022-00440-2 | Smrhova, T., K. Jani, P. Pajer, G. Kapinusova, T. Vylita, J. Suman, M. Strejcek and O. Uhlik | Prokaryotes of renowned Karlovy Vary (Carlsbad) thermal springs: phylogenetic and cultivation analysis | Environmental Microbiome | 17(1) 48 |
| 2022 | 10.1007/978-1-0716-1585-0_10 | Kimbrel, J. A., B. M. Jeffrey and C. S. Ward | Prokaryotic Genome Annotation | Microbial Systems Biology: Methods and Protocols | 193–214 |
| 2022 | 10.3390/microorganisms10102013 | Carper, D. L., M. R. Appidi, S. Mudbhari, H. K. Shrestha, R. L. Hettich and P. E. Abraham | The Promises, Challenges, and Opportunities of Omics for Studying the Plant Holobiont | Microorganisms | 10(10) 2013 |
| 2022 | 10.1016/j.tibtech.2022.09.004 | Scown, C. D. | Prospects for carbon-negative biomanufacturing | Trends in Biotechnology | 40(12) 1415–24 |
| 2022 | 10.1073/pnas.2110787119 | Goldford, J. E., A. B. George, A. I. Flamholz and D. Segrè | Protein cost minimization promotes the emergence of coenzyme redundancy | Proceedings of the National Academy of Sciences | 119(14) e2110787119 |
| 2022 | 10.3390/biom12101425 | Burley, S. K., H. M. Berman, J. M. Duarte, Z. Feng, J. W. Flatt, et al. | Protein Data Bank: A comprehensive review of 3d structure holdings and worldwide utilization by researchers, educators, and students | Biomolecules | 12(10) |
| 2022 | 10.1093/plcell/koac171 | Barros, J., H. K. Shrestha, J. C. Serrani-Yarce, N. L. Engle, P. E. Abraham, T. J. Tschaplinski, R. L. Hettich and R. A. Dixon | Proteomic and metabolic disturbances in lignin-modified Brachypodium distachyon | The Plant Cell | |
| 2022 | 10.3389/frans.2022.1020111 | Lenz, R. R., H. K. Shrestha, A. A. Carrell, J. Labbé, R. L. Hettich, P. E. Abraham and J. M. LeBoldus | Proteomics reveals pathways linked to septoria canker resistance and susceptibility in Populus trichocarpa | Frontiers in Analytical Science | 2 |
| 2022 | 10.3389/fmicb.2022.847964 | Rocca, J. D., A. Yammine, M. Simonin and J. P. Gibert | Protist predation influences the temperature response of bacterial communities | Frontiers in Microbiology | 13 |
| 2022 | 10.1093/nar/gkac025 | Vasileva, Delyana P., Jared C. Streich, Leah H. Burdick, Dawn M. Klingeman, H. B. Chhetri, Christa M. Brelsford, J. C. Ellis, D. M. Close, Daniel A. Jacobson and Joshua K. Michener | Protoplast fusion in Bacillus species produces frequent, unbiased, genome-wide homologous recombination | Nucleic Acids Research | 50(11) 6211–23 |
| 2022 | 10.1038/s41598-022-13525-2 | Garber, M. E., R. Fregoso, J. Lake, A. Kakouridis and A. Mukhopadhyay | Pseudomonas response regulators produced in an E. coli heterologous expression host exhibit host-derived post-translational phosphorylation | Scientific Reports | 12(1) 10336 |
| 2022 | 10.1016/bs.mie.2021.11.023 | Mok, K. C., Z. F. Hallberg and M. E. Taga | Purification and detection of vitamin B12 analogs | Methods in Enzymology | 668 61-85 |
| 2022 | 10.1111/nph.18392 | Cai, Y., Z. Zhai, J. Blanford, H. Liu, H. Shi, J. Schwender, C. Xu and J. Shanklin | Purple acid phosphatase2 stimulates a futile cycle of lipid synthesis and degradation, and mitigates the negative growth effects of triacylglycerol accumulation in vegetative tissues | New Phytologist | 236(3) 1128–39 |
| 2022 | 10.1016/j.bioflm.2022.100088 | Halsted, M. C., A. N. Bible, J. L. Morrell-Falvey and S. T. Retterer | Quantifying biofilm propagation on chemically modified surfaces | Biofilm | 4 100088 |
| 2022 | 10.1016/j.ymben.2021.10.012 | Dinh, H. V., D. Sarkar and C. D. Maranas | Quantifying the propagation of parametric uncertainty on flux balance analysis | Metabolic Engineering | 69 26–39 |
| 2022 | 10.1073/pnas.2116637119 | Lewin, G. R., K. S. Stocke, R. J. Lamont and M. Whiteley | A quantitative framework reveals traditional laboratory growth is a highly accurate model of human oral infection | Proceedings of the National Academy of Sciences | 119(2) e2116637119 |
| 2022 | 10.1021/acsestengg.1c00207 | Michalsen, M. M., F. Kara Murdoch, F. E. Löffler, J. Wilson, P. B. Hatzinger, J. D. Istok, L. Mullins, A. Hill, R. W. Murdoch, C. Condee and K. H. Kucharzyk | Quantitative Proteomics and Quantitative PCR as Predictors of cis-1,2-Dichlorethene and Vinyl Chloride Reductive Dechlorination Rates in Bioaugmented Aquifer Microcosms | ACS ES&T Engineering | 2(1) 43–53 |
| 2022 | 10.1128/msystems.00417-22 | Greenlon, A., E. Sieradzki, O. Zablocki, B. J. Koch, M. M. Foley, et al. | Quantitative Stable-Isotope Probing (qSIP) with Metagenomics Links Microbial Physiology and Activity to Soil Moisture in Mediterranean-Climate Grassland Ecosystems | mSystems | 7(6) e00417-22 |
| 2022 | 10.1128/msystems.01249-21 | No, J. H., S. D. Nishu, J.-K. Hong, E. S. Lyou, M. S. Kim, G. N. Wee and T. K. Lee | Raman-Deuterium Isotope Probing and Metagenomics Reveal the Drought Tolerance of the Soil Microbiome and Its Promotion of Plant Growth | mSystems | 7(1) e01249-21 |
| 2022 | 10.1021/acs.analchem.1c03243 | Trujillo, E. A., A. S. Hebert, J. C. Rivera Vazquez, D. R. Brademan, M. Tatli, D. Amador-Noguez, J. G. Meyer and J. J. Coon | Rapid Targeted Quantitation of Protein Overexpression with Direct Infusion Shotgun Proteome Analysis (DISPA-PRM) | Analytical Chemistry | 94(4) 1965–73 |
| 2022 | 10.1093/bioinformatics/btac317 | Segura, J., Y. Rose, S. Bittrich, S. K. Burley and J. M. Duarte | RCSB Protein Data Bank 1D3D module: displaying positional features on macromolecular assemblies | Bioinformatics | 38(12) 3304-3305 |
| 2022 | 10.1016/j.str.2021.10.008 | Goodsell, D. S. and S. K. Burley | RCSB Protein Data Bank resources for structure-facilitated design of mRNA vaccines for existing and emerging viral pathogens | Structure | 30(1) 55-68.e2 |
| 2022 | 10.1002/pro.4213 | Burley, S. K., C. Bhikadiya, C. Bi, S. Bittrich, L. Chen, et al. | RCSB Protein Data Bank: Celebrating 50 years of the PDB with new tools for understanding and visualizing biological macromolecules in 3D | Protein Science | 31(1) 187-208 |
| 2022 | 10.1128/jb.00078-22 | Heryakusuma, C., D. Susanti, H. Yu, Z. Li, E. Purwantini, R. L. Hettich, V. J. Orphan and B. Mukhopadhyay | A Reduced F420-Dependent Nitrite Reductase in an Anaerobic Methanotrophic Archaeon | Journal of Bacteriology | 204(7) |
| 2022 | 10.1038/s41564-022-01147-3 | Wu, L., Y. Zhang, X. Guo, D. Ning, X. Zhou, et al. | Reduction of microbial diversity in grassland soil is driven by long-term climate warming | Nature Microbiology | 7(7) 1054-1062 |
| 2022 | 10.34133/2022/9853416 | Melesse Vergara, M., J. Labbé and J. Tannous | Reflection on the Challenges, Accomplishments, and New Frontiers of Gene Drives | BioDesign Research | 2022 9853416 |
| 2022 | 10.1128/mbio.01224-22 | Feid, S. C., H. E. Walukiewicz, X. Wang, E. S. Nakayasu, C. V. Rao and A. J. Wolfe | Regulation of translation by lysine acetylation in Escherichia coli | mBio | 13(3) |
| 2022 | 10.1073/pnas.2208795119 | Liu, W. Y., C. P. Yu, C. K. Chang, H. J. Chen, M. Y. Li, Y. H. Chen, S. H. Shiu, M. S. B. Ku, S. L. Tu, M. Y. J. Lu and W. H. Li | Regulators of early maize leaf development inferred from transcriptomes of laser capture microdissection (LCM)-isolated embryonic leaf cells | Proceedings of the National Academy of Sciences of the United States of America | 119(35) |
| 2022 | 10.1039/D2CY00288D | Seemala, B. and C. E. Wyman | Relationship between ZSM-5 pore modifications and gallium proximity and liquid hydrocarbon number distribution from ethanol oligomerization | Catalysis Science & Technology | 12(15) 4903–16 |
| 2022 | 10.1128/msystems.00120-22 | Dove, N. C., A. A. Carrell, N. L. Engle, D. M. Klingeman, M. Rodriguez, T. Wahl, T. J. Tschaplinski, W. Muchero, C. W. Schadt and M. A. Cregger | Relationships between Sphaerulina musiva Infection and the Populus Microbiome and Metabolome | mSystems | 7(4) e00120-22 |
| 2022 | 10.1016/j.fuel.2022.124638 | Sakai, S. and D. Rothamer | Relative particle emission tendencies of 2-methyl-3-buten-2-ol–gasoline, isobutanol–gasoline, and ethanol–gasoline blends from premixed combustion in a spark-ignition engine | Fuel | 324(Part C) 124638 |
| 2022 | 10.3390/molecules27196278 | Choudhary, H., V. R. Pidatala, M. Mohan, B. A. Simmons, J. M. Gladden and S. Singh | Renewable Schiff-Base Ionic Liquids for Lignocellulosic Biomass Pretreatment | Molecules | 27(19) 6278 |
| 2022 | 10.1093/hr/uhac077 | Yuan, G., H. Lu, D. J. Weston, S. Jawdy, T. J. Tschaplinski, G. A. Tuskan and X. Yang | Reporter genes confer new-to-nature ornamental traits in plants | Horticulture Research | 9 uhac077 |
| 2022 | 10.1128/msystems.00951-22 | Coker, J., K. Zhalnina, C. Marotz, D. Thiruppathy, M. Tjuanta, G. D’Elia, R. Hailu, T. Mahosky, M. Rowan, T. R. Northen and K. Zengler | A Reproducible and Tunable Synthetic Soil Microbial Community Provides New Insights into Microbial Ecology | mSystems | 7(6) e00951-22 |
| 2022 | 10.1111/tpj.15674 | Hu, S., N. Kamimura, S. Sakamoto, S. Nagano, N. Takata, et al. | Rerouting of the lignin biosynthetic pathway by inhibition of cytosolic shikimate recycling in transgenic hybrid aspen | The Plant Journal | 110(2) 358–76 |
| 2022 | 10.1016/j.soilbio.2022.108755 | Whitman, T., J. Woolet, M. Sikora, D. B. Johnson and E. Whitman | Resilience in soil bacterial communities of the boreal forest from one to five years after wildfire across a severity gradient | Soil Biology and Biochemistry | 172 |
| 2022 | 10.1002/fee.2430 | Bloom, E. H., K. K. Graham, N. L. Haan, A. R. Heck, L. J. Gut, D. A. Landis, M. O. Milbrath, G. M. Quinlan, J. K. Wilson, Y. Zhang, Z. Szendrei and R. Isaacs | Responding to the US national pollinator plan: a case study in Michigan | Frontiers in Ecology and the Environment | 20(2) 84–92 |
| 2022 | 10.1128/spectrum.02116-21 | Yang, J., J. Lee, J. Choi, L. Ma, E. A. Heaton and A. Howe | Response of Total (DNA) and Metabolically Active (RNA) Microbial Communities in Miscanthus × Giganteus Cultivated Soil to Different Nitrogen Fertilization Rates | Microbiology Spectrum | 10(1) e0211621 |
| 2022 | 10.1111/gcbb.12929 | Sharma, B. P., N. Zhang, D. Lee, E. Heaton, E. H. Delucia, E. J. Sacks, I. B. Kantola, N. N. Boersma, S. P. Long, T. B. Voigt and M. Khanna | Responsiveness of miscanthus and switchgrass yields to stand age and nitrogen fertilization: A meta-regression analysis | GCB Bioenergy | 14(5) 539–57 |
| 2022 | 10.1016/j.biotechadv.2021.107809 | Leynaud Kieffer Curran, L. M. C., L. T. M. Pham, K. L. Sale and B. A. Simmons | Review of advances in the development of laccases for the valorization of lignin to enable the production of lignocellulosic biofuels and bioproducts | Biotechnology Advances | 54 107809 |
| 2022 | 10.3389/fenrg.2022.863153 | Pham, L. T. M., H. Choudhary, R. Gauttam, S. W. Singer, J. M. Gladden, B. A. Simmons, S. Singh and K. L. Sale | Revisiting Theoretical Tools and Approaches for the Valorization of Recalcitrant Lignocellulosic Biomass to Value-Added Chemicals | Frontiers in Energy Research | 10 |
| 2022 | 10.1099/ijsem.0.005214 | Bergsten, P., P. Vannier, A. Mougeolle, L. Rigaud and V. T. Marteinsson | Rhodothermus bifroesti sp. nov., a thermophilic bacterium isolated from the basaltic subsurface of the volcanic island Surtsey | International Journal of Systematic and Evolutionary Microbiology | 72(1) |
| 2022 | 10.1128/msystems.00176-22 | Metcalf, A. J. and N. R. Boyle | Rhythm of the Night (and Day): Predictive Metabolic Modeling of Diurnal Growth in Chlamydomonas | mSystems | 7(4) |
| 2022 | 10.1007/s10533-021-00859-8 | Slessarev, E. W., O. A. Chadwick, N. W. Sokol, E. E. Nuccio and J. Pett-Ridge | Rock weathering controls the potential for soil carbon storage at a continental scale | Biogeochemistry | 157(1) 1–13 |
| 2022 | 10.1016/j.soilbio.2022.108648 | Cotrufo, M. F., M. L. Haddix, M. E. Kroeger and C. E. Stewart | The role of plant input physical-chemical properties, and microbial and soil chemical diversity on the formation of particulate and mineral-associated organic matter | Soil Biology and Biochemistry | 168 108648 |
| 2022 | 10.1016/j.soilbio.2021.108541 | Liu, Y., S. E. Evans, M. L. Friesen and L. K. Tiemann | Root exudates shift how N mineralization and N fixation contribute to the plant-available N supply in low fertility soils | Soil Biology and Biochemistry | 165 108541 |
| 2022 | 10.1111/tpj.15669 | Maqbool, S., M. A. Hassan, X. Xia, L. M. York, A. Rasheed and Z. He | Root system architecture in cereals: progress, challenges and perspective | The Plant Journal | 110(1) 23–42 |
| 2022 | 10.1038/s41396-022-01269-w | Walters, K. E., J. K. Capocchi, M. B. N. Albright, Z. Hao, E. L. Brodie and J. B. H. Martiny | Routes and rates of bacterial dispersal impact surface soil microbiome composition and functioning | ISME Journal | 16(10) 2295-2304 |
| 2022 | 10.1111/nph.18281 | Kakouridis, A., J. A. Hagen, M. P. Kan, S. Mambelli, L. J. Feldman, D. J. Herman, P. K. Weber, J. Pett-Ridge and M. K. Firestone | Routes to roots: direct evidence of water transport by arbuscular mycorrhizal fungi to host plants | New Phytologist | 236(1) 210-221 |
| 2022 | 10.3389/frsus.2022.910924 | Edwards, M. R., T. Holloway, R. B. Pierce, L. Blank, M. Broddle, et al. | Satellite Data Applications for Sustainable Energy Transitions | Frontiers in Sustainability | 3 |
| 2022 | 10.1038/s41378-022-00357-3 | Iwai, K., M. Wehrs, M. Garber, J. Sustarich, L. Washburn, Z. Costello, P. W. Kim, D. Ando, W. R. Gaillard, N. J. Hillson, P. D. Adams, A. Mukhopadhyay, H. Garcia Martin and A. K. Singh | Scalable and automated CRISPR-based strain engineering using droplet microfluidics | Microsystems & Nanoengineering | 8(1) 31 |
| 2022 | 10.1007/s00497-021-00432-1 | Noble, J. A., A. Seddon, S. Uygun, A. Bright, S. E. Smith, S.-h. Shiu and R. Palanivelu | The SEEL motif and members of the MYB-related REVEILLE transcription factor family are important for the expression of LORELEI in the synergid cells of the Arabidopsis female gametophyte | Plant Reproduction | 35(1) 61–76 |
| 2022 | 10.3389/fsoil.2022.917885 | Martin, T. and Christine D. Sprunger | Sensitive Measures of Soil Health Reveal Carbon Stability Across a Management Intensity and Plant Biodiversity Gradient | Frontiers in Soil Science | 2 |
| 2022 | 10.1099/ijsem.0.005401 | Liu, J., J. Li, J. Luo, Y. Li, Z. Yang, C. Huang, F. Sun and G. Wang | Sessilibacter corallicola gen. nov., sp. nov., a sessile bacterium isolated from coral Porites lutea | International Journal of Systematic and Evolutionary Microbiology | 72(5) |
| 2022 | 10.1099/ijsem.0.005460 | Altun, S., M. Duman, H. Ay and I. B. Saticioglu | Shewanella oncorhynchi sp. nov., a novel member of the genus Shewanella, isolated from Rainbow Trout (Oncorhynchus mykiss) | International Journal of Systematic and Evolutionary Microbiology | 72(7) |
| 2022 | 10.1038/s41467-022-30118-9 | Treen, D. G. C., M. Wang, S. Xing, K. B. Louie, T. Huan, P. C. Dorrestein, T. R. Northen and B. P. Bowen | SIMILE enables alignment of tandem mass spectra with statistical significance | Nature Communications | 13(1) 2510 |
| 2022 | 10.1111/tpj.15867 | Hui, C., S. Schmollinger, D. Strenkert, K. Holbrook, H. R. Montgomery, S. Chen, H. M. Nelson, P. K. Weber and S. S. Merchant | Simple steps to enable reproducibility: culture conditions affecting Chlamydomonas growth and elemental composition | The Plant Journal | 111(4) 995–1014 |
| 2022 | 10.1016/j.str.2021.10.003 | Shao, C., J. D. Westbrook, C. Lu, C. Bhikadiya, E. Peisach, J. Y. Young, J. M. Duarte, R. Lowe, S. Wang, Y. Rose, Z. Feng and S. K. Burley | Simplified quality assessment for small-molecule ligands in the Protein Data Bank | Structure | 30(2) 252-262.e4 |
| 2022 | 10.1128/AEM.01531-21 | Lanahan, A., K. Zakowicz, L. Tian, D. G. Olson and L. R. Lynd | A Single Nucleotide Change in the polC DNA Polymerase III in Clostridium thermocellum Is Sufficient To Create a Hypermutator Phenotype | Applied and Environmental Microbiology | 88(1) e01531-21 |
| 2022 | 10.1242/dev.200632 | Conde, D., P. M. Triozzi, W. J. Pereira, H. W. Schmidt, K. M. Balmant, S. A. Knaack, A. Redondo-López, S. Roy, C. Dervinis and M. Kirst | Single-nuclei transcriptome analysis of the shoot apex vascular system differentiation in Populus | Development (Cambridge, England) | 149(21) |
| 2022 | 10.1099/ijsem.0.005680 | Riesco, R., M. Ortúzar, B. Román-Ponce, F. Sánchez-Juanes, J. M. Igual and M. E. Trujillo | Six novel Micromonospora species associated with the phyllosphere and roots of leguminous plants: Micromonospora alfalfae sp. nov., Micromonospora cabrerizensis sp. nov., Micromonospora foliorum sp. nov., Micromonospora hortensis sp. nov., Micromonospora salmantinae sp. nov., and Micromonospora trifolii sp. nov | International Journal of Systematic and Evolutionary Microbiology | 72(11) |
| 2022 | 10.1038/s41467-022-29555-3 | Zhou, Y., G. E. Klinger, E. L. Hegg, C. M. Saffron and J. E. Jackson | Skeletal Ni electrode-catalyzed C-O cleavage of diaryl ethers entails direct elimination via benzyne intermediates | Nature Communications | 13(1) 2050 |
| 2022 | 10.1111/gcb.16036 | Wang, G., Q. Gao, Y. Yang, S. E. Hobbie, P. B. Reich and J. Zhou | Soil enzymes as indicators of soil function: A step toward greater realism in microbial ecological modeling | Global Change Biology | 28(5) 1935-1950 |
| 2022 | 10.1038/s41396-021-01162-y | Finley, B. K., R. L. Mau, M. Hayer, B. W. Stone, E. M. Morrissey, B. J. Koch, C. Rasmussen, P. Dijkstra, E. Schwartz and B. A. Hungate | Soil minerals affect taxon-specific bacterial growth | The ISME Journal | 16(5) 1318–26 |
| 2022 | 10.1016/j.gca.2022.04.028 | Shabtai, I. A., S. Das, T. M. Inagaki, B. Azimzadeh, B. Richards, C. E. Martínez, I. Kögel-Knabner and J. Lehmann | Soil organic carbon accrual due to more efficient microbial utilization of plant inputs at greater long-term soil moisture | Geochimica et Cosmochimica Acta | 327 170-185 |
| 2022 | 10.1128/mbio.00079-22 | Costa, P. B. d., G. M. N. Benucci, M.-Y. Chou, J. V. Wyk, M. Chretien and G. Bonito | Soil Origin and Plant Genotype Modulate Switchgrass Aboveground Productivity and Root Microbiome Assembly | mBio | 13(2) e00079-22 |
| 2022 | 10.1016/j.soilbio.2022.108610 | Khosrozadeh, S., A. Guber, A. Kravchenko, N. Ghaderi and E. Blagodatskaya | Soil oxidoreductase zymography: Visualizing spatial distributions of peroxidase and phenol oxidase activities at the root-soil interface | Soil Biology and Biochemistry | 167 108610 |
| 2022 | 10.1016/j.soilbio.2022.108565 | Kim, K., J. Gil, N. E. Ostrom, H. Gandhi, M. S. Oerther, Y. Kuzyakov, A. K. Guber and A. N. Kravchenko | Soil pore architecture and rhizosphere legacy define N2O production in root detritusphere | Soil Biology and Biochemistry | 166 108565 |
| 2022 | 10.3389/fpls.2021.766506 | Munson, C. R., Y. Gao, J. C. Mortimer and D. T. Murray | Solid-State Nuclear Magnetic Resonance as a Tool to Probe the Impact of Mechanical Preprocessing on the Structure and Arrangement of Plant Cell Wall Polymers | Frontiers in Plant Science | 12 |
| 2022 | 10.1038/s41396-021-01088-5 | Albright, M. B. N., S. Louca, D. E. Winkler, K. L. Feeser, S.-J. Haig, K. L. Whiteson, J. B. Emerson and J. Dunbar | Solutions in microbiome engineering: prioritizing barriers to organism establishment | The ISME Journal | 16(2) 331–8 |
| 2022 | 10.1002/aocs.12633 | Singh, R., B. S. Dien and V. Singh | Solvent-free enzymatic esterification of free fatty acids with glycerol for biodiesel application: Optimized using the Taguchi experimental method | Journal of the American Oil Chemists' Society | 99(9) 781–90 |
| 2022 | 10.1111/tpj.15853 | Boatwright, J. L., S. Sapkota, H. Jin, J. C. Schnable, Z. Brenton, R. Boyles and S. Kresovich | Sorghum Association Panel whole-genome sequencing establishes cornerstone resource for dissecting genomic diversity | Plant Journal | 111(3) 888-904 |
| 2022 | 10.1093/nar/gkac142 | Rybnicky, G. A., N. A. Fackler, A. S. Karim, M. Köpke and M. C. Jewett | Spacer2PAM: A computational framework to guide experimental determination of functional CRISPR-Cas system PAM sequences | Nucleic Acids Research | 50(6) 3523-3534 |
| 2022 | 10.1073/pnas.2107879119 | Contreras-López, O., E. A. Vidal, E. Riveras, J. M. Alvarez, T. C. Moyano, E. E. Sparks, J. Medina, A. Pasquino, P. N. Benfey, G. M. Coruzzi and R. A. Gutiérrez | Spatiotemporal analysis identifies ABF2 and ABF3 as key hubs of endodermal response to nitrate | Proceedings of the National Academy of Sciences of the United States of America | 119(4) |
| 2022 | 10.1093/plphys/kiab447 | Triozzi, P. M., T. B. Irving, H. W. Schmidt, Z. P. Keyser, S. Chakraborty, K. Balmant, W. J. Pereira, C. Dervinis, K. S. Mysore, J. Wen, J. M. Ané, M. Kirst and D. Conde | Spatiotemporal cytokinin response imaging and ISOPENTENYLTRANSFERASE 3 function in Medicago nodule development | Plant Physiology | 188(1) 560-575 |
| 2022 | 10.3390/pr10010041 | He, Q. P. and J. Wang | Special issue on “big data in biology, life sciences and healthcare” | Processes | 10(1) |
| 2022 | 10.1038/s41564-021-01014-7 | Rubin, B. E., S. Diamond, B. F. Cress, A. Crits-Christoph, Y. C. Lou, et al. | Species- and site-specific genome editing in complex bacterial communities | Nature Microbiology | 7(1) 34–47 |
| 2022 | 10.1038/s42003-022-03157-7 | Hao, Z., Y. Wang, N. Ding, M. C. Saha, W. R. Scheible, K. Craven, M. Udvardi, P. S. Nico, M. K. Firestone and E. L. Brodie | Spectroscopic analysis reveals that soil phosphorus availability and plant allocation strategies impact feedstock quality of nutrient-limited switchgrass | Communications Biology | 5(1) |
| 2022 | 10.1016/j.rhisph.2022.100564 | Moran, J. J., T. J. Linley, C. N. Makarem, J. F. Kelly, E. D. Wilcox Freeburg, D. M. Cleary, M. L. Alexander and J. M. Kriesel | Spectroscopy-based isotopic (δ13C) analysis for high spatial resolution of carbon exchange in the rhizosphere | Rhizosphere | 23 100564 |
| 2022 | 10.1039/d1gc03625d | Li, M., Y. Pu, X. Meng, F. Chen, R. A. Dixon and A. J. Ragauskas | Strikingly high amount of tricin-lignin observed from vanilla (Vanilla planifolia) aerial roots | Green Chemistry | 24(1) 259–70 |
| 2022 | 10.1002/glr2.12007 | Tilhou, N. W., S. M. Kaeppler and M. D. Casler | Strong parallel evidence of selection during switchgrass sward establishment in hybrid and lowland ecotypes | Grassland Research | 1(1) 31–42 |
| 2022 | 10.1016/j.molcel.2022.03.001 | Yang, Y., S. Liu, S. Egloff, C. D. Eichhorn, T. Hadjian, J. Zhen, T. Kiss, Z. H. Zhou and J. Feigon | Structural basis of RNA conformational switching in the transcriptional regulator 7SK RNP | Molecular Cell | 82(9) 1724-1736.e7 |
| 2022 | 10.1038/s41467-022-32993-8 | Wu, R., C. A. Smith, G. W. Buchko, I. K. Blaby, D. Paez-Espino, N. C. Kyrpides, Y. Yoshikuni, J. E. McDermott, K. S. Hofmockel, J. R. Cort and J. K. Jansson | Structural characterization of a soil viral auxiliary metabolic gene product – a functional chitosanase | Nature Communications | 13(1) 5485 |
| 2022 | 10.1126/sciadv.adc9440 | Liu, A. K., J. H. Pereira, A. J. Kehl, D. J. Rosenberg, D. J. Orr, S. K. S. Chu, D. M. Banda, M. Hammel, P. D. Adams, J. B. Siegel and P. M. Shih | Structural plasticity enables evolution and innovation of RuBisCO assemblies | Science Advances | 8(34) eadc9440 |
| 2022 | 10.1021/acssuschemeng.1c06276 | Yang, Z., M. B. Foston, H. O’Neill, V. S. Urban, A. Ragauskas, B. R. Evans, B. H. Davison and S. V. Pingali | Structural Reorganization of Noncellulosic Polymers Observed In Situ during Dilute Acid Pretreatment by Small-Angle Neutron Scattering | ACS Sustainable Chemistry & Engineering | 10(1) 314–22 |
| 2022 | 10.1186/s12934-022-01752-1 | Moyo, A. C., L. Dufossé, D. Giuffrida, L. J. van Zyl and M. Trindade | Structure and biosynthesis of carotenoids produced by a novel Planococcus sp. isolated from South Africa | Microbial Cell Factories | 21(1) 43 |
| 2022 | 10.1002/prot.26326 | Mahoney, B. J., A. Takayesu, A. Zhou, D. Cascio and R. T. Clubb | The structure of the Clostridium thermocellum RsgI9 ectodomain provides insight into the mechanism of biomass sensing | Proteins: Structure, Function and Bioinformatics | 90(7) 1457-1467 |
| 2022 | 10.1016/j.rse.2022.112938 | Shuai, G. and B. Basso | Subfield maize yield prediction improves when in-season crop water deficit is included in remote sensing imagery-based models | Remote Sensing of Environment | 272 112938 |
| 2022 | 10.1088/1748-9326/ac661a | Moore, C. E., C. D. Gibson, G. Miao, E. C. Dracup, N. Gomez-Casanovas, M. D. Masters, J. Miller, A. C von Haden, T. Meyers, E. H. DeLucia and C. J. Bernacchi | Substantial carbon loss respired from a corn–soybean agroecosystem highlights the importance of careful management as we adapt to changing climate | Environmental Research Letters | 17(5) 054029 |
| 2022 | 10.3389/fmicb.2022.914472 | Wang, Y., R. C. Wilhelm, T. L. Swenson, A. Silver, P. F. Andeer, A. Golini, S. M. Kosina, B. P. Bowen, D. H. Buckley and T. R. Northen | Substrate Utilization and Competitive Interactions Among Soil Bacteria Vary With Life-History Strategies | Frontiers in Microbiology | 13 914472 |
| 2022 | 10.1021/acssuschemeng.2c03341 | Østby, H., A. Várnai, R. Gabriel, P. Chylenski, S. J. Horn, S. W. Singer and V. G. H. Eijsink | Substrate-Dependent Cellulose Saccharification Efficiency and LPMO Activity of Cellic CTec2 and a Cellulolytic Secretome from Thermoascus aurantiacus and the Impact of H2O2-Producing Glucose Oxidase | ACS Sustainable Chemistry & Engineering | 10(44) 14433–44 |
| 2022 | 10.1002/yea.3679 | Spurley, W. J., K. J. Fisher, Q. K. Langdon, K. V. Buh, M. Jarzyna, et al. | Substrate, temperature, and geographical patterns among nearly 2000 natural yeast isolates | Yeast | 39(1–2) 55–68 |
| 2022 | 10.1038/s41522-022-00267-2 | Schweitzer, H. D., H. J. Smith, E. P. Barnhart, L. J. McKay, R. Gerlach, A. B. Cunningham, R. R. Malmstrom, D. Goudeau and M. W. Fields | Subsurface hydrocarbon degradation strategies in low- and high-sulfate coal seam communities identified with activity-based metagenomics | npj Biofilms and Microbiomes | 8(1) 7 |
| 2022 | 10.1111/mec.16343 | Gao, C., P. E. Courty, N. Varoquaux, B. Cole, L. Montoya, L. Xu, E. Purdom, J. Vogel, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression | Molecular Ecology | |
| 2022 | 10.1038/s41396-021-01047-0 | Yu, H., C. T. Skennerton, G. L. Chadwick, A. O. Leu, M. Aoki, G. W. Tyson and V. J. Orphan | Sulfate differentially stimulates but is not respired by diverse anaerobic methanotrophic archaea | ISME Journal | 16(1) 168-177 |
| 2022 | 10.1002/cbic.202200396 | Samanta, N., Y. B. Ruiz-Blanco, Z. Fetahaj, D. Gnutt, C. Lantz, J. A. Loo, E. Sanchez-Garcia and S. Ebbinghaus | Superoxide Dismutase 1 folding stability as a target for molecular tweezers in SOD1-Related Amyotrophic Lateral Sclerosis | ChemBioChem | |
| 2022 | 10.1007/s10722-021-01282-6 | Tilhou, N. W. and M. D. Casler | Surveying Grassland Islands: the genetics and performance of Appalachian switchgrass (Panicum virgatum L.) collections | Genetic Resources and Crop Evolution | 69(3) 1039–55 |
| 2022 | 10.1016/j.soilbio.2022.108681 | Wilhelm, R. C., L. Lynch, T. M. Webster, S. Schweizer, T. M. Inagaki, M. M. Tfaily, R. Kukkadapu, C. Hoeschen, D. H. Buckley and J. Lehmann | Susceptibility of new soil organic carbon to mineralization during dry-wet cycling in soils from contrasting ends of a precipitation gradient | Soil Biology and Biochemistry | 169 |
| 2022 | 10.1038/s41587-022-01248-8 | Scown, C. D. and J. D. Keasling | Sustainable manufacturing with synthetic biology | Nature Biotechnology | 40(3) 304–7 |
| 2022 | 10.1111/gwat.13132 | Paradis, C. J., J. I. Miller, J.-W. Moon, S. J. Spencer, L. M. Lui, J. D. Van Nostrand, D. Ning, A. D. Steen, L. D. McKay, A. P. Arkin, J. Zhou, E. J. Alm and T. C. Hazen | Sustained Ability of a Natural Microbial Community to Remove Nitrate from Groundwater | Groundwater | 60(1) 99–111 |
| 2022 | 10.1021/acs.jafc.2c01306 | Li, X., S. J. Sarma, L. W. Sumner, A. D. Jones and R. L. Last | Switchgrass Metabolomics Reveals Striking Genotypic and Developmental Differences in Specialized Metabolic Phenotypes | Journal of Agricultural and Food Chemistry | 70(26) 8010–23 |
| 2022 | 10.1002/glr2.12035 | Tilhou, N. W. and M. D. Casler | Switchgrass sward establishment selection is consistent across multiple environments and fertilization levels | Grassland Research | 1(4) 252–61 |
| 2022 | 10.1016/j.tibtech.2022.08.010 | Moon, T. S. | SynMADE: synthetic microbiota across diverse ecosystems | Trends in Biotechnology | |
| 2022 | 10.1515/hf-2021-0149 | Padmakshan, D., V. I. Timokhin, F. Lu, P. F. Schatz, R. Vanholme, W. Boerjan and J. Ralph | Synthesis of hydroxycinnamoyl shikimates and their role in monolignol biosynthesis | Holzforschung | 76(2) 133–44 |
| 2022 | 10.1126/science.abo4326 | Brophy, J. A. N., K. J. Magallon, L. Duan, V. Zhong, P. Ramachandran, K. Kniazev and J. R. Dinneny | Synthetic genetic circuits as a means of reprogramming plant roots | Science | 377(6607) 747-751 |
| 2022 | 10.1007/s00253-022-12084-w | Deewan, A., J.-J. Liu, S. S. Jagtap, E. J. Yun, H. Walukiewicz, Y.-S. Jin and C. V. Rao | System analysis of Lipomyces starkeyi during growth on various plant-based sugars | Applied Microbiology and Biotechnology | 106(17) 5629–42 |
| 2022 | 10.1038/s41588-022-01052-9 | Fauser, F., J. Vilarrasa-Blasi, M. Onishi, S. Ramundo, W. Patena, et al. | Systematic characterization of gene function in the photosynthetic alga Chlamydomonas reinhardtii | Nature Genetics | 54(5) 705-714 |
| 2022 | 10.1016/bs.mie.2022.07.039 | Simpson, J. and C. Chapple | Tag you're it: Application of stable isotope labeling and LC-MS to identify the precursors of specialized metabolites in plants | Methods in Enzymology | 676 279-303 |
| 2022 | 10.1515/hf-2021-0224 | Yang, L., J. Wang, C. Wang, F. Yue and F. Lu | A tailored fast thioacidolysis method incorporating multi-reaction monitoring mode of GC-MS for higher sensitivity on lignin monomer quantification | Holzforschung | 76(7) 604-610 |
| 2022 | 10.1038/s43705-022-00189-2 | McDaniel, E. A., J. J. M. van Steenbrugge, D. R. Noguera, K. D. McMahon, J. M. Raaijmakers, M. H. Medema and B. O. Oyserman | TbasCO: trait-based comparative ‘omics identifies ecosystem-level and niche-differentiating adaptations of an engineered microbiome | ISME Communications | 2(1) 111 |
| 2022 | 10.1016/j.geoderma.2021.115628 | Cates, A. M., A. Jilling, M. M. Tfaily and R. D. Jackson | Temperature and moisture alter organic matter composition across soil fractions | Geoderma | 409 115628 |
| 2022 | 10.3389/fpls.2022.998400 | Ranaweera, T., B. N. I. Brown, P. Wang and S.-H. Shiu | Temporal regulation of cold transcriptional response in switchgrass | Frontiers in Plant Science | 13 |
| 2022 | 10.1111/gcb.16108 | Li, S., C. A. Moller, N. G. Mitchell, D. Lee, E. J. Sacks and E. A. Ainsworth | Testing unified theories for ozone response in C4 species | Global Change Biology | 28(10) 3379–93 |
| 2022 | 10.3389/fmicb.2022.844287 | Bhalla, A., J. Arce, B. Ubanwa, G. Singh, R. K. Sani and V. Balan | Thermophilic Geobacillus WSUCF1 Secretome for Saccharification of Ammonia Fiber Expansion and Extractive Ammonia Pretreated Corn Stover | Frontiers in Microbiology | 13 |
| 2022 | 10.1002/pro.4257 | Shahpasand-Kroner, H., J. Portillo, C. Lantz, P. M. Seidler, N. Sarafian, J. A. Loo and G. Bitan | Three-repeat and four-repeat tau isoforms form different oligomers | Protein Science | 31(3) 613-627 |
| 2022 | 10.3389/fenrg.2021.804086 | Yao, L., H. Yang, X. Meng and A. J. Ragauskas | Toward a Fundamental Understanding of the Role of Lignin in the Biorefinery Process | Frontiers in Energy Research | 9 |
| 2022 | 10.1128/msystems.00659-22 | Pacheco, A. R., C. Pauvert, D. Kishore and D. Segrè | Toward FAIR Representations of Microbial Interactions | mSystems | 7(5) e00659-22 |
| 2022 | 10.1039/d1ee02540f | Lynd, L. R., G. T. Beckham, A. M. Guss, L. N. Jayakody, E. M. Karp, et al. | Toward low-cost biological and hybrid biological/catalytic conversion of cellulosic biomass to fuels | Energy & Environmental Science | 15(3) 938–90 |
| 2022 | 10.1038/s41929-022-00836-w | Yilmaz, S., A. Nyerges, J. van der Oost, G. M. Church and N. J. Claassens | Towards next-generation cell factories by rational genome-scale engineering | Nature Catalysis | 5(9) 751-765 |
| 2022 | 10.1016/j.aca.2021.339400 | Wei, B., M. A. Zenaidee, C. Lantz, R. R. Ogorzalek Loo and J. A. Loo | Towards understanding the formation of internal fragments generated by collisionally activated dissociation for top-down mass spectrometry | Analytica Chimica Acta | 1194 |
| 2022 | Schroeder, W., T. Kuil, D. Olson and C. D. Maranas | Tracking Pyrophosphate Metabolism and Evaluating Its Significance in the Bioprocessing of Lignocellulosic Biomass By Clostridium Thermocellum | AIChE Annual Meeting | ||
| 2022 | 10.1002/ecs2.4063 | Alster, C. J., S. D. Allison and K. K. Treseder | Trait relationships of fungal decomposers in response to drought using a dual field and laboratory approach | Ecosphere | 13(6) |
| 2022 | 10.1093/jxb/erac300 | Ferreira, S. S., G. Goeminne, M. S. Simões, A. V. d. A. Pina, L. G. A. d. Lima, J. Pezard, A. Gutiérrez, J. Rencoret, J. C. Mortimer, J. C. del Río, W. Boerjan and I. Cesarino | Transcriptional and metabolic changes associated with internode development and reduced cinnamyl alcohol dehydrogenase activity in sorghum | Journal of Experimental Botany | 73(18) 6307–33 |
| 2022 | 10.1038/s41477-022-01150-w | Ko, D. K. and F. Brandizzi | Transcriptional competition shapes proteotoxic ER stress resolution | Nature Plants | 8(5) 481–90 |
| 2022 | 10.3389/fpls.2022.1062264 | McKinley, B. A., M. Thakran, S. Zemelis-Durfee, X. Huang, F. Brandizzi, W. L. Rooney, S. D. Mansfield and J. E. Mullet | Transcriptional regulation of the raffinose family oligosaccharides pathway in Sorghum bicolor reveals potential roles in leaf sucrose transport and stem sucrose accumulation | Frontiers in Plant Science | 13 |
| 2022 | 10.1021/acsomega.2c00483 | Shin, J., E. J. South and M. J. Dunlop | Transcriptional tuning of mevalonate pathway enzymes to identify the impact on limonene production in Escherichia coli | ACS Omega | 7(22) 18331-18338 |
| 2022 | 10.1002/fes3.421 | Perlo, V., A. Furtado, F. C. Botha, G. R. A. Margarido, K. Hodgson-Kratky, H. Choudhary, J. Gladden, B. Simmons and R. J. Henry | Transcriptome and metabolome integration in sugarcane through culm development | Food and Energy Security | 11(4) e421 |
| 2022 | 10.1128/mra.00564-22 | Zhang, Y., K. S. Myers, M. Place, J. Serate, D. Xie, E. Pohlmann, A. L. Reau, R. Landick and T. K. Sato | Transcriptomic Data Sets for Zymomonas mobilis 2032 during Fermentation of Ammonia Fiber Expansion (AFEX)-Pretreated Corn Stover and Switchgrass Hydrolysates | Microbiology Resource Announcements | 11(9) e00564-22 |
| 2022 | 10.1186/s13068-022-02241-8 | Trieu, A., M. B. Belaffif, P. Hirannaiah, S. Manjunatha, R. Wood, Y. Bathula, R. L. Billingsley, A. Arpan, E. J. Sacks, T. E. Clemente, S. P. Moose, N. A. Reichert and K. Swaminathan | Transformation and gene editing in the bioenergy grass Miscanthus | Biotechnology for Biofuels and Bioproducts | 15(1) 148 |
| 2022 | 10.1038/s41598-022-07387-x | Liao, P., T. Lechon, T. Romsdahl, H. Woodfield, S. Fenyk, T. Fawcett, E. Wallington, R. E. Bates, M. L. Chye, K. D. Chapman, J. L. Harwood and S. Scofield | Transgenic manipulation of triacylglycerol biosynthetic enzymes in B. napus alters lipid-associated gene expression and lipid metabolism | Scientific Reports | 12(1) |
| 2022 | 10.3389/fbioe.2022.968437 | Carruthers, D. N. and T. S. Lee | Translating advances in microbial bioproduction to sustainable biotechnology | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1016/j.anaerobe.2022.102519 | Rodríguez-Pallares, S., P. Fernández-Palacios, E. Jurado-Tarifa, F. Arroyo, M. A. Rodríguez-Iglesias and F. Galán-Sánchez | Transmission of toxigenic Clostridiodes difficile between a pet dog with diarrhea and a 10-month-old infant | Anaerobe | 74 102519 |
| 2022 | 10.3390/microorganisms10030540 | Naylor, D., R. McClure and J. Jansson | Trends in Microbial Community Composition and Function by Soil Depth | Microorganisms | 10(3) 540 |
| 2022 | 10.1016/j.mec.2022.e00206 | Czajka, J. J., D. Banerjee, T. Eng, J. Menasalvas, C. Yan, N. M. Munoz, B. C. Poirier, Y.-M. Kim, S. E. Baker, Y. J. Tang and A. Mukhopadhyay | Tuning a high performing multiplexed-CRISPRi Pseudomonas putida strain to further enhance indigoidine production | Metabolic Engineering Communications | 15 e00206 |
| 2022 | 10.1021/acssynbio.2c00385 | Rostain, W., T. Zaplana, M. Boutard, C. Baum, S. Tabuteau, M. Sanitha, M. Ramya, A. Guss, L. Ettwiller and A. C. Tolonen | Tuning of Gene Expression in Clostridium phytofermentans Using Synthetic Promoters and CRISPRi | ACS Synthetic Biology | 11(12) 4077–88 |
| 2022 | 10.1128/AEM.01793-21 | Peng, P., C. S. Kang-Yun, J. Chang, W. Gu, A. A. Dispirito and J. D. Semrau | Two TonB-dependent transporters in Methylosinus trichosporium OB3b are responsible for uptake of different forms of methanobactin and are involved in the canonical "copper switch" | Applied and Environmental Microbiology | 88(1) |
| 2022 | 10.1016/bs.abr.2022.02.001 | del Río, J. C., J. Rencoret, A. Gutiérrez, H. Kim and J. Ralph | Unconventional lignin monomers—Extension of the lignin paradigm | Advances in Botanical Research | 104 1–39 |
| 2022 | 10.7554/eLife.76968 | Larue, T., H. Lindner, A. Srinivas, M. Exposito-Alonso, G. Lobet and J. R. Dinneny | Uncovering natural variation in root system architecture and growth dynamics using a robotics-assisted phenomics platform | eLife | 11 |
| 2022 | 10.5194/soil-8-85-2022 | Levintal, E., Y. Ganot, G. Taylor, P. Freer-Smith, K. Suvocarev and H. E. Dahlke | An underground, wireless, open-source, low-cost system for monitoring oxygen, temperature, and soil moisture | SOIL | 8(1) 85-97 |
| 2022 | 10.1186/s13068-022-02214-x | Xu, Z., B. Peng, R. B. Kitata, C. D. Nicora, K. K. Weitz, Y. Pu, T. Shi, J. R. Cort, A. J. Ragauskas and B. Yang | Understanding of bacterial lignin extracellular degradation mechanisms by Pseudomonas putida KT2440 via secretomic analysis | Biotechnology for Biofuels and Bioproducts | 15(1) 117 |
| 2022 | 10.23919/ACC53348.2022.9867540 | Badr, K., Q. Peter He and J. Wang | Understanding the evolution of interspecies metabolic interactions using dynamic genome-scale metabolic modeling | Proceedings of the American Control Conference | 2022-June 450-455 |
| 2022 | 10.1038/s41598-022-06530-y | Xue, S., S. Pattathil, L. da Costa Sousa, B. Ubanwa, B. Dale, A. D. Jones and V. Balan | Understanding the structure and composition of recalcitrant oligosaccharides in hydrolysate using high-throughput biotin-based glycome profiling and mass spectrometry | Scientific Reports | 12(1) |
| 2022 | 10.1016/j.agrformet.2022.109154 | Menefee, D., R. L. Scott, M. Abraha, J. G. Alfieri, J. Baker, et al. | Unraveling the effects of management and climate on carbon fluxes of U.S. croplands using the USDA Long-Term Agroecosystem (LTAR) network | Agricultural and Forest Meteorology | 326 109154 |
| 2022 | 10.1038/s41467-022-33812-w | Sawada, D., Y. Nishiyama, R. Shah, V. T. Forsyth, E. Mossou, H. M. O’Neill, M. Wada and P. Langan | Untangling the threads of cellulose mercerization | Nature Communications | 13(1) 6189 |
| 2022 | 10.1128/mra.00188-22 | Kang-Yun, C. S., J. Chang and J. D. Semrau | Updated Genome Sequence of the Facultative Methanotroph Methylocystis sp. Strain SB2 | Microbiology Resource Announcements | 11(6) |
| 2022 | 10.1007/978-1-0716-1720-5_12 | Myers, K. S., P. Behari Lal, D. R. Noguera and T. J. Donohue | Using Genome Scale Mutant Libraries to Identify Essential Genes | Essential Genes and Genomes: Methods and Protocols | 215–36 |
| 2022 | 10.1016/j.biocontrol.2022.104920 | Kim, T. N., Y. V. Bukhman, M. A. Jusino, E. D. Scully, B. J. Spiesman and C. Gratton | Using high-throughput amplicon sequencing to determine diet of generalist lady beetles in agricultural landscapes | Biological Control | 170 104920 |
| 2022 | 10.1186/s13068-022-02168-0 | Wadler, C. S., J. F. Wolters, N. W. Fortney, K. O. Throckmorton, Y. Zhang, C. R. Miller, R. M. Schneider, E. Wendt-Pienkowski, C. R. Currie, T. J. Donohue, D. R. Noguera, C. T. Hittinger and M. G. Thomas | Utilization of lignocellulosic biofuel conversion residue by diverse microorganisms | Biotechnology for Biofuels and Bioproducts | 15(1) 70 |
| 2022 | 10.1016/j.jclepro.2022.133508 | Banerjee, S., R. Singh, K. Eilts, E. J. Sacks and V. Singh | Valorization of Miscanthus x giganteus for sustainable recovery of anthocyanins and enhanced production of sugars | Journal of Cleaner Production | 369 133508 |
| 2022 | 10.1128/aem.02346-21 | Chang, J., P. Peng, A. A. DiSpirito and J. D. Semrau | Variable inhibition of nitrous oxide reduction in denitrifying bacteria by different forms of methanobactin | Applied and Environmental Microbiology | 88(7) |
| 2022 | 10.1186/s12870-022-03823-2 | Grzybowski, M. W., M. Zwiener, H. Jin, N. K. Wijewardane, A. Atefi, M. J. Naldrett, S. Alvarez, Y. Ge and J. C. Schnable | Variation in morpho-physiological and metabolic responses to low nitrogen stress across the sorghum association panel | BMC Plant Biology | 22(1) |
| 2022 | 10.1128/aem.00226-22 | Seitz, V. A., B. B. McGivern, R. A. Daly, J. M. Chaparro, M. A. Borton, A. M. Sheflin, S. Kresovich, L. Shields, M. E. Schipanski, K. C. Wrighton and J. E. Prenni | Variation in root exudate composition influences soil microbiome membership and function | Applied and Environmental Microbiology | 88(11) |
| 2022 | 10.1111/tpj.15878 | Scott, S., E. B. Cahoon and L. Busta | Variation on a Theme: The Structures and Biosynthesis of Specialized Fatty Acid Natural Products in Plants | The Plant Journal | 11(4) |
| 2022 | 10.1038/s41467-022-31279-3 | Mills, C. E., C. Waltmann, A. G. Archer, N. W. Kennedy, C. H. Abrahamson, A. D. Jackson, E. W. Roth, S. Shirman, M. C. Jewett, N. M. Mangan, M. Olvera de la Cruz and D. Tullman-Ercek | Vertex protein PduN tunes encapsulated pathway performance by dictating bacterial metabolosome morphology | Nature Communications | 13(1) |
| 2022 | 10.1073/pnas.2202261119 | Braga, L. P. P., C. Orland, E. J. S. Emilson, A. A. Fitch, H. Osterholz, T. Dittmar, N. Basiliko, N. C. S. Mykytczuk and A. J. Tanentzap | Viruses direct carbon cycling in lake sediments under global change | Proceedings of the National Academy of Sciences | 119(41) e2202261119 |
| 2022 | 10.1002/advs.202203887 | Zhang, J., J. Shin, N. Tague, H. Lin, M. Zhang, X. Ge, W. Wong, M. J. Dunlop and J. X. Cheng | Visualization of a limonene synthesis metabolon inside living bacteria by hyperspectral SRS microscopy | Advanced Science | |
| 2022 | 10.1021/acs.est.1c07747 | Yang, P., X. Piao and X. Cai | Water Availability for Biorefineries in the Contiguous United States and the Implications for Bioenergy Production Distribution | Environmental Science & Technology | 56(6) 3748–57 |
| 2022 | 10.1186/s13068-022-02213-y | Chipkar, S., K. Smith, E. M. Whelan, D. J. Debrauske, A. Jen, K. A. Overmyer, A. Senyk, L. Hooker-Moericke, M. Gallmeyer, J. J. Coon, A. D. Jones, T. K. Sato and R. G. Ong | Water-soluble saponins accumulate in drought-stressed switchgrass and may inhibit yeast growth during bioethanol production | Biotechnology for Biofuels and Bioproducts | 15(1) 116 |
| 2022 | 10.1111/1462-2920.16119 | Sridhar, B., G. B. Lawrence, S. J. Debenport, T. J. Fahey, D. H. Buckley, R. C. Wilhelm and C. L. Goodale | Watershed-scale liming reveals the short- and long-term effects of pH on the forest soil microbiome and carbon cycling | Environmental Microbiology | |
| 2022 | 10.1128/mra.00041-22 | Quintela, I. A., A. Hwang, T. Vasse, A. Salvador, Y. Zhang, Y.-T. Liao and V. C. H. Wu | Whole-Genome Analysis of Escherichia Phage vB_EcoM-S1P5QW, Isolated from Manures Collected from Cattle Farms in Maine | Microbiology Resource Announcements | 11(4) e00041-22 |
| 2022 | 10.1128/mra.01097-21 | Mamphogoro, T. P., C. N. Kamutando, M. M. Maboko, O. O. Babalola and O. A. Aiyegoro | Whole-Genome Sequence of Paenibacillus polymyxa Strain SRT9.1, a Promising Plant Growth-Promoting Bacterium | Microbiology Resource Announcements | 11(1) e01097-21 |
| 2022 | 10.3390/app12199620 | Apostolakos, I., M. Tsigkrimani, S. Paramithiotis and M. Mataragas | Whole-Genome Sequencing and Comparative Genomic Analysis of Enterococcus spp. Isolated from Dairy Products: Genomic Diversity, Functional Characteristics, and Pathogenic Potential | Applied Sciences | 12(19) 9620 |
| 2022 | 10.1016/j.copbio.2022.102682 | York, L. M., M. Griffiths and T. M. Maaz | Whole-plant phenotypic engineering: moving beyond ratios for multi-objective optimization of nutrient use efficiency | Current Opinion in Biotechnology | 75 102682 |
| 2022 | 10.1016/j.tplants.2021.11.014 | Lam, E. and T. P. Michael | Wolffia, a minimalist plant and synthetic biology chassis | Trends in Plant Science | 27(5) 430-439 |
| 2022 | 10.1002/yea.3699 | Mozzachiodi, S., F.-Y. Bai, P. Baldrian, G. Bell, K. Boundy-Mills, et al. | Yeasts from temperate forests | Yeast | 39(1–2) 4–24 |
| 2022 | 10.3390/microorganisms10051055 | Thomas, P. E., C. Gates, W. Campodonico-Burnett and J. C. Cameron | Zam is a redox-regulated member of the RNB-family required for optimal photosynthesis in cyanobacteria | Microorganisms | 10(5) |
| 2022 | 10.1016/j.celrep.2022.110834 | Pasquini, M., N. Grosjean, K. K. Hixson, C. D. Nicora, E. F. Yee, M. Lipton, I. K. Blaby, J. D. Haley and C. E. Blaby-Haas | Zng1 is a GTP-dependent zinc transferase needed for activation of methionine aminopeptidase | Cell Reports | 39(7) 110834 |
| 2021 | 10.7717/peerj.12628 | Tross, M. C., M. Gaillard, M. Zwiener, C. Miao, R. J. Grove, B. Li, B. Benes and J. C. Schnable | 3D reconstruction identifies loci linked to variation in angle of individual sorghum leaves | PeerJ | 9 |
| 2021 | 10.1038/s41597-021-00957-0 | Nathani, N. M., K. J. Dave, P. P. Vatsa, M. S. Mahajan, P. Sharma and C. Mootapally | 309 metagenome assembled microbial genomes from deep sediment samples in the Gulfs of Kathiawar Peninsula | Scientific Data | 8(1) 194 |
| 2021 | 10.1007/978-1-0716-0966-8_17 | Zee, C. T., A. Saha, M. R. Sawaya and J. A. Rodriguez | Ab Initio Determination of Peptide Structures by MicroED | Methods in Molecular Biology | 2215 329-348 |
| 2021 | 10.3390/metabo11100707 | Reese, K. L., C. L. Fisher, P. D. Lane, J. D. Jaryenneh, A. D. Jones, M. Frank and T. W. Lane | Abiotic and Biotic Damage of Microalgae Generate Different Volatile Organic Compounds (VOCs) for Early Diagnosis of Algal Cultures for Biofuel Production | Metabolites | 11(10) 707 |
| 2021 | 10.3390/rs13050968 | Lark, T. J., I. H. Schelly and H. K. Gibbs | Accuracy, Bias, and Improvements in Mapping Crops and Cropland across the United States Using the USDA Cropland Data Layer | Remote Sensing | 13(5) 968 |
| 2021 | 10.1186/s13068-021-01908-y | Harman-Ware, A. E., D. Macaya-Sanz, C. R. Abeyratne, C. Doeppke, K. Haiby, G. A. Tuskan, B. Stanton, S. P. DiFazio and M. F. Davis | Accurate determination of genotypic variance of cell wall characteristics of a Populus trichocarpa pedigree using high-throughput pyrolysis-molecular beam mass spectrometry | Biotechnology for Biofuels | 14(1) 59 |
| 2021 | 10.1016/j.ymben.2021.06.009 | Kumar, P., P. A. Adamczyk, X. Zhang, R. B. Andrade, P. A. Romero, P. Ramanathan and J. L. Reed | Active and machine learning-based approaches to rapidly enhance microbial chemical production | Metabolic Engineering | 67 216-226 |
| 2021 | 10.1186/s40168-021-01154-2 | Trubl, G., J. A. Kimbrel, J. Liquet-Gonzalez, E. E. Nuccio, P. K. Weber, J. Pett-Ridge, J. K. Jansson, M. P. Waldrop and S. J. Blazewicz | Active virus-host interactions at sub-freezing temperatures in Arctic peat soil | Microbiome | 9(1) 208 |
| 2021 | 10.1002/cbic.202000616 | Zegeye, E. K., N. C. Sadler, G. X. Lomas, I. K. Attah, J. K. Jansson, K. S. Hofmockel, C. R. Anderton and A. T. Wright | Activity-Based Protein Profiling of Chitin Catabolism | ChemBioChem | 22(4) 717–23 |
| 2021 | 10.1073/pnas.2101254118 | Chase, A. B., C. Weihe and J. B. H. Martiny | Adaptive differentiation and rapid evolution of a soil bacterium along a climate gradient | Proceedings of the National Academy of Sciences of the United States of America | 118(18) |
| 2021 | 10.3389/fevo.2021.715381 | Lalejini, A., A. J. Ferguson, N. A. Grant and C. Ofria | Adaptive Phenotypic Plasticity Stabilizes Evolution in Fluctuating Environments | Frontiers in Ecology and Evolution | 9 |
| 2021 | 10.1186/s13059-021-02289-z | Bernstein, D. B., S. Sulheim, E. Almaas and D. Segrè | Addressing uncertainty in genome-scale metabolic model reconstruction and analysis | Genome Biology | 22(1) 64 |
| 2021 | 10.1016/j.biombioe.2021.106275 | Yang, P., X. Cai, C. Leibensperger and M. Khanna | Adoption of perennial energy crops in the US Midwest: Causal and heterogeneous determinants | Biomass and Bioenergy | 155 106275 |
| 2021 | 10.1038/s41438-021-00570-7 | Hu, X.-L., H. Lu, M. M. Hassan, J. Zhang, G. Yuan, P. E. Abraham, H. K. Shrestha, M. I. Villalobos Solis, J.-G. Chen, T. J. Tschaplinski, M. J. Doktycz, G. A. Tuskan, Z.-M. Cheng and X. Yang | Advances and perspectives in discovery and functional analysis of small secreted proteins in plants | Horticulture Research | 8(1) 130 |
| 2021 | 10.1093/pcp/pcab106 | Kim, S.-J. and F. Brandizzi | Advances in Cell Wall Matrix Research with a Focus on Mixed-Linkage Glucan | Plant and Cell Physiology | 62(12) 1839–46 |
| 2021 | 10.1016/j.csbj.2020.11.052 | Ziegler, S. J., S. J. B. Mallinson, P. C. St. John and Y. J. Bomble | Advances in integrative structural biology: Towards understanding protein complexes in their cellular context | Computational and Structural Biotechnology Journal | 19 214–25 |
| 2021 | 10.1016/B978-0-08-102688-5.00073-8 | Waugh, M. W., S. Dwaraknath and Y. Lu | Advances in Metalloprotein Design and Engineering: Strategies Employed and Insights Gained | Comprehensive Coordination Chemistry III | 900–28 |
| 2021 | 10.1016/j.watres.2020.116445 | Nguyen Quoc, B., S. Wei, M. Armenta, R. Bucher, P. Sukapanpotharam, D. A. Stahl, H. D. Stensel and M. H. Winkler | Aerobic granular sludge: Impact of size distribution on nitrification capacity | Water Research | 188 116445 |
| 2021 | 10.1111/tpj.15086 | Oliver, J., M. Fan, B. McKinley, S. Zemelis-Durfee, F. Brandizzi, C. Wilkerson and J. E. Mullet | The AGCVIII kinase Dw2 modulates cell proliferation, endomembrane trafficking, and MLG/xylan cell wall localization in elongating stem internodes of Sorghum bicolor | The Plant Journal | 105(4) 1053–71 |
| 2021 | 10.1088/1748-9326/ac1815 | Abraha, M., J. Chen, S. K. Hamilton, P. Sciusco, C. Lei, G. Shirkey, J. Yuan and G. P. Robertson | Albedo-induced global warming impact of Conservation Reserve Program grasslands converted to annual and perennial bioenergy crops | Environmental Research Letters | 16(8) 084059 |
| 2021 | 10.1093/jxb/eraa609 | Jiang, S.-C., N. L. Engle, Z. Z. Banday, N. M. Cecchini, H. W. Jung, T. J. Tschaplinski and J. T. Greenberg | ALD1 accumulation in Arabidopsis epidermal plastids confers local and non-autonomous disease resistance | Journal of Experimental Botany | 72(7) 2710–26 |
| 2021 | 10.1039/D1GC02667D | Achinivu, E. C., S. Frank, N. R. Baral, L. Das, M. Mohan, P. Otoupal, E. Shabir, S. Utan, C. D. Scown, B. A. Simmons and J. Gladden | Alkanolamines as Dual Functional Solvents for Biomass Deconstruction and Bioenergy Production | Green Chemistry | 23(21) 8611–31 |
| 2021 | 10.3390/cryst11101227 | Chai, L., P. Zhu, J. Chai, C. Pang, B. Andi, S. McSweeney, J. Shanklin and Q. Liu | AlphaFold Protein Structure Database for Sequence-Independent Molecular Replacement | Crystals | 11(10) 1227 |
| 2021 | 10.1016/j.copbio.2021.07.005 | Streett, H., K. Charubin and E. T. Papoutsakis | Anaerobic fluorescent reporters for cell identification, microbial cell biology and high-throughput screening of microbiota and genomic libraries | Current Opinion in Biotechnology | 71 151-163 |
| 2021 | 10.3390/microorganisms9091986 | Hillman, E. T., E. M. Frazier, E. K. Shank, A. N. Ortiz-Velez, J. A. Englaender and K. V. Solomon | Anaerobic fungal mevalonate pathway genomic biases lead to heterologous toxicity underpredicted by codon adaptation indices | Microorganisms | 9(9) |
| 2021 | 10.1128/mbio.03259-21 | Wilkes, R. A., J. Waldbauer and L. Aristilde | Analogous Metabolic Decoupling in Pseudomonas putida and Comamonas testosteroni Implies Energetic Bypass to Facilitate Gluconeogenic Growth | mBio | 12(6) e03259-21 |
| 2021 | 10.7150/jgen.53019 | Maguvu, T. E., A. O. Oladipo and C. C. Bezuidenhout | Analysis of Genome Sequences of Coagulase-Negative Staphylococci Isolates from South Africa and Nigeria Highlighted Environmentally Driven Heterogeneity | Journal of Genomics | 9 26–37 |
| 2021 | 10.1016/j.bej.2021.108008 | Norena-Caro, D. A., C. Zuniga, A. J. Pete, S. A. Saemundsson, M. R. Donaldson, A. J. Adams, K. M. Dooley, K. Zengler and M. G. Benton | Analysis of the cyanobacterial amino acid metabolism with a precise genome-scale metabolic reconstruction of Anabaena sp. UTEX 2576 | Biochemical Engineering Journal | 171 |
| 2021 | 10.3390/life11060551 | Meyer, C., Y. Nakamura, B. J. Rasor, A. S. Karim, M. C. Jewett and C. Tan | Analysis of the innovation trend in cell-free synthetic biology | Life | 11(6) |
| 2021 | 10.3390/metabo11030148 | Romsdahl, T. B., S. Kambhampati, S. Koley, U. P. Yadav, A. P. Alonso, D. K. Allen and K. D. Chapman | Analyzing mass spectrometry imaging data of 13c-labeled phospholipids in camelina sativa and thlaspi arvense (Pennycress) embryos | Metabolites | 11(3) 45312 |
| 2021 | 10.1093/gbe/evab198 | Yates, T. B., K. Feng, J. Zhang, V. Singan, S. S. Jawdy, P. Ranjan, P. E. Abraham, K. Barry, A. Lipzen, C. Pan, J. Schmutz, J.-G. Chen, G. A. Tuskan and W. Muchero | The Ancient Salicoid Genome Duplication Event: A Platform for Reconstruction of De Novo Gene Evolution in Populus trichocarpa | Genome Biology and Evolution | 13(9) |
| 2021 | 10.1128/mbio.03408-21 | Bandyopadhyay, A., Z. Ye, Z. Benedikty, M. Trtilek and H. B. Pakrasi | Antenna Modification Leads to Enhanced Nitrogenase Activity in a High Light-Tolerant Cyanobacterium | mBio | 12(6) |
| 2021 | 10.1128/JVI.01868-20 | Ferrero, S., M. D. Flores, C. Short, C. A. Vazquez, L. E. Clark, et al. | Antibody-based inhibition of pathogenic new world hemorrhagic fever mammarenaviruses by steric occlusion of the human transferrin receptor 1 apical domain | Journal of Virology | 95(17) |
| 2021 | 10.1186/s13068-020-01872-z | Riley, L. A. and A. M. Guss | Approaches to genetic tool development for rapid domestication of non-model microorganisms | Biotechnology for Biofuels | 14(1) 30 |
| 2021 | 10.1002/pld3.309 | Jing, B., T. Ishikawa, N. Soltis, N. Inada, Y. Liang, et al. | The Arabidopsis thaliana nucleotide sugar transporter GONST2 is a functional homolog of GONST1 | Plant Direct | 5(3) e00309 |
| 2021 | 10.3390/plants10020411 | Dewhirst, R. A., J. Lei, C. A. Afseth, C. Castanha, C. M. Wistrom, J. C. Mortimer and K. J. Jardine | Are Methanol-Derived Foliar Methyl Acetate Emissions a Tracer of Acetate-Mediated Drought Survival in Plants? | Plants | 10(2) 411 |
| 2021 | 10.1093/femsec/fiaa260 | Abramov, A., T. Vishnivetskaya and E. Rivkina | Are permafrost microorganisms as old as permafrost? | FEMS Microbiology Ecology | 97(2) |
| 2021 | 10.1128/AEM.01742-21 | Linz, A. M., Y. Ma, J. M. Perez, K. S. Myers, W. S. Kontur, D. R. Noguera and T. J. Donohue | Aromatic Dimer Dehydrogenases from Novosphingobium aromaticivorans Reduce Monoaromatic Diketones | Applied and Environmental Microbiology | 87(24) e01742-21 |
| 2021 | 10.1186/s12859-021-04472-2 | Pereira, W. J., F. M. Almeida, D. Conde, K. M. Balmant, P. M. Triozzi, H. W. Schmidt, C. Dervinis, G. J. Pappas and M. Kirst | Asc-Seurat: analytical single-cell Seurat-based web application | BMC Bioinformatics | 22(1) |
| 2021 | 10.1128/mSphere.01316-20 | Dove, N. C., A. M. Veach, W. Muchero, T. Wahl, J. C. Stegen, C. W. Schadt and M. A. Cregger | Assembly of the Populus Microbiome Is Temporally Dynamic and Determined by Selective and Stochastic Factors | mSphere | 6(3) e01316-20 |
| 2021 | 10.1021/acs.est.1c02236 | Jiang, C., K. Guan, M. Khanna, L. Chen and J. Peng | Assessing Marginal Land Availability Based on Land Use Change Information in the Contiguous United States | Environmental Science & Technology | 55(15) 10794–804 |
| 2021 | 10.1029/2020MS002284 | Chen, P., Y. Yuan, W. Li, S. D. LeDuc, T. J. Lark, X. Zhang and C. Clark | Assessing the Impacts of Recent Crop Expansion on Water Quality in the Missouri River Basin Using the Soil and Water Assessment Tool | Journal of Advances in Modeling Earth Systems | 13(6) e2020MS002284 |
| 2021 | 10.1021/acs.est.0c06133 | Chen, L., E. Blanc-Betes, T. W. Hudiburg, D. Hellerstein, S. Wallander, E. H. DeLucia and M. Khanna | Assessing the Returns to Land and Greenhouse Gas Savings from Producing Energy Crops on Conservation Reserve Program Land | Environmental Science & Technology | 55(2) 1301–9 |
| 2021 | 10.1007/s11103-021-01136-w | Hodgson-Kratky, K., V. Perlo, A. Furtado, H. Choudhary, J. M. Gladden, B. A. Simmons, F. Botha and R. J. Henry | Association of gene expression with syringyl to guaiacyl ratio in sugarcane lignin | Plant Molecular Biology | 106(1) 173–92 |
| 2021 | 10.3389/fpls.2021.589518 | Soto, M. J., P. K. Prabhakar, H.-T. Wang, J. Backe, D. Chapla, M. Bartetzko, I. M. Black, P. Azadi, M. J. Peña, F. Pfrengle, K. W. Moremen, B. R. Urbanowicz and M. G. Hahn | AtFUT4 and AtFUT6 Are Arabinofuranose-Specific Fucosyltransferases | Frontiers in Plant Science | 12 |
| 2021 | 10.1073/pnas.2004846117 | Nasti, R. A. and D. F. Voytas | Attaining the promise of plant gene editing at scale | Proceedings of the National Academy of Sciences of the United States of America | 118(22) |
| 2021 | 10.1016/j.mimet.2021.106294 | Hunt, K. A., J. Forbes, F. Taub, N. Elliott, J. Hardwicke, R. Petersen, N. Stopnisek, D. A. C. Beck and D. A. Stahl | An automated multiplexed turbidometric and data collection system for measuring growth kinetics of anaerobes dependent on gaseous substrates | Journal of Microbiological Methods | 188 106294 |
| 2021 | 10.1002/ppj2.20022 | Miao, C., A. Guo, A. M. Thompson, J. Yang, Y. Ge and J. C. Schnable | Automation of leaf counting in maize and sorghum using deep learning | Plant Phenome Journal | 4(1) |
| 2021 | 10.1038/s41396-020-00805-w | Lawson, C. E., G. H. L. Nuijten, R. M. de Graaf, T. B. Jacobson, M. Pabst, D. M. Stevenson, M. S. M. Jetten, D. R. Noguera, K. D. McMahon, D. Amador-Noguez and S. Lücker | Autotrophic and mixotrophic metabolism of an anammox bacterium revealed by in vivo 13C and 2H metabolic network mapping | ISME Journal | 15(3) 673-687 |
| 2021 | 10.1371/journal.pone.0255083 | Mendes, I. V., M. B. Garcia, A. C. A. Bitencourt, R. H. Santana, P. d. C. Lins, R. Silveira, B. A. Simmons, J. M. Gladden, R. H. Kruger and B. F. Quirino | Bacterial diversity dynamics in microbial consortia selected for lignin utilization | PLoS ONE | 16(9) e0255083 |
| 2021 | 10.1016/j.mib.2021.05.010 | Kennedy, N. W., C. E. Mills, T. M. Nichols, C. H. Abrahamson and D. Tullman-Ercek | Bacterial microcompartments: tiny organelles with big potential | Current Opinion in Microbiology | 63 36-42 |
| 2021 | 10.1016/j.molcel.2020.12.031 | Saba, J., X. Cao and R. Landick | Bacterial Transcription Continues to Surprise: Activation by Alarmone-Mediated σ-Factor Tethering | Molecular Cell | 81(1) 8–9 |
| 2021 | 10.1007/s00253-021-11322-x | Garcia, C. A. and J. G. Gardner | Bacterial α-diglucoside metabolism: perspectives and potential for biotechnology and biomedicine | Applied Microbiology and Biotechnology | 105(10) 4033-4052 |
| 2021 | 10.1016/j.scitotenv.2021.147589 | Liang, X., Y. Wang, Y. Zhang, B. Li and M. Radosevich | Bacteriophage-host depth distribution patterns in soil are maintained after nutrient stimulation in vitro | Science of The Total Environment | 787 147589 |
| 2021 | 10.1016/j.biortech.2020.124424 | Maitra, S. and V. Singh | Balancing sugar recovery and inhibitor generation during energycane processing: Coupling cryogenic grinding with hydrothermal pretreatment at low temperatures | Bioresource Technology | 321 124424 |
| 2021 | 10.1016/j.soilbio.2021.108297 | Kravchenko, A. N., H. Zheng, Y. Kuzyakov, G. P. Robertson and A. K. Guber | Belowground interplant carbon transfer promotes soil carbon gains in diverse plant communities | Soil Biology and Biochemistry | 159 108297 |
| 2021 | 10.1038/s41561-021-00852-8 | Lehmann, J., A. Cowie, C. A. Masiello, C. Kammann, D. Woolf, J. E. Amonette, M. L. Cayuela, M. Camps-Arbestain and T. Whitman | Biochar in climate change mitigation | Nature Geoscience | 14(12) 883-892 |
| 2021 | 10.1016/j.biortech.2021.124772 | Singh, R., A. Arora and V. Singh | Biodiesel from oil produced in vegetative tissues of biomass – A review | Bioresource Technology | 326 124772 |
| 2021 | 10.1111/1365-2656.13407 | Helms, J. A., IV, K. A. Roeder, S. E. Ijelu, I. Ratcliff and N. M. Haddad | Bioenergy landscapes drive trophic shifts in generalist ants | Journal of Animal Ecology | 90(3) 738–50 |
| 2021 | 10.1111/pce.13962 | Li, S., C. A. Moller, N. G. Mitchell, D. Lee and E. A. Ainsworth | Bioenergy sorghum maintains photosynthetic capacity in elevated ozone concentrations | Plant, Cell & Environment | 44(3) 729–46 |
| 2021 | 10.3389/fmicb.2021.757856 | Kosina, S. M., P. Rademacher, K. M. Wetmore, M. de Raad, M. Zemla, G. M. Zane, J. J. Zulovich, R. Chakraborty, B. P. Bowen, J. D. Wall, M. Auer, A. P. Arkin, A. M. Deutschbauer and T. R. Northen | Biofilm Interaction Mapping and Analysis (BIMA) of Interspecific Interactions in Pseudomonas Co-culture Biofilms | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.cell.2021.01.052 | Liu, Y., P. Cruz-Morales, A. Zargar, M. S. Belcher, B. Pang, E. Englund, Q. Dan, K. Yin and J. D. Keasling | Biofuels for a sustainable future | Cell | 184(6) 1636–47 |
| 2021 | 10.1021/acsearthspacechem.1c00087 | Stemple, B., K. Tinker, P. Sarkar, J. Miller, D. Gulliver and K. Bibby | Biogeochemistry of the Antrim Shale Natural Gas Reservoir | ACS Earth and Space Chemistry | 5(7) 1752–61 |
| 2021 | 10.3389/feduc.2021.711535 | Dow, E. G., E. M. Wood-Charlson, S. J. Biller, T. Paustian, A. Schirmer, C. S. Sheik, J. M. Whitham, R. Krebs, C. C. Goller, B. Allen, Z. Crockett and A. P. Arkin | Bioinformatic Teaching Resources – For Educators, by Educators – Using KBase, a Free, User-Friendly, Open Source Platform | Frontiers in Education | 6 |
| 2021 | 10.3389/feduc.2021.711618 | Tully, B. J., J. Buongiorno, A. B. Cohen, J. A. Cram, A. I. Garber, et al. | The Bioinformatics Virtual Coordination Network: An Open-Source and Interactive Learning Environment | Frontiers in Education | 6 |
| 2021 | 10.34133/2021/9798714 | Yang, X., D. Liu, H. Lu, D. J. Weston, J.-G. Chen, et al. | Biological Parts for Plant Biodesign to Enhance Land-Based Carbon Dioxide Removal | BioDesign Research | 2021 9798714 |
| 2021 | 10.1016/j.jclepro.2020.123593 | Baral, N. R., Z. D. Asher, D. Trinko, E. Sproul, C. Quiroz-Arita, J. C. Quinn and T. H. Bradley | Biomass feedstock transport using fuel cell and battery electric trucks improves lifecycle metrics of biofuel sustainability and economy | Journal of Cleaner Production | 279 123593 |
| 2021 | 10.1101/2021.09.28.462238 | Payyavula, R. S., R. Badmi, S. S. Jawdy, M. Rodriguez, L. Gunter, R. W. Sykes, K. A. Winkeler, C. M. Collins, W. H. Rottmann, J.-G. Chen, X. Yang, G. A. Tuskan and U. C. Kalluri | Biomass formation and sugar release efficiency of Populus modified by altered expression of a NAC transcription factor | bioRxiv | 2021.09.28.462238 |
| 2021 | 10.1021/acssynbio.1c00263 | Plahar, H. A., T. N. Rich, S. D. Lane, W. C. Morrell, L. Springthorpe, O. Nnadi, E. Aravina, T. Dai, M. J. Fero, N. J. Hillson and C. J. Petzold | BioParts—A Biological Parts Search Portal and Updates to the ICE Parts Registry Software Platform | ACS Synthetic Biology | 10(10) 2649–60 |
| 2021 | 10.1016/j.jbc.2021.100602 | Mamode Cassim, A., Y. Navon, Y. Gao, M. Decossas, L. Fouillen, et al. | Biophysical analysis of the plant-specific GIPC sphingolipids reveals multiple modes of membrane regulation | Journal of Biological Chemistry | 296 100602 |
| 2021 | 10.3868/11-00559-001 | Chen, J. | Biophysical Models and Applications in Ecosystem Analysis | Michigan State University Press | |
| 2021 | 10.3389/ffunb.2021.716511 | Rush, T. A., H. K. Shrestha, M. Gopalakrishnan Meena, M. K. Spangler, J. C. Ellis, J. L. Labbé and P. E. Abraham | Bioprospecting Trichoderma: A Systematic Roadmap to Screen Genomes and Natural Products for Biocontrol Applications | Frontiers in Fungal Biology | 2 |
| 2021 | 10.1016/j.carbpol.2021.117637 | Yuan, Y., H. Li, W. Leite, Q. Zhang, P. V. Bonnesen, J. L. Labbé, K. L. Weiss, S. V. Pingali, K. Hong, V. S. Urban, S. Salmon and H. O’Neill | Biosynthesis and characterization of deuterated chitosan in filamentous fungus and yeast | Carbohydrate Polymers | 257 117637 |
| 2021 | 10.1016/j.copbio.2021.05.004 | Arnolds, K. L., L. R. Dahlin, L. Ding, C. Wu, J. Yu, W. Xiong, C. Zuniga, Y. Suzuki, K. Zengler, J. G. Linger and M. T. Guarnieri | Biotechnology for secure biocontainment designs in an emerging bioeconomy | Current Opinion in Biotechnology | 71 25-31 |
| 2021 | 10.1093/plphys/kiaa109 | Yu, X. H., Y. Cai, J. Keereetaweep, K. Wei, J. Chai, E. Deng, H. Liu and J. Shanklin | Biotin Attachment Domain-Containing Proteins Mediate Hydroxy Fatty Acid-Dependent Inhibition of Acetyl CoA Carboxylase | Plant Physiology | 185(3) 892–901 |
| 2021 | 10.1128/mBio.03518-20 | Pant, S. R., S. Irigoyen, J. Liu, R. Bedre, S. A. Christensen, E. A. Schmelz, J. C. Sedbrook, K. B. G. Scholthof and K. K. Mandadi | Brachypodium phenylalanine ammonia lyase (PAL) promotes antiviral defenses against Panicum mosaic virus and its satellites | mBio | 12(1) 45308 |
| 2021 | 10.1016/j.copbio.2020.11.010 | Foster, C. J., L. Wang, H. V. Dinh, P. F. Suthers and C. D. Maranas | Building kinetic models for metabolic engineering | Current Opinion in Biotechnology | 67 35–41 |
| 2021 | 10.1093/jxb/erab176 | Jaikumar, N. S., S. S. Stutz, S. B. Fernandes, A. D. B. Leakey, C. J. Bernacchi, P. J. Brown and S. P. Long | Can improved canopy light transmission ameliorate loss of photosynthetic efficiency in the shade? An investigation of natural variation in Sorghum bicolor | Journal of Experimental Botany | 72(13) 4965–80 |
| 2021 | 10.1021/acssuschemeng.0c09330 | Yao, A., H. Choudhary, M. Mohan, A. Rodriguez, H. Magurudeniya, J. G. Pelton, A. George, B. A. Simmons and J. M. Gladden | Can Multiple Ions in an Ionic Liquid Improve the Biomass Pretreatment Efficacy? | ACS Sustainable Chemistry & Engineering | 9(12) 4371–6 |
| 2021 | 10.1080/19490976.2020.1869502 | Coker, J. K., O. Moyne, D. A. Rodionov and K. Zengler | Carbohydrates great and small, from dietary fiber to sialic acids: How glycans influence the gut microbiome and affect human health | Gut Microbes | 13(1) 45309 |
| 2021 | 10.1186/s12951-021-01178-8 | González-Grandío, E., G. S. Demirer, C. T. Jackson, D. Yang, S. Ebert, K. Molawi, H. Keller and M. P. Landry | Carbon nanotube biocompatibility in plants is determined by their surface chemistry | Journal of Nanobiotechnology | 19(1) |
| 2021 | 10.1021/acssuschemeng.0c07020 | Galebach, P. H., M. Beussman, J. Johnson, T. Fredriksen, C. Wang, M. P. Lanci and G. W. Huber | Catalytic Conversion of Pyrolysis Oil to Alcohols and Alkanes in Supercritical Methanol over the CuMgAlOx Catalyst | ACS Sustainable Chemistry and Engineering | 9(5) 2067-2079 |
| 2021 | 10.1186/s13068-021-02018-5 | Gabriel, R., R. Mueller, L. Floerl, C. Hopson, S. Harth, T. Schuerg, A. Fleissner and S. W. Singer | CAZymes from the thermophilic fungus Thermoascus aurantiacus are induced by C5 and C6 sugars | Biotechnology for Biofuels | 14(1) 169 |
| 2021 | 10.3389/fpls.2021.747225 | Scavuzzo-Duggan, T., N. Varoquaux, M. Madera, J. P. Vogel, J. Dahlberg, R. Hutmacher, M. Belcher, J. Ortega, D. Coleman-Derr, P. Lemaux, E. Purdom and H. V. Scheller | Cell Wall Compositions of Sorghum bicolor Leaves and Roots Remain Relatively Constant Under Drought Conditions | Frontiers in Plant Science | 12 |
| 2021 | 10.1002/cbic.202000452 | Bogart, J. W., M. D. Cabezas, B. Vögeli, D. A. Wong, A. S. Karim and M. C. Jewett | Cell-Free Exploration of the Natural Product Chemical Space | ChemBioChem | 22(1) 84-91 |
| 2021 | 10.1038/s41598-021-88899-w | Liu, H. and J. U. Bowie | Cell-free synthetic biochemistry upgrading of ethanol to 1,3 butanediol | Scientific Reports | 11(1) |
| 2021 | 10.1002/cpz1.153 | Balasubramanian, V. K., S. O. Purvine, Y. Liang, R. T. Kelly, L. Pasa-Tolic, W. B. Chrisler, E. Blumwald, C. N. Stewart, Y. Zhu and A. H. Ahkami | Cell-Type-Specific Proteomics Analysis of a Small Number of Plant Cells by Integrating Laser Capture Microdissection with a Nanodroplet Sample Processing Platform | Current Protocols | 1(5) |
| 2021 | 10.1186/s13068-021-02008-7 | Hoffman, S. M., M. Alvarez, G. Alfassi, D. M. Rein, S. Garcia-Echauri, Y. Cohen and J. L. Avalos | Cellulosic biofuel production using emulsified simultaneous saccharification and fermentation (eSSF) with conventional and thermotolerant yeasts | Biotechnology for Biofuels | 14(1) |
| 2021 | 10.1016/j.copbio.2021.01.005 | Candry, P. and R. Ganigué | Chain elongators, friends, and foes | Current Opinion in Biotechnology | 67 99-110 |
| 2021 | Kim, K. | Change of Soil Micro-Environments During Plant Decomposition and Its Effect on Carbon and Nitrogen Dynamics | Dissertation | (28866173) 164 | |
| 2021 | 10.1016/j.polymdegradstab.2021.109481 | Soulenthone, P., Y. Tachibana, M. Suzuki, T. Mizuno, Y. Ohta and K.-i. Kasuya | Characterization of a poly(butylene adipate-co-terephthalate) hydrolase from the mesophilic actinobacteria Rhodococcus fascians | Polymer Degradation and Stability | 184 |
| 2021 | 10.1016/j.ymben.2021.01.013 | Wada, A., É. T. Prates, R. Hirano, A. Z. Werner, N. Kamimura, D. A. Jacobson, G. T. Beckham and E. Masai | Characterization of aromatic acid/proton symporters in Pseudomonas putida KT2440 toward efficient microbial conversion of lignin-related aromatics | Metabolic Engineering | 64 167–79 |
| 2021 | 10.3389/fmicb.2021.687971 | Saldierna Guzmán, J. P., M. Reyes-Prieto and S. C. Hart | Characterization of Erwinia gerundensis A4, an Almond-Derived Plant Growth-Promoting Endophyte | Frontiers in Microbiology | 12 |
| 2021 | 10.1007/s10482-021-01633-4 | Fasusi, O. A., A. E. Amoo and O. O. Babalola | Characterization of plant growth-promoting rhizobacterial isolates associated with food plants in South Africa | Antonie van Leeuwenhoek | 114(10) 1683–708 |
| 2021 | 10.1002/pei3.10056 | Hsieh, J.-F., S. T. Krause, D. Kainer, J. Degenhardt, W. J. Foley and C. Külheim | Characterization of terpene biosynthesis in Melaleuca quinquenervia and ecological consequences of terpene accumulation during myrtle rust infection | Plant-Environment Interactions | 2(4) 177–93 |
| 2021 | 10.3390/genes12020288 | Guo, Z., M. Xu, H. Nagano, L. V. Clark, E. J. Sacks and T. Yamada | Characterization of the Ghd8 Flowering Time Gene in a Mini-Core Collection of Miscanthus sinensis | Genes | 12(2) 288 |
| 2021 | 10.1038/s41589-020-00710-5 | Filsinger, G. T., T. M. Wannier, F. B. Pedersen, I. D. Lutz, J. Zhang, et al. | Characterizing the portability of phage-encoded homologous recombination proteins | Nature Chemical Biology | 17(4) 394-402 |
| 2021 | 10.1099/ijsem.0.004912 | Nde, A. L., G. Charimba, A. Hitzeroth, L. Oosthuizen, L. Steyn, J. D. Newman and C. Hugo | Chryseobacterium pennae sp. nov., isolated from poultry feather waste | International Journal of Systematic and Evolutionary Microbiology | 71(7) |
| 2021 | 10.1038/s41558-021-00989-9 | Yuan, M. M., X. Guo, L. Wu, Y. Zhang, N. Xiao, D. Ning, Z. Shi, X. Zhou, L. Wu, Y. Yang, J. M. Tiedje and J. Zhou | Climate warming enhances microbial network complexity and stability | Nature Climate Change | 11(4) 343-348 |
| 2021 | 10.1038/s42003-021-02244-5 | Ware, I. M., M. E. Van Nuland, Z. K. Yang, C. W. Schadt, J. A. Schweitzer and J. K. Bailey | Climate-driven divergence in plant-microbiome interactions generates range-wide variation in bud break phenology | Communications Biology | 4(1) 748 |
| 2021 | 10.1021/acs.jproteome.0c00952 | Lantz, C., M. A. Zenaidee, B. Wei, Z. Hemminger, R. R. Ogorzalek Loo and J. A. Loo | ClipsMS: An Algorithm for Analyzing Internal Fragments Resulting from Top-Down Mass Spectrometry | Journal of Proteome Research | 20(4) 1928-1935 |
| 2021 | 10.1002/bit.27896 | Dong, C., Z. Shi, L. Huang, H. Zhao, Z. Xu and J. Lian | Cloning and characterization of a panel of mitochondrial targeting sequences for compartmentalization engineering in Saccharomyces cerevisiae | Biotechnology and Bioengineering | 118(11) 4269–77 |
| 2021 | 10.1093/plcell/koab042 | Salomé, P. A. and S. S. Merchant | Co-expression networks in Chlamydomonas reveal significant rhythmicity in batch cultures and empower gene function discovery | Plant Cell | 33(4) 1058-1082 |
| 2021 | 10.1073/pnas.2022982118 | Busta, L., E. Schmitz, D. K. Kosma, J. C. Schnable and E. B. Cahoon | A co-opted steroid synthesis gene, maintained in sorghum but not maize, is associated with a divergence in leaf wax chemistry | Proceedings of the National Academy of Sciences of the United States of America | 118(12) |
| 2021 | 10.1186/s13068-021-02083-w | Brown, J. L., C. L. Swift, S. J. Mondo, S. Seppala, A. Salamov, et al. | Co‑cultivation of the anaerobic fungus Caecomyces churrovis with Methanobacterium bryantii enhances transcription of carbohydrate binding modules, dockerins, and pyruvate formate lyases on specific substrates | Biotechnology for Biofuels | 14(1) |
| 2021 | 10.1128/mBio.01442-21 | Swift, C. L., K. B. Louie, B. P. Bowen, C. A. Hooker, K. V. Solomon, V. Singan, C. Daum, C. P. Pennacchio, K. Barry, V. Shutthanandan, J. E. Evans, I. V. Grigoriev, T. R. Northen and M. A. O’malley | Cocultivation of anaerobic fungi with rumen bacteria establishes an antagonistic relationship | mBio | 12(4) |
| 2021 | 10.1186/s13068-020-01867-w | Beri, D., C. D. Herring, S. Blahova, S. Poudel, R. J. Giannone, R. L. Hettich and L. R. Lynd | Coculture with hemicellulose-fermenting microbes reverses inhibition of corn fiber solubilization by Clostridium thermocellum at elevated solids loadings | Biotechnology for Biofuels | 14(1) 24 |
| 2021 | 10.1128/AEM.00524-21 | Kim, S.-K., J. Russell, M. Cha, M. E. Himmel, Y. J. Bomble and J. Westpheling | Coexpression of a β-d-Xylosidase from Thermotoga maritima and a Family 10 Xylanase from Acidothermus cellulolyticus Significantly Improves the Xylan Degradation Activity of the Caldicellulosiruptor bescii Exoproteome | Applied and Environmental Microbiology | 87(14) e0052421 |
| 2021 | 10.1038/s41596-020-00455-4 | Majumder, E. L. W., E. M. Billings, H. P. Benton, R. L. Martin, A. Palermo, C. Guijas, M. M. Rinschen, X. Domingo-Almenara, J. R. Montenegro-Burke, B. A. Tagtow, R. S. Plumb and G. Siuzdak | Cognitive analysis of metabolomics data for systems biology | Nature Protocols | 16(3) 1376–418 |
| 2021 | 10.1093/molbev/msaa221 | Foflonker, F. and C. E. Blaby-Haas | Colocality to Cofunctionality: Eukaryotic Gene Neighborhoods as a Resource for Function Discovery | Molecular Biology and Evolution | 38(2) 650–62 |
| 2021 | 10.1128/AEM.02541-20 | Fracchia, F., L. Mangeot-Peter, L. Jacquot, F. Martin, C. Veneault-Fourrey and A. Deveau | Colonization of Naive Roots from Populus tremula x alba Involves Successive Waves of Fungi and Bacteria with Different Trophic Abilities | Applied and Environmental Microbiology | 87(6) e02541-20 |
| 2021 | 10.1002/prot.26052 | Chen, C., T. Wu, Z. Guo and J. Cheng | Combination of deep neural network with attention mechanism enhances the explainability of protein contact prediction | Proteins: Structure, Function and Bioinformatics | 89(6) 697-707 |
| 2021 | 10.1088/1748-9326/ac2e35 | Spawn-Lee, S. A., T. J. Lark, H. K. Gibbs, R. A. Houghton, C. J. Kucharik, C. Malins, R. E. O. Pelton and G. P. Robertson | Comment on ‘Carbon Intensity of corn ethanol in the United States: state of the science’ | Environmental Research Letters | 16(11) 118001 |
| 2021 | 10.1002/agj2.20832 | von Haden, A. C., M. B. Burnham, W. H. Yang and E. H. DeLucia | Comparative establishment and yield of bioenergy sorghum and maize following pre-emergence waterlogging | Agronomy Journal | 113(6) 5602–11 |
| 2021 | 10.1038/s41598-020-79733-w | Liu, J., A. Cheng, M. Wang, M. Liu, D. Zhu, et al. | Comparative genomics and metabolomics analysis of Riemerella anatipestifer strain CH-1 and CH-2 | Scientific Reports | 11(1) 616 |
| 2021 | 10.1111/1462-2920.15273 | Steindorff, A. S., A. Carver, S. Calhoun, K. Stillman, H. Liu, A. Lipzen, G. He, M. Yan, J. Pangilinan, K. LaButti, V. Ng, T. D. Bruns and I. V. Grigoriev | Comparative genomics of pyrophilous fungi reveals a link between fire events and developmental genes | Environmental Microbiology | 23(1) 99–109 |
| 2021 | 10.1016/j.hal.2021.102037 | Dreher, T. W., E. W. Davis, R. S. Mueller and T. G. Otten | Comparative genomics of the ADA clade within the Nostocales | Harmful Algae | 104 102037 |
| 2021 | 10.1016/j.bbrc.2021.02.046 | Abdelhamid, A. G. and N. K. El-Dougdoug | Comparative genomics of the gut commensal Bifidobacterium bifidum reveals adaptation to carbohydrate utilization | Biochemical and Biophysical Research Communications | 547 155–61 |
| 2021 | 10.1128/Spectrum.01414-21 | Wu, X., A. E. Kazakov, S. Gushgari-Doyle, X. Yu, V. Trotter, R. K. Stuart and R. Chakraborty | Comparative Genomics Reveals Insights into Induction of Violacein Biosynthesis and Adaptive Evolution in Janthinobacterium | Microbiology Spectrum | 9(3) e01414-21 |
| 2021 | 10.1021/acs.est.1c00802 | Wu, X., A. Chauhan, A. C. Layton, M. C. Y. Lau Vetter, B. T. Stackhouse, D. E. Williams, L. Whyte, S. M. Pfiffner, T. C. Onstott and T. A. Vishnivetskaya | Comparative Metagenomics of the Active Layer and Permafrost from Low-Carbon Soil in the Canadian High Arctic | Environmental Science and Technology | 55(18) 12683-12693 |
| 2021 | 10.1186/s13068-021-01897-y | Happs, R. M., B. Addison, C. Doeppke, B. S. Donohoe, M. F. Davis and A. E. Harman-Ware | Comparison of methodologies used to determine aromatic lignin unit ratios in lignocellulosic biomass | Biotechnology for Biofuels | 14(1) 58 |
| 2021 | 10.1016/j.bioflm.2021.100052 | Speers, A. M. and G. Reguera | Competitive advantage of oxygen-tolerant bioanodes of Geobacter sulfurreducens in bioelectrochemical systems | Biofilm | 3 100052 |
| 2021 | 10.1128/mBio.03099-20 | Wilhelm, R. C., C. Pepe-Ranney, P. Weisenhorn, M. Lipton and D. H. Buckley | Competitive Exclusion and Metabolic Dependency among Microorganisms Structure the Cellulose Economy of an Agricultural Soil | mBio | 12(1) |
| 2021 | 10.1038/s41467-021-25241-y | Sun, L., J. W. Lee, S. Yook, S. Lane, Z. Sun, S. R. Kim and Y.-S. Jin | Complete and efficient conversion of plant cell wall hemicellulose into high-value bioproducts by engineered yeast | Nature Communications | 12(1) 4975 |
| 2021 | 10.3390/microorganisms9112249 | Ramesh, C., M. Anwesh, N. V. Vinithkumar, R. Kirubagaran and L. Dufossé | Complete Genome Analysis of Undecylprodigiosin Pigment Biosynthesizing Marine Streptomyces Species Displaying Potential Bioactive Applications | Microorganisms | 9(11) 2249 |
| 2021 | 10.1128/MRA.00002-21 | Podar, P. T., K. Peyton, A. Soren, R. L. Wilpiszeski, C. C. Gilmour, D. A. Elias and M. Podar | Complete Genome Sequence of Desulfobulbus oligotrophicus Prop6, an Anaerobic Deltabacterota Strain That Lacks Mercury Methylation Capability | Microbiology Resource Announcements | 10(5) e00002-21 |
| 2021 | 10.1128/MRA.00412-21 | Joshi, S., P. T. Podar, F. E. Dewhirst and M. Podar | Complete Genome Sequence of Human Oral Actinomyces sp. HMT175 Strain ORNL0102, a Host of the Saccharibacterium (TM7) HMT957 | Microbiology Resource Announcements | 10(23) e00412-21 |
| 2021 | 10.1128/MRA.00040-21 | Cross, K. L., F. Dewhirst and M. Podar | Complete Genome Sequence of Human Oral Actinomyces sp. HMT897 Strain ORNL0104, a Host of the Saccharibacterium (TM7) HMT351 | Microbiology Resource Announcements | 10(14) e00040-21 |
| 2021 | 10.1038/s41589-020-00729-8 | Dolberg, T. B., A. T. Meger, J. D. Boucher, W. K. Corcoran, E. E. Schauer, A. N. Prybutok, S. Raman and J. N. Leonard | Computation-guided optimization of split protein systems | Nature Chemical Biology | 17(5) 531–9 |
| 2021 | 10.1002/cssc.202101137 | Zhou, P., K. L. Sánchez-Rivera, G. W. Huber and R. C. Van Lehn | Computational Approach for Rapidly Predicting Temperature-Dependent Polymer Solubilities Using Molecular-Scale Models | ChemSusChem | 14(19) 4307–16 |
| 2021 | 10.1016/j.ymben.2021.07.009 | Garcia, S. and C. T. Trinh | Computational design and analysis of modular cells for large libraries of exchangeable product synthesis modules | Metabolic Engineering | 67 453–63 |
| 2021 | 10.1073/pnas.2106480118 | Chen, C., V. S. Boorla, D. Banerjee, R. Chowdhury, V. S. Cavener, R. H. Nissly, A. Gontu, N. R. Boyle, K. Vandegrift, M. S. Nair, S. V. Kuchipudi and C. D. Maranas | Computational prediction of the effect of amino acid changes on the binding affinity between SARS-CoV-2 spike RBD and human ACE2 | Proceedings of the National Academy of Sciences | 118(42) e2106480118 |
| 2021 | 10.1021/acssynbio.0c00598 | Wang, L. and C. D. Maranas | Computationally Prospecting Potential Pathways from Lignin Monomers and Dimers toward Aromatic Compounds | ACS Synthetic Biology | 10(5) 1064–76 |
| 2021 | 10.1029/2021MS002469 | Tang, J., W. J. Riley, G. L. Marschmann and E. L. Brodie | Conceptualizing Biogeochemical Reactions With an Ohm's Law Analogy | Journal of Advances in Modeling Earth Systems | 13(10) e2021MS002469 |
| 2021 | 10.1016/j.cub.2021.03.089 | Mohammadi, S., L. Yang, A. Harpak, S. Herrera-Álvarez, M. del Pilar Rodríguez-Ordoñez, J. Peng, K. Zhang, J. F. Storz, S. Dobler, A. J. Crawford and P. Andolfatto | Concerted evolution reveals co-adapted amino acid substitutions in Na+K+-ATPase of frogs that prey on toxic toads | Current Biology | 31(12) 2530-2538.e10 |
| 2021 | 10.1038/s41396-021-00920-2 | Emmett, B. D., V. Lévesque-Tremblay and M. J. Harrison | Conserved and reproducible bacterial communities associate with extraradical hyphae of arbuscular mycorrhizal fungi | ISME Journal | 15(8) 2276-2288 |
| 2021 | 10.1038/s41598-021-91394-x | Benedict, A. B., P. Ghosh, S. M. Scott and J. S. Griffitts | A conserved rhizobial peptidase that interacts with host-derived symbiotic peptides | Scientific Reports | 11(1) 11779 |
| 2021 | 10.1093/bioinformatics/btab347 | Liber, J. A., G. Bonito and G. M. N. Benucci | CONSTAX2: improved taxonomic classification of environmental DNA markers | Bioinformatics | 37(21) 3941–3 |
| 2021 | 10.1016/j.tplants.2021.06.015 | Hassan, M. M., Y. Zhang, G. Yuan, K. De, J.-G. Chen, W. Muchero, G. A. Tuskan, Y. Qi and X. Yang | Construct design for CRISPR/Cas-based genome editing in plants | Trends in Plant Science | 26(11) 1133–52 |
| 2021 | 10.1111/mec.15767 | Smith, G. R., L. C. Edy and K. G. Peay | Contrasting fungal responses to wildfire across different ecosystem types | Molecular Ecology | 30(3) 844–54 |
| 2021 | 10.1038/s41467-021-21763-7 | Basso, B., R. A. Martinez-Feria, L. Rill and J. T. Ritchie | Contrasting long-term temperature trends reveal minor changes in projected potential evapotranspiration in the US Midwest | Nature Communications | 12(1) 1476 |
| 2021 | 10.1093/plcell/koaa021 | Baetsen-Young, A., H. Chen, S. H. Shiu and B. Day | Contrasting transcriptional responses to Fusarium virguliforme colonization in symptomatic and asymptomatic hosts | The Plant Cell | 33(2) 224–47 |
| 2021 | 10.1098/rspb.2021.0621 | Bell-Dereske, L. P. and S. E. Evans | Contributions of environmental and maternal transmission to the assembly of leaf fungal endophyte communities | Proceedings of the Royal Society B: Biological Sciences | 288(1956) 20210621 |
| 2021 | 10.1128/mBio.03620-20 | He, X., G. L. Chadwick, C. P. Kempes, V. J. Orphan and C. Meile | Controls on interspecies electron transport and size limitation of anaerobically methane-oxidizing microbial consortia | mBio | 12(3) |
| 2021 | 10.1021/acssuschemeng.1c01629 | Cheng, M.-H., B. S. Dien, Y.-S. Jin, S. Thompson, J. Shin, P. J. Watson Slininger, N. Qureshi and V. Singh | Conversion of High-Solids Hydrothermally Pretreated Bioenergy Sorghum to Lipids and Ethanol Using Yeast Cultures | ACS Sustainable Chemistry & Engineering | 9(25) 8515–25 |
| 2021 | 10.1002/csc2.20609 | Casto, A. L., K. M. Murphy and M. A. Gehan | Coping with cold: Sorghum cold stress from germination to maturity | Crop Science | 61(6) 3894-3907 |
| 2021 | 10.1007/s40789-020-00394-1 | Zhu, T., R. Wang, N. Yi, W. Niu, L. Wang and Z. Xue | Correction to: CO2 and SO2 emission characteristics of the whole process industry chain of coal processing and utilization in China (International Journal of Coal Science & Technology, (2020), 7, 1, (19-25), 10.1007/s40789-020-00297-1) | International Journal of Coal Science and Technology | 8(1) 176 |
| 2021 | 10.1021/acssuschemeng.0c04240 | Berstis, L., T. Elder, R. Dixon, M. Crowley and G. T. Beckham | Coupling of Flavonoid Initiation Sites with Monolignols Studied by Density Functional Theory | ACS Sustainable Chemistry & Engineering | 9(4) 1518–28 |
| 2021 | 10.1002/bbb.2185 | Happs, R. M., A. W. Bartling, C. Doeppke, A. E. Harman-Ware, R. Clark, E. G. Webb, M. J. Biddy, J.-G. Chen, G. A. Tuskan, M. F. Davis, W. Muchero and B. H. Davison | Cover Image, Volume 15, Issue 1 | Biofuels, Bioproducts and Biorefining | 15(1) i-i |
| 2021 | 10.1016/j.ymben.2021.09.008 | Lee, S.-B., M. Tremaine, M. Place, L. Liu, A. Pier, D. J. Krause, D. Xie, Y. Zhang, R. Landick, A. P. Gasch, C. T. Hittinger and T. K. Sato | Crabtree/Warburg-like aerobic xylose fermentation by engineered Saccharomyces cerevisiae | Metabolic Engineering | 68 119–30 |
| 2021 | 10.1089/crispr.2021.29126.rba | Barrangou, R. | The CRISPR Chronicles and the Power of Storytelling | The CRISPR Journal | 4(2) 158–9 |
| 2021 | 10.1016/B978-0-12-821477-0.00001-5 | Liu, R., L. Liang, S. Stettner, E. F. Freed and C. A. Eckert | CRISPR-based tools for microbial cell factories | Microbial Cell Factories Engineering for Production of Biomolecules | 95–113 |
| 2021 | 10.1007/978-1-0716-1657-4_22 | Stettner, S. and C. Eckert | CRISPR-Cas Genome Editing in the Cellulolytic Bacterium Clostridium thermocellum (C. thermocellum) | CRISPR-Cas Methods: Volume 2 | 335–44 |
| 2021 | 10.1111/pbi.13651 | de Vries, L., M. Brouckaert, A. Chanoca, H. Kim, M. R. Regner, et al. | CRISPR-Cas9 editing of CAFFEOYL SHIKIMATE ESTERASE 1 and 2 shows their importance and partial redundancy in lignification in Populus tremula × P. alba | Plant Biotechnology Journal | 19(11) 2221–34 |
| 2021 | 10.1186/s13068-020-01852-3 | Li, M., X. Lang, M. Moran Cabrera, S. De Keyser, X. Sun, N. Da Silva and I. Wheeldon | CRISPR-mediated multigene integration enables Shikimate pathway refactoring for enhanced 2-phenylethanol biosynthesis in Kluyveromyces marxianus | Biotechnology for Biofuels | 14(1) |
| 2021 | 10.1007/s11627-021-10215-y | Parikh, A., E. J. Brant, M. C. Baloglu and F. Altpeter | CRISPR/Cas-mediated genome editing in sorghum — recent progress, challenges and prospects | In Vitro Cellular & Developmental Biology - Plant | 57(4) 720–30 |
| 2021 | 10.1002/biot.202100237 | Brant, E. J., M. C. Baloglu, A. Parikh and F. Altpeter | CRISPR/Cas9 mediated targeted mutagenesis of LIGULELESS-1 in sorghum provides a rapidly scorable phenotype by altering leaf inclination angle | Biotechnology Journal | 16(11) 2100237 |
| 2021 | 10.3389/fpls.2021.652319 | Jarvis, B. A., T. B. Romsdahl, M. G. McGinn, T. J. Nazarenus, E. B. Cahoon, K. D. Chapman and J. C. Sedbrook | CRISPR/Cas9-Induced fad2 and rod1 Mutations Stacked With fae1 Confer High Oleic Acid Seed Oil in Pennycress (Thlaspi arvense L.) | Frontiers in Plant Science | 12 |
| 2021 | 10.3389/fgeed.2021.673566 | Oz, M. T., A. Altpeter, R. Karan, A. Merotto and F. Altpeter | CRISPR/Cas9-Mediated Multi-Allelic Gene Targeting in Sugarcane Confers Herbicide Tolerance | Frontiers in Genome Editing | 3 |
| 2021 | 10.1111/nph.17713 | Irving, T. B., B. Alptekin, B. Kleven and J. M. Ané | A critical review of 25 years of glomalin research: a better mechanical understanding and robust quantification techniques are required | New Phytologist | 232(4) 1572-1581 |
| 2021 | 10.3390/microorganisms9020321 | Lee, J. A., A. C. Baugh, N. J. Shevalier, B. Strand, S. Stolyar and C. J. Marx | Cross-Feeding of a Toxic Metabolite in a Synthetic Lignocellulose-Degrading Microbial Community | Microorganisms | 9(2) |
| 2021 | 10.1007/s12571-021-01156-w | Allee, A., L. R. Lynd and V. Vaze | Cross-national analysis of food security drivers: comparing results based on the Food Insecurity Experience Scale and Global Food Security Index | Food Security | 13(5) 1245–61 |
| 2021 | 10.1038/s41594-021-00646-x | Cao, Q., D. R. Boyer, M. R. Sawaya, R. Abskharon, L. Saelices, B. A. Nguyen, J. Lu, K. A. Murray, F. Kandeel and D. S. Eisenberg | Cryo-EM structures of hIAPP fibrils seeded by patient-extracted fibrils reveal new polymorphs and conserved fibril cores | Nature Structural and Molecular Biology | 28(9) 724-730 |
| 2021 | 10.1128/mSystems.01306-20 | Carper, D. L., D. J. Weston, A. Barde, C. M. Timm, T.-Y. Lu, et al. | Cultivating the Bacterial Microbiota of Populus Roots | mSystems | 6(3) e01306-20 |
| 2021 | 10.1016/j.ymben.2021.02.006 | Ni, Z., A. E. Stine, K. E. J. Tyo and L. J. Broadbelt | Curating a comprehensive set of enzymatic reaction rules for efficient novel biosynthetic pathway design | Metabolic Engineering | 65 79-87 |
| 2021 | 10.1093/femsyr/foab066 | Schultz, J. C., M. Cao, A. Mejia and H. Zhao | CUT&RUN identifies centromeric DNA regions of Rhodotorula toruloides IFO0880 | FEMS Yeast Research | 21(8) |
| 2021 | 10.1073/pnas.2100281118 | Blaby-Haas, C. E. | Cyanobacteria provide a new paradigm in the regulation of cofactor dependence | Proceedings of the National Academy of Sciences | 118(7) e2100281118 |
| 2021 | 10.1111/tpj.15492 | Muchlinski, A., M. Jia, K. Tiedge, J. S. Fell, K. A. Pelot, L. Chew, D. Davisson, Y. Chen, J. Siegel, J. T. Lovell and P. Zerbe | Cytochrome P450-catalyzed biosynthesis of furanoditerpenoids in the bioenergy crop switchgrass (Panicum virgatum L.) | Plant Journal | 108(4) 1053-1068 |
| 2021 | 10.5194/essd-13-281-2021 | Jiang, C., K. Guan, G. Wu, B. Peng and S. Wang | A daily, 250M and real-time gross primary productivity product (2000–present) covering the contiguous United States | Earth System Science Data | 13(2) 281–98 |
| 2021 | 10.1093/nar/gkab765 | Dibaeinia, P. and S. Sinha | Deciphering enhancer sequence using thermodynamics-based models and convolutional neural networks | Nucleic Acids Research | 49(18) 10309–27 |
| 2021 | 10.1128/AEM.01037-21 | Thorgersen, M. P., J. Xue, E. L. W. Majumder, V. V. Trotter, X. Ge, F. L. Poole, T. K. Owens, L. M. Lui, T. N. Nielsen, A. P. Arkin, A. M. Deutschbauer, G. Siuzdak and M. W. W. Adams | Deciphering Microbial Metal Toxicity Responses via Random Bar Code Transposon Site Sequencing and Activity-Based Metabolomics | Applied and Environmental Microbiology | 87(21) e01037-21 |
| 2021 | 10.1021/acssuschemeng.0c07925 | Das, L., E. C. Achinivu, C. A. Barcelos, E. Sundstrom, B. Amer, E. E. K. Baidoo, B. A. Simmons, N. Sun and J. M. Gladden | Deconstruction of Woody Biomass via Protic and Aprotic Ionic Liquid Pretreatment for Ethanol Production | ACS Sustainable Chemistry & Engineering | 9(12) 4422–32 |
| 2021 | 10.1038/s41467-021-22765-1 | McGivern, B. B., M. M. Tfaily, M. A. Borton, S. M. Kosina, R. A. Daly, C. D. Nicora, S. O. Purvine, A. R. Wong, M. S. Lipton, D. W. Hoyt, T. R. Northen, A. E. Hagerman and K. C. Wrighton | Decrypting bacterial polyphenol metabolism in an anoxic wetland soil | Nature Communications | 12(1) |
| 2021 | 10.1073/pnas.2022838118 | Garruss, A. S., K. M. Collins and G. M. Church | Deep representation learning improves prediction of LacI-mediated transcriptional repression | Proceedings of the National Academy of Sciences of the United States of America | 118(27) |
| 2021 | 10.3389/fmolb.2021.716973 | Quadir, F., R. S. Roy, E. Soltanikazemi and J. Cheng | DeepComplex: A Web Server of Predicting Protein Complex Structures by Deep Learning Inter-chain Contact Prediction and Distance-Based Modelling | Frontiers in Molecular Biosciences | 8 |
| 2021 | 10.1186/s12859-020-03952-1 | Chen, C., J. Hou, X. Shi, H. Yang, J. A. Birchler and J. Cheng | DeepGRN: prediction of transcription factor binding site across cell-types using attention-based deep neural networks | BMC Bioinformatics | 22(1) |
| 2021 | 10.1016/J.JBC.2021.100643 | Robinson, K. P., A. Jochem, S. E. Johnson, T. R. Reddy, J. D. Russell, J. J. Coon and D. J. Pagliarini | Defining intermediates and redundancies in coenzyme Q precursor biosynthesis | Journal of Biological Chemistry | 296 |
| 2021 | 10.1128/MRA.00072-21 | Wall, J. D., G. M. Zane, T. R. Juba, J. V. Kuehl, J. Ray, S. R. Chhabra, V. V. Trotter, M. Shatsky, K. B. D. León, K. L. Keller, K. S. Bender, G. Butland, A. P. Arkin and A. M. Deutschbauer | Deletion Mutants, Archived Transposon Library, and Tagged Protein Constructs of the Model Sulfate-Reducing Bacterium Desulfovibrio vulgaris Hildenborough | Microbiology Resource Announcements | 10(11) e00072-21 |
| 2021 | 10.1128/MRA.00160-21 | Myers, K. S., M. Place, J. Kominek, D. R. Noguera and T. J. Donohue | Delila-PY, a Pipeline for Utilizing the Delila Suite of Software to Identify Potential DNA Binding Motifs | Microbiology Resource Announcements | 10(15) e00160-21 |
| 2021 | 10.1093/femsec/fiab003 | Junier, P., G. Cailleau, I. Palmieri, C. Vallotton, O. C. Trautschold, et al. | Democratization of fungal highway columns as a tool to investigate bacteria associated with soil fungi | FEMS Microbiology Ecology | 97(2) fiab003 |
| 2021 | 10.1007/s12275-021-1323-1 | Lee, S.-Y., H. Sung, P. S. Kim, H. S. Kim, J.-Y. Lee, J.-Y. Lee, Y.-S. Jeong, E. J. Tak, J. E. Han, D.-W. Hyun and J.-W. Bae | Description of Ornithinimicrobium ciconiae sp. nov., and Ornithinimicrobium avium sp. nov., isolated from the faeces of the endangered and near-threatened birds | Journal of Microbiology | 59(11) 978–87 |
| 2021 | 10.1073/pnas.2105739118 | Staquicini, D. I., F. H. F. Tang, C. Markosian, V. J. Yao, F. I. Staquicini, et al. | Design and proof of concept for targeted phage-based COVID-19 vaccination strategies with a streamlined cold-free supply chain | Proceedings of the National Academy of Sciences of the United States of America | 118(30) |
| 2021 | 10.1039/d1gc02865k | Chang, H., M. S. Kim, G. W. Huber and J. A. Dumesic | Design of closed-loop recycling production of a Diels-Alder polymer from a biomass-derived difuran as a functional additive for polyurethanes | Green Chemistry | 23(23) 9479-9488 |
| 2021 | 10.1016/bs.aecr.2021.01.003 | Haan, N. L., B. G. Iuliano, C. Gratton and D. A. Landis | Designing agricultural landscapes for arthropod-based ecosystem services in North America | Advances in Ecological Research | 64 191–250 |
| 2021 | 10.1016/j.watres.2020.116571 | Shabtai, I. A., L. M. Lynch and Y. G. Mishael | Designing clay-polymer nanocomposite sorbents for water treatment: A review and meta-analysis of the past decade | Water Research | 188 116571 |
| 2021 | 10.1038/s41467-021-25691-4 | Stork, D. A., G. R. Squyres, E. Kuru, K. A. Gromek, J. Rittichier, A. Jog, B. M. Burton, G. M. Church, E. C. Garner and A. M. Kunjapur | Designing efficient genetic code expansion in Bacillus subtilis to gain biological insights | Nature Communications | 12(1) |
| 2021 | 10.1016/j.talanta.2021.122198 | Sadeghi, S., T. A. Anderson and W. A. Jackson | Determination of phosphite (HPO3−2) by a new IC/MS/MS method using an 18O-labeled HPO3−2 internal standard | Talanta | 230 |
| 2021 | 10.1016/j.mimet.2021.106337 | Garcia, C. A. and J. G. Gardner | Development and evaluation of an agar capture system (ACS) for high-throughput screening of insoluble particulate substrates with bacterial growth and enzyme activity assays | Journal of Microbiological Methods | 190 |
| 2021 | 10.1111/gcbb.12841 | Maitra, S., B. Dien, S. P. Long and V. Singh | Development and validation of time-domain 1H-NMR relaxometry correlation for high-throughput phenotyping method for lipid contents of lignocellulosic feedstocks | GCB Bioenergy | 13(7) 1179-1190 |
| 2021 | 10.1111/1751-7915.13832 | Gauttam, R., A. Mukhopadhyay, B. A. Simmons and S. W. Singer | Development of dual-inducible duet-expression vectors for tunable gene expression control and CRISPR interference-based gene repression in Pseudomonas putida KT2440 | Microbial Biotechnology | 14(6) 2659–78 |
| 2021 | 10.1016/j.tim.2020.06.009 | Ryan, M. J., M. Schloter, G. Berg, T. Kostic, L. L. Kinkel, et al. | Development of Microbiome Biobanks – Challenges and Opportunities | Trends in Microbiology | 29(2) 89–92 |
| 2021 | 10.1371/journal.pcbi.1009448 | Wang, L., V. Upadhyay and C. D. Maranas | dGPredictor: Automated fragmentation method for metabolic reaction free energy prediction and de novo pathway design | PLoS Computational Biology | 17(9) e1009448 |
| 2021 | 10.1094/MPMI-11-20-0316-FI | Silva Pankievicz, V. C., F. P. do Amaral, J. M. Ané and G. Stacey | Diazotrophic bacteria and their mechanisms to interact and benefit cereals | Molecular Plant-Microbe Interactions | 34(5) 491-498 |
| 2021 | 10.1111/nph.17287 | Sonawane, B. V., N. K. Koteyeva, D. M. Johnson and A. B. Cousins | Differences in leaf anatomy determines temperature response of leaf hydraulic and mesophyll CO2 conductance in phylogenetically related C4 and C3 grass species | New Phytologist | 230(5) 1802-1814 |
| 2021 | 10.1007/s10533-021-00790-y | Lin, Y., A. N. Campbell, A. Bhattacharyya, N. DiDonato, A. M. Thompson, M. M. Tfaily, P. S. Nico, W. L. Silver and J. Pett-Ridge | Differential effects of redox conditions on the decomposition of litter and soil organic matter | Biogeochemistry | 154(1) 1–15 |
| 2021 | 10.1111/nph.17062 | Jabre, I., S. Chaudhary, W. Guo, M. Kalyna, A. S. N. Reddy, W. Chen, R. Zhang, C. Wilson and N. H. Syed | Differential nucleosome occupancy modulates alternative splicing in Arabidopsis thaliana | New Phytologist | 229(4) 1937-1945 |
| 2021 | 10.3389/fpls.2021.675208 | Adhikari, P., S. X. Mideros and T. M. Jamann | Differential Regulation of Maize and Sorghum Orthologs in Response to the Fungal Pathogen Exserohilum turcicum | Frontiers in Plant Science | 12 |
| 2021 | 10.1038/s41598-021-95106-3 | Oliver, A., S. Podell, A. Pinowska, J. C. Traller, S. R. Smith, et al. | Diploid genomic architecture of Nitzschia inconspicua, an elite biomass production diatom | Scientific Reports | 11(1) |
| 2021 | 10.1016/j.tibtech.2020.07.005 | Liu, R., L. Liang, E. F. Freed and R. T. Gill | Directed Evolution of CRISPR/Cas Systems for Precise Gene Editing | Trends in Biotechnology | 39(3) 262–73 |
| 2021 | 10.1021/acs.chemrev.1c00260 | Wang, Y., P. Xue, M. Cao, T. Yu, S. T. Lane and H. Zhao | Directed Evolution: Methodologies and Applications | Chemical Reviews | 121(20) 12384-12444 |
| 2021 | 10.1093/sysbio/syaa066 | Morales-Briones, D. F., G. Kadereit, D. T. Tefarikis, M. J. Moore, S. A. Smith, S. F. Brockington, A. Timoneda, W. C. Yim, J. C. Cushman and Y. Yang | Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l | Systematic Biology | 70(2) 219-235 |
| 2021 | 10.3389/fmicb.2021.757741 | Wei, H., W. Wang, E. P. Knoshaug, X. Chen, S. Van Wychen, Y. J. Bomble, M. E. Himmel and M. Zhang | Disruption of the Snf1 Gene Enhances Cell Growth and Reduces the Metabolic Burden in Cellulase-Expressing and Lipid-Accumulating Yarrowia lipolytica | Frontiers in Microbiology | 12 |
| 2021 | 10.3389/fbioe.2021.695306 | Fortney, N. W., N. J. Hanson, P. R. F. Rosa, T. J. Donohue and D. R. Noguera | Diverse Profile of Fermentation Byproducts From Thin Stillage | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1038/s41467-021-25983-9 | Emerson, J. B., R. K. Varner, M. Wik, D. H. Parks, R. B. Neumann, et al. | Diverse sediment microbiota shape methane emission temperature sensitivity in Arctic lakes | Nature Communications | 12(1) |
| 2021 | 10.3389/fmicb.2021.791089 | Carruthers, D. N. and T. S. Lee | Diversifying Isoprenoid Platforms via Atypical Carbon Substrates and Non-model Microorganisms | Frontiers in Microbiology | 12 |
| 2021 | 10.1073/pnas.2020024118 | Ewens, S. D., A. F. S. Gomberg, T. P. Barnum, M. A. Borton, H. K. Carlson, K. C. Wrighton and J. D. Coates | The diversity and evolution of microbial dissimilatory phosphite oxidation | Proceedings of the National Academy of Sciences of the United States of America | 118(11) |
| 2021 | 10.1128/mBio.02595-21 | Wu, R., M. R. Davison, W. C. Nelson, E. B. Graham, S. J. Fansler, Y. Farris, S. L. Bell, I. Godinez, J. E. Mcdermott, K. S. Hofmockel and J. K. Jansson | DNA Viral Diversity, Abundance, and Functional Potential Vary across Grassland Soils with a Range of Historical Moisture Regimes | mBio | 12(6) e02595-21 |
| 2021 | 10.1128/mSystems.00614-21 | Sorensen, J. W., L. A. Zinke, A. M. ter Horst, C. Santos-Medellín, A. Schroeder and J. B. Emerson | Dnase treatment improves viral enrichment in agricultural soil viromes | mSystems | 6(5) |
| 2021 | 10.1038/s41598-021-91827-7 | Quadir, F., R. S. Roy, R. Halfmann and J. Cheng | DNCON2_Inter: predicting interchain contacts for homodimeric and homomultimeric protein complexes using multiple sequence alignments of monomers and deep learning | Scientific Reports | 11(1) |
| 2021 | 10.1002/bit.27576 | Kuanyshev, N., C. V. Rao, B. Dien and Y. S. Jin | Domesticating a food spoilage yeast into an organic acid-tolerant metabolic engineering host: Lactic acid production by engineered Zygosaccharomyces bailii | Biotechnology and Bioengineering | 118(1) 372–82 |
| 2021 | 10.1039/D0GC03855E | Gong, C., N. Bryant, X. Meng, S. Bhagia, Y. Pu, D. Xin, C. Bender Koch, C. Felby, L. G. Thygesen, A. Ragauskas and S. T. Thomsen | Double bonus: surfactant-assisted biomass pelleting benefits both the pelleting process and subsequent enzymatic saccharification of the pretreated pellets | Green Chemistry | 23(2) 1050–61 |
| 2021 | 10.29303/jbt.v21i2.2802 | Viersanova, A. and H. Purwanto | Draft Genome of Lysinibacillus sphaericus Isolate 229C Pathogenic to Vector Mosquitoes | Jurnal Biologi Tropis | 21(2) 576–86 |
| 2021 | 10.1128/MRA.00884-20 | Bhattacharjee, A., L. N. Anderson, T. Alfaro, A. Porras-Alfaro, A. Jumpponen, K. S. Hofmockel, J. K. Jansson, C. R. Anderton and W. C. Nelson | Draft Genome Sequence of Fusarium sp. Strain DS 682, a Novel Fungal Isolate from the Grass Rhizosphere | Microbiology Resource Announcements | 10(1) e00884-20 |
| 2021 | 10.1128/MRA.00150-21 | Thompson, M. G., C. B. Eiben, A. N. Pearson and P. M. Shih | Draft Genome Sequence of Mycobacterium sp. Strain JC1 DSM 3803 | Microbiology Resource Announcements | 10(19) e00150-21 |
| 2021 | 10.1128/MRA.00212-21 | Rosario, M. E., J. Camm, D. Cavanagh, D. C. Rowley and D. R. Nelson | Draft Genome Sequence of Pseudoalteromonas sp. Strain JC3 | Microbiology Resource Announcements | 10(36) e00212-21 |
| 2021 | 10.1128/MRA.00628-21 | McDermith, E. J., A. R. Sterling, M. J. Bertin and B. D. Jenkins | Draft Genome Sequence of Salegentibacter sp. Strain BDJ18, a Plankton-Associated Bacterium in the Northeast Atlantic Ocean | Microbiology Resource Announcements | 10(36) e00628-21 |
| 2021 | 10.1128/MRA.00793-21 | Podar, N. A., D. Klingeman, F. Miranda-Sanchez, F. E. Dewhirst and M. Podar | Draft Genome Sequence of Schaalia odontolytica Strain ORNL0103, a Basibiont of “Candidatus Saccharibacteria” HMT352 | Microbiology Resource Announcements | 10(44) e00793-21 |
| 2021 | 10.1128/MRA.00580-21 | Nickolson, G. P., N. M. Balasjin and C. W. Marshall | Draft Genome Sequence of Staphylococcus succinus Strain GN1, Isolated from a Basement Floor in Milwaukee, WI | Microbiology Resource Announcements | 10(27) e00580-21 |
| 2021 | 10.1016/j.crmicr.2021.100055 | Sergio, d. l. S.-V., K. James Michael, P.-C. Fannie Isela, V.-R. Valeria, H.-K. Corina, G.-O. Luis Fernando, T. James Michael, H. Sheng Yang and P.-C. Juan Jose | Draft genome sequence of Paraburkholderia sp. strain XV isolated from the rhizosphere of mango (Mangifera indica L.) | Current Research in Microbial Sciences | 2 100055 |
| 2021 | 10.1128/MRA.00652-21 | Villarreal, A. R., D. E. Campbell, S. S. Webster and R. C. Hunter | Draft genome sequence of scheffersomyces spartinae ARV011, a marine yeast isolate | Microbiology Resource Announcements | 10(45) |
| 2021 | 10.1128/MRA.01427-20 | Bridges, C. M., M. C. Nelson, J. Graf and D. J. Gage | Draft Genome Sequences of Dysgonomonas sp. Strains BGC7 and HGC4, Isolated from the Hindgut of a Lower Termite | Microbiology Resource Announcements | 10(4) e01427-20 |
| 2021 | 10.1128/MRA.00079-21 | Bridges, C. M. and D. J. Gage | Draft Genome Sequences of Dysgonomonas sp. Strains GY75 and GY617, Isolated from the Hindgut of Reticulitermes flavipes | Microbiology Resource Announcements | 10(12) e00079-21 |
| 2021 | 10.1128/MRA.00531-21 | Mok, S., P. R. Flanagan, E. Roycroft, T. R. Rogers and M. M. Fitzgibbon | Draft Genome Sequences of Clinical Respiratory Isolates of Mycobacterium goodii Recovered in Ireland | Microbiology Resource Announcements | 10(31) e00531-21 |
| 2021 | 10.1128/MRA.01485-20 | Borre, I. and E. C. Sonnenschein | Draft Genome Sequences of Nine Environmental Bacterial Isolates Colonizing Plastic | Microbiology Resource Announcements | 10(11) e01485-20 |
| 2021 | 10.1128/MRA.00482-21 | Babalola, O. O., B. S. Adeleke and A. S. Ayangbenro | Draft Genome Sequencing of Stenotrophomonas indicatrix BOVIS40 and Stenotrophomonas maltophilia JVB5, Two Strains with Identifiable Genes Involved in Plant Growth Promotion | Microbiology Resource Announcements | 10(28) e00482-21 |
| 2021 | 10.1128/MRA.00029-21 | Babalola, O. O., O. A. Fasusi, A. E. Amoo and A. S. Ayangbenro | Draft Genomic Analysis of Pseudomonas sp. Strain OA3, a Potential Plant Growth-Promoting Rhizospheric Bacterium | Microbiology Resource Announcements | 10(11) e00029-21 |
| 2021 | 10.1002/ecs2.3562 | Wang, B. and S. D. Allison | Drought legacies mediated by trait trade-offs in soil microbiomes | Ecosphere | 12(6) |
| 2021 | 10.1021/acssynbio.0c00372 | Lovelett, R. J., E. M. Zhao, M. A. Lalwani, J. E. Toettcher, I. G. Kevrekidis and J. L. Avalos | Dynamical Modeling of Optogenetic Circuits in Yeast for Metabolic Engineering Applications | ACS Synthetic Biology | 10(2) 219-227 |
| 2021 | 10.1007/s11104-021-04871-7 | Kim, K., T. Kutlu, A. Kravchenko and A. Guber | Dynamics of N2O in vicinity of plant residues: a microsensor approach | Plant and Soil | 462(1) 331–47 |
| 2021 | 10.1038/s41467-021-21449-0 | Azeez, A., Y. C. Zhao, R. K. Singh, Y. S. Yordanov, M. Dash, P. Miskolczi, K. Stojkovič, S. H. Strauss, R. P. Bhalerao and V. B. Busov | EARLY BUD-BREAK 1 and EARLY BUD-BREAK 3 control resumption of poplar growth after winter dormancy | Nature Communications | 12(1) |
| 2021 | 10.1016/j.scitotenv.2020.144498 | Villa, J. A., Y. Ju, T. Yazbeck, S. Waldo, K. C. Wrighton and G. Bohrer | Ebullition dominates methane fluxes from the water surface across different ecohydrological patches in a temperate freshwater marsh at the end of the growing season | Science of the Total Environment | 767 |
| 2021 | 10.1038/s41467-021-25976-8 | Luo, Y., G. Jiang, T. Yu, Y. Liu, L. Vo, H. Ding, Y. Su, W. W. Qian, H. Zhao and J. Peng | ECNet is an evolutionary context-integrated deep learning framework for protein engineering | Nature Communications | 12(1) 5743 |
| 2021 | 10.1128/mSystems.00537-21 | Kothari, A., S. Roux, H. Zhang, A. Prieto, D. Soneja, et al. | Ecogenomics of Groundwater Phages Suggests Niche Differentiation Linked to Specific Environmental Tolerance | mSystems | 6(3) e00537-21 |
| 2021 | 10.1038/s41467-021-23402-7 | Roux, S., B. G. Paul, S. C. Bagby, S. Nayfach, M. A. Allen, et al. | Ecology and molecular targets of hypermutation in the global microbiome | Nature Communications | 12(1) |
| 2021 | 10.1088/1748-9326/abd7af | Chen, L., D. Debnath, J. Zhong, K. Ferin, A. VanLoocke and M. Khanna | The economic and environmental costs and benefits of the renewable fuel standard | Environmental Research Letters | 16(3) 034021 |
| 2021 | 10.1002/bbb.2148 | Happs, R. M., A. W. Bartling, C. Doeppke, A. E. Harman-Ware, R. Clark, E. G. Webb, M. J. Biddy, J.-G. Chen, G. A. Tuskan, M. F. Davis, W. Muchero and B. H. Davison | Economic impact of yield and composition variation in bioenergy crops: Populus trichocarpa | Biofuels, Bioproducts and Biorefining | 15(1) 176–88 |
| 2021 | 10.1016/j.jclepro.2021.126875 | Viswanathan, M. B., M.-H. Cheng, T. E. Clemente, I. Dweikat and V. Singh | Economic perspective of ethanol and biodiesel coproduction from industrial hemp | Journal of Cleaner Production | 299 126875 |
| 2021 | 10.1016/j.apenergy.2021.117539 | Geissler, C. H. and C. T. Maravelias | Economic, energetic, and environmental analysis of lignocellulosic biorefineries with carbon capture | Applied Energy | 302 117539 |
| 2021 | 10.1111/gcbb.12788 | Moore, C. E., A. C. von Haden, M. B. Burnham, I. B. Kantola, C. D. Gibson, B. J. Blakely, E. C. Dracup, M. D. Masters, W. H. Yang, E. H. DeLucia and C. J. Bernacchi | Ecosystem-scale biogeochemical fluxes from three bioenergy crop candidates: How energy sorghum compares to maize and miscanthus | GCB Bioenergy | 13(3) 445–58 |
| 2021 | 10.3390/plants10030513 | Zhai, Z., H. Liu and J. Shanklin | Ectopic Expression of OLEOSIN 1 and Inactivation of GBSS1 Have a Synergistic Effect on Oil Accumulation in Plant Leaves | Plants | 10(3) 513 |
| 2021 | 10.3389/fenrg.2021.781552 | Bomble, Y. J. and M. C. Jewett | Editorial: Cell Free Biocatalysis for the Production of Bioproducts | Frontiers in Energy Research | 9 |
| 2021 | 10.1093/jxb/erab090 | Moore, C. E., K. Meacham-Hensold, P. Lemonnier, R. A. Slattery, C. Benjamin, C. J. Bernacchi, T. Lawson and A. P. Cavanagh | The effect of increasing temperature on crop photosynthesis: from enzymes to ecosystems | Journal of Experimental Botany | 72(8) 2822–44 |
| 2021 | 10.1038/s41561-021-00725-0 | Fullerton, K. M., M. O. Schrenk, M. Yücel, E. Manini, M. Basili, et al. | Effect of tectonic processes on biosphere–geosphere feedbacks across a convergent margin | Nature Geoscience | 14(5) 301-306 |
| 2021 | 10.3389/fpls.2021.669064 | Kates, H. R., J. R. Doby, C. M. Siniscalchi, R. LaFrance, D. E. Soltis, P. S. Soltis, R. P. Guralnick and R. A. Folk | The Effects of Herbarium Specimen Characteristics on Short-Read NGS Sequencing Success in Nearly 8000 Specimens: Old, Degraded Samples Have Lower DNA Yields but Consistent Sequencing Success | Frontiers in Plant Science | 12 |
| 2021 | 10.1016/j.micres.2020.126640 | Igiehon, N. O., O. O. Babalola, X. Cheseto and B. Torto | Effects of rhizobia and arbuscular mycorrhizal fungi on yield, size distribution and fatty acid of soybean seeds grown under drought stress | Microbiological Research | 242 126640 |
| 2021 | 10.1016/j.jcat.2021.03.013 | Demir, B., T. Kropp, E. B. Gilcher, M. Mavrikakis and J. A. Dumesic | Effects of water on the kinetics of acetone hydrogenation over Pt and Ru catalysts | Journal of Catalysis | 403 215–27 |
| 2021 | 10.1111/mmi.14717 | Monge, E. C. and J. G. Gardner | Efficient chito-oligosaccharide utilization requires two TonB-dependent transporters and one hexosaminidase in Cellvibrio japonicus | Molecular Microbiology | 116(2) 366-380 |
| 2021 | 10.1016/j.ymben.2021.01.004 | Wang, X., J. H. Pereira, S. Tsutakawa, X. Fang, P. D. Adams, A. Mukhopadhyay and T. S. Lee | Efficient production of oxidized terpenoids via engineering fusion proteins of terpene synthase and cytochrome P450 | Metabolic Engineering | 64 41–51 |
| 2021 | 10.3389/fenrg.2021.640337 | Yue, F., W. Lan, L. Zhang, F. Lu, R. Sun and J. Ralph | Efficient Synthesis of Pinoresinol, an Important Lignin Dimeric Model Compound | Frontiers in Energy Research | 9 |
| 2021 | 10.1128/AEM.00972-21 | Sipes, K., A. Almatari, A. Eddie, D. Williams, E. Spirina, E. Rivkina, R. Liang, T. C. Onstott, T. A. Vishnivetskaya and K. G. Lloyd | Eight Metagenome-Assembled Genomes Provide Evidence for Microbial Adaptation in 20,000- to 1,000,000-Year-Old Siberian Permafrost | Applied and Environmental Microbiology | 87(19) e00972-21 |
| 2021 | 10.1099/ijsem.0.004977 | Hering, S., M. K. Jansson and M. E. J. Buhl | Eikenella glucosivorans sp. nov., isolated from a human throat swab, and emendation of the genus Eikenella to include saccharolytic species | International Journal of Systematic and Evolutionary Microbiology | 71(9) |
| 2021 | 10.1016/j.electacta.2020.137326 | Rago, L., D. Popp, J. T. Heiker and F. Harnisch | Electroactive microorganisms in mouse feces | Electrochimica Acta | 365 |
| 2021 | 10.1016/j.mec.2021.e00176 | Stephens, K., F. R. Zakaria, E. VanArsdale, G. F. Payne and W. E. Bentley | Electronic signals are electrogenetically relayed to control cell growth and co-culture composition | Metabolic Engineering Communications | 13 e00176 |
| 2021 | 10.1039/D1GC00911G | Zhao, Z.-M., S. Zhang, X. Meng, Y. Pu, Z.-H. Liu, W. K. Ledford, S. M. Kilbey, B.-Z. Li and A. J. Ragauskas | Elucidating the mechanisms of enhanced lignin bioconversion by an alkali sterilization strategy | Green Chemistry | 23(13) 4697–709 |
| 2021 | 10.1002/anie.202012213 | Samkian, A. E., G. R. Kiel, C. G. Jones, H. M. Bergman, J. Oktawiec, H. M. Nelson and T. D. Tilley | Elucidation of Diverse Solid-State Packing in a Family of Electron-Deficient Expanded Helicenes via Microcrystal Electron Diffraction (MicroED)** | Angewandte Chemie - International Edition | 60(5) 2493-2499 |
| 2021 | 10.1371/journal.pcbi.1008983 | Sarkar, D., M. Landa, A. Bandyopadhyay, H. B. Pakrasi, J. P. Zehr and C. D. Maranas | Elucidation of trophic interactions in an unusual single-cell nitrogen-fixing symbiosis using metabolic modeling | PLoS Computational Biology | 17(5) e1008983 |
| 2021 | 10.1007/s10664-021-09940-0 | Cashman, M., J. Firestone, M. B. Cohen, T. Thianniwet and W. Niu | An empirical investigation of organic software product lines | Empirical Software Engineering | 26(3) 44 |
| 2021 | 10.1016/j.agsy.2021.103244 | Basso, B., J. W. Jones, J. Antle, R. A. Martinez-Feria and B. Verma | Enabling circularity in grain production systems with novel technologies and policy | Agricultural Systems | 193 103244 |
| 2021 | 10.1002/cssc.202101492 | Wang, Y., X. Meng, Y. Tian, K. H. Kim, L. Jia, Y. Pu, G. Leem, D. Kumar, A. Eudes, A. J. Ragauskas and C. G. Yoo | Engineered Sorghum Bagasse Enables a Sustainable Biorefinery with p-Hydroxybenzoic Acid-Based Deep Eutectic Solvent | ChemSusChem | 14(23) 5235–44 |
| 2021 | 10.1016/j.ymben.2021.04.015 | Eng, T., D. Banerjee, A. K. Lau, E. Bowden, R. A. Herbert, J. Trinh, J.-P. Prahl, A. Deutschbauer, D. Tanjore and A. Mukhopadhyay | Engineering Pseudomonas putida for efficient aromatic conversion to bioproduct using high throughput screening in a bioreactor | Metabolic Engineering | 66 229–38 |
| 2021 | 10.1016/j.ymben.2021.02.002 | Kim, J., E. E. K. Baidoo, B. Amer, A. Mukhopadhyay, P. D. Adams, B. A. Simmons and T. S. Lee | Engineering Saccharomyces cerevisiae for isoprenol production | Metabolic Engineering | 64 154–66 |
| 2021 | 10.1021/jacsau.0c00103 | Ellis, E. S., D. J. Hinchen, A. Bleem, L. Bu, S. J. B. Mallinson, et al. | Engineering a Cytochrome P450 for Demethylation of Lignin-Derived Aromatic Aldehydes | JACS Au | 1(3) 252–61 |
| 2021 | 10.1002/9783527815128.ch8 | Harnden, K. A., Y. Wang, L. Vo, H. Zhao and Y. Lu | Engineering Artificial Metalloenzymes | Protein Engineering: Tools and Applications | 177–205 |
| 2021 | 10.1016/j.copbio.2020.09.011 | Liu, D., M. Liberton, J. I. Hendry, J. Aminian-Dehkordi, C. D. Maranas and H. B. Pakrasi | Engineering biology approaches for food and nutrient production by cyanobacteria | Current Opinion in Biotechnology | 67 1–6 |
| 2021 | 10.1016/j.ymben.2021.04.005 | Seo, H., J.-W. Lee, R. J. Giannone, N. J. Dunlap and C. T. Trinh | Engineering promiscuity of chloramphenicol acetyltransferase for microbial designer ester biosynthesis | Metabolic Engineering | 66 179–90 |
| 2021 | 10.1093/jimb/kuab067 | Tran, V. G. and H. Zhao | Engineering robust microorganisms for organic acid production | Journal of Industrial Microbiology and Biotechnology | 49(2) |
| 2021 | 10.1016/j.copbio.2020.10.012 | Lee, J. W., S. Yook, H. Koh, C. V. Rao and Y. S. Jin | Engineering xylose metabolism in yeasts to produce biofuels and chemicals | Current Opinion in Biotechnology | 67 15–25 |
| 2021 | 10.1021/jacs.1c01885 | Jellen, M. J., I. Liepuoniute, M. Jin, C. G. Jones, S. Yang, X. Jiang, H. M. Nelson, K. N. Houk and M. A. Garcia-Garibay | Enhanced Gearing Fidelity Achieved through Macrocyclization of a Solvated Molecular Spur Gear | Journal of the American Chemical Society | 143(20) 7740-7747 |
| 2021 | 10.1016/j.mec.2021.e00164 | Lin, P. C., F. Zhang and H. B. Pakrasi | Enhanced limonene production in a fast-growing cyanobacterium through combinatorial metabolic engineering | Metabolic Engineering Communications | 12 |
| 2021 | 10.1016/j.str.2021.02.004 | Feng, Z., J. D. Westbrook, R. Sala, O. S. Smart, G. Bricogne, M. Matsubara, I. Yamada, S. Tsuchiya, K. F. Aoki-Kinoshita, J. C. Hoch, G. Kurisu, S. Velankar, S. K. Burley and J. Y. Young | Enhanced validation of small-molecule ligands and carbohydrates in the Protein Data Bank | Structure | 29(4) 393-400.e1 |
| 2021 | 10.1128/AEM.02301-20 | Chang, J., D. D. Kim, J. D. Semrau, J. Y. Lee, H. Heo, W. Gu and S. Yoon | Enhancement of Nitrous Oxide Emissions in Soil Microbial Consortia via Copper Competition between Proteobacterial Methanotrophs and Denitrifiers | Applied and Environmental Microbiology | 87(5) 45306 |
| 2021 | 10.1186/s13068-020-01861-2 | Xu, Z., C. Pan, X. Li, N. Hao, T. Zhang, M. J. Gaffrey, Y. Pu, J. R. Cort, A. J. Ragauskas, W.-J. Qian and B. Yang | Enhancement of polyhydroxyalkanoate production by co-feeding lignin derivatives with glycerol in Pseudomonas putida KT2440 | Biotechnology for Biofuels | 14(1) 11 |
| 2021 | 10.3390/en14092633 | Shirkey, G., M. Belongeay, S. Wu, X. Ma, H. Tavakol, A. Anctil, S. Marquette-Pyatt, R. A. Stewart, P. Sinha, R. Corkish, J. Chen and I. Celik | An Environmental and Societal Analysis of the US Electrical Energy Industry Based on the Water–Energy Nexus | Energies | 14(9) 2633 |
| 2021 | 10.1093/femsyr/foab002 | Domenzain, I., F. Li, E. J. Kerkhoven and V. Siewers | Evaluating accessibility, usability and interoperability of genome-scale metabolic models for diverse yeasts species | FEMS Yeast Research | 21(1) |
| 2021 | 10.1186/s12934-021-01670-8 | Rodriguez, A., J. A. Meadows, N. Sun, B. A. Simmons and J. M. Gladden | Evaluation of bacterial hosts for conversion of lignin-derived p-coumaric acid to 4-vinylphenol | Microbial Cell Factories | 20(1) 181 |
| 2021 | 10.1111/1462-2920.15316 | Zinke, L. A., P. N. Evans, C. Santos-Medellín, A. L. Schroeder, D. H. Parks, R. K. Varner, V. I. Rich, G. W. Tyson and J. B. Emerson | Evidence for non-methanogenic metabolisms in globally distributed archaeal clades basal to the Methanomassiliicoccales | Environmental Microbiology | 23(1) 340-357 |
| 2021 | 10.3390/toxins13120892 | Ferrara, M., A. Gallo, C. Cervini, L. Gambacorta, M. Solfrizzo, S. E. Baker and G. Perrone | Evidence of the Involvement of a Cyclase Gene in the Biosynthesis of Ochratoxin A in Aspergillus carbonarius | Toxins | 13(12) 892 |
| 2021 | 10.1098/rsif.2021.0348 | Pacheco, A. R. and D. Segrè | An evolutionary algorithm for designing microbial communities via environmental modification | Journal of The Royal Society Interface | 18(179) 20210348 |
| 2021 | 10.1093/plcell/koab055 | Ren, Y., M. Li, S. Guo, H. Sun, J. Zhao, et al. | Evolutionary gain of oligosaccharide hydrolysis and sugar transport enhanced carbohydrate partitioning in sweet watermelon fruits | The Plant Cell | 33(5) 1554–73 |
| 2021 | 10.1146/annurev-arplant-080620-031054 | Maeda, H. A. and A. R. Fernie | Evolutionary History of Plant Metabolism | Annual Review of Plant Biology | 72 185-216 |
| 2021 | 10.1128/mSystems.00774-21 | Rodríguez-Verdugo, A. | Evolving interactions and emergent functions in microbial consortia | mSystems | 6(4) |
| 2021 | 10.1016/j.algal.2021.102492 | Li, C. T., K. Trigani, C. Zuñiga, R. Eng, E. Chen, K. Zengler and M. J. Betenbaugh | Examining the impact of carbon dioxide levels and modulation of resulting hydrogen peroxide in Chlorella vulgaris | Algal Research | 60 |
| 2021 | 10.1093/plphys/kiab499 | Mahon, E. L., L. de Vries, S.-K. Jang, S. Middar, H. Kim, F. Unda, J. Ralph and S. D. Mansfield | Exogenous chalcone synthase expression in developing poplar xylem incorporates naringenin into lignins | Plant Physiology | 188(2) 984–96 |
| 2021 | 10.7717/peerj.11447 | Pratama, A. A., B. Bolduc, A. A. Zayed, Z. P. Zhong, J. Guo, D. R. Vik, M. C. Gazitúa, J. M. Wainaina, S. Roux and M. B. Sullivan | Expanding standards in viromics: In silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation | PeerJ | 9 |
| 2021 | 10.1038/s41438-021-00663-3 | Yuan, G., H. Lu, D. Tang, M. M. Hassan, Y. Li, J.-G. Chen, G. A. Tuskan and X. Yang | Expanding the application of a UV-visible reporter for transient gene expression and stable transformation in plants | Horticulture Research | 8 |
| 2021 | 10.1186/s13068-021-01953-7 | Pham, L. T. M., K. Deng, T. R. Northen, S. W. Singer, P. D. Adams, B. A. Simmons and K. L. Sale | Experimental and theoretical insights into the effects of pH on catalysis of bond-cleavage by the lignin peroxidase isozyme H8 from Phanerochaete chrysosporium | Biotechnology for Biofuels | 14(1) 108 |
| 2021 | 10.1128/mSystems.00002-21 | Wilken, S. E., J. M. Monk, P. A. Leggieri, C. E. Lawson, T. S. Lankiewicz, et al. | Experimentally Validated Reconstruction and Analysis of a Genome-Scale Metabolic Model of an Anaerobic Neocallimastigomycota Fungus | mSystems | 6(1) e00002-21 |
| 2021 | 10.1038/s41396-020-00757-1 | Metcalfe, K. S., R. Murali, S. W. Mullin, S. A. Connon and V. J. Orphan | Experimentally-validated correlation analysis reveals new anaerobic methane oxidation partnerships with consortium-level heterogeneity in diazotrophy | The ISME Journal | 15(2) 377–96 |
| 2021 | 10.1128/mSystems.00443-21 | Walker, C., B. Dien, R. J. Giannone, P. Slininger, S. R. Thompson and C. T. Trinh | Exploring proteomes of robust yarrowia lipolytica isolates cultivated in biomass hydrolysate reveals key processes impacting mixed sugar utilization, lipid accumulation, and degradation | mSystems | 6(4) |
| 2021 | 10.1128/mSystems.00906-21 | Beach, N. K., K. S. Myers, B. R. Owen, M. Seib, T. J. Donohue and D. R. Noguera | Exploring the Meta-regulon of the CRP/FNR Family of Global Transcriptional Regulators in a Partial-Nitritation Anammox Microbiome | mSystems | 6(5) e00906-21 |
| 2021 | 10.3389/fmicb.2021.655987 | Alster, C. J., S. D. Allison, S. I. Glassman, A. C. Martiny and K. K. Treseder | Exploring Trait Trade-Offs for Fungal Decomposers in a Southern California Grassland | Frontiers in Microbiology | 12 |
| 2021 | 10.1186/s12870-021-02842-9 | Hao, Z., S. Yogiswara, T. Wei, V. T. Benites, A. Sinha, G. Wang, E. E. K. Baidoo, P. C. Ronald, H. V. Scheller, D. Loqué and A. Eudes | Expression of a bacterial 3-dehydroshikimate dehydratase (QsuB) reduces lignin and improves biomass saccharification efficiency in switchgrass (Panicum virgatum L.) | BMC Plant Biology | 21(1) 56 |
| 2021 | 10.1073/pnas.2025689118 | Gabriel, R., N. Thieme, Q. Liu, F. Li, L. T. Meyer, et al. | The F-box protein gene exo-1 is a target for reverse engineering enzyme hypersecretion in filamentous fungi | Proceedings of the National Academy of Sciences | 118(26) e2025689118 |
| 2021 | 10.1039/D1GC01507A | Lu, F., C. Wang, M. Chen, F. Yue and J. Ralph | A facile spectroscopic method for measuring lignin content in lignocellulosic biomass | Green Chemistry | 23(14) 5106–12 |
| 2021 | 10.1111/gcbb.12821 | Yang, P., X. Cai and M. Khanna | Farmers' heterogeneous perceptions of marginal land for biofuel crops in US Midwestern states considering biophysical and socioeconomic factors | GCB Bioenergy | 13(5) 849–61 |
| 2021 | 10.1002/bit.27603 | Badr, K., W. Whelan, Q. P. He and J. Wang | Fast and easy quantitative characterization of methanotroph–photoautotroph cocultures | Biotechnology and Bioengineering | 118(2) 703-714 |
| 2021 | 10.1137/19m129961x | Chen, C., S. Reiz, C. D. Yu, H. J. Bungartz and G. Biros | Fast Approximation of the Gauss--Newton Hessian Matrix for the Multilayer Perceptron | SIAM Journal on Matrix Analysis and Applications | 42(1) 165–84 |
| 2021 | 10.1016/j.jpdc.2020.11.006 | Brunn, M., N. Himthani, G. Biros, M. Mehl and A. Mang | Fast GPU 3D diffeomorphic image registration | Journal of Parallel and Distributed Computing | 149 149–62 |
| 2021 | 10.1039/D1CB00112D | Ha, N. S., M. de Raad, L. Z. Han, A. Golini, C. J. Petzold and T. R. Northen | Faster, better, and cheaper: harnessing microfluidics and mass spectrometry for biotechnology | RSC Chemical Biology | 2(5) 1331–51 |
| 2021 | 10.1186/s12859-021-04232-2 | Goren, E., C. Wang, Z. He, A. M. Sheflin, D. Chiniquy, J. E. Prenni, S. Tringe, D. P. Schachtman and P. Liu | Feature selection and causal analysis for microbiome studies in the presence of confounding using standardization | BMC Bioinformatics | 22(1) |
| 2021 | 10.1016/j.indcrop.2021.113587 | Yang, L., M. Lin, H. Zhang, C. Wang, L. Shi, W. Lan, L. Zhang, F. Yue and F. Lu | Ferulate-sinapyl alcohol cross-coupling reaction improves the understanding of grass cell wall lignification | Industrial Crops and Products | 168 |
| 2021 | 10.1186/s13068-021-02029-2 | Cho, J.-S., M.-H. Kim, E.-K. Bae, Y.-I. Choi, H.-W. Jeon, K.-H. Han and J.-H. Ko | Field evaluation of transgenic hybrid poplars with desirable wood properties and enhanced growth for biofuel production by bicistronic expression of PdGA20ox1 and PtrMYB3 in wood-forming tissue | Biotechnology for Biofuels | 14(1) 177 |
| 2021 | 10.1111/nph.17248 | Dove, N. C., D. M. Klingeman, A. A. Carrell, M. A. Cregger and C. W. Schadt | Fire alters plant microbiome assembly patterns: integrating the plant and soil microbial response to disturbance | New Phytologist | 230(6) 2433–46 |
| 2021 | 10.1111/tbed.13771 | Silva, J. G., W. J. Araujo, E. L. Leite, L. M. Dias, P. C. Vasconcelos, N. M. V. Silva, R. P. Oliveira, M. J. Sena, C. J. B. Oliveira and R. A. Mota | First report of a livestock-associated methicillin-resistant Staphylococcus aureus ST126 harbouring the mecC variant in Brazil | Transboundary and Emerging Diseases | 68(3) 1019–25 |
| 2021 | 10.1093/plphys/kiab469 | Rencoret, J., M. J. Rosado, H. Kim, V. I. Timokhin, A. Gutiérrez, F. Bausch, T. Rosenau, A. Potthast, J. Ralph and J. C. del Río | Flavonoids naringenin chalcone, naringenin, dihydrotricin, and tricin are lignin monomers in papyrus | Plant Physiology | 188(1) 208–19 |
| 2021 | 10.1039/D1GC01591E | Brandner, D. G., J. S. Kruger, N. E. Thornburg, G. G. Facas, J. K. Kenny, et al. | Flow-through solvolysis enables production of native-like lignin from biomass | Green Chemistry | 23(15) 5437–41 |
| 2021 | 10.1016/j.csbj.2021.03.034 | Wang, J., D. L. Carper, L. H. Burdick, H. K. Shrestha, M. R. Appidi, P. E. Abraham, C. M. Timm, R. L. Hettich, D. A. Pelletier and M. J. Doktycz | Formation, characterization and modeling of emergent synthetic microbial communities | Computational and Structural Biotechnology Journal | 19 1917–27 |
| 2021 | 10.1371/journal.pgen.1009342 | Price, M. N., A. M. Deutschbauer and A. P. Arkin | Four families of folate-independent methionine synthases | PLoS Genetics | 17(2) e1009342 |
| 2021 | 10.1007/s10482-021-01656-x | Menes, R. J., E. V. Machin, D. M. Roldán, N. Kyrpides, T. Woyke, W. B. Whitman and H.-J. Busse | Frigoriflavimonas asaccharolytica gen. nov., sp. nov., a novel psychrophilic esterase and protease producing bacterium isolated from Antarctica | Antonie van Leeuwenhoek | 114(12) 1991–2002 |
| 2021 | 10.1021/acscentsci.1c00729 | Alherech, M., S. Omolabake, C. M. Holland, G. E. Klinger, E. L. Hegg and S. S. Stahl | From Lignin to Valuable Aromatic Chemicals: Lignin Depolymerization and Monomer Separation via Centrifugal Partition Chromatography | ACS Central Science | 7(11) 1831–37 |
| 2021 | 10.1128/mSystems.01307-20 | Khadempour, L., J. E. Kyle, B.-J. M. Webb-Robertson, C. D. Nicora, F. B. Smith, R. D. Smith, M. S. Lipton, C. R. Currie, E. S. Baker and K. E. Burnum-Johnson | From Plants to Ants: Fungal Modification of Leaf Lipids for Nutrition and Communication in the Leaf-Cutter Ant Fungal Garden Ecosystem | mSystems | 6(2) e01307-20 |
| 2021 | 10.1109/TMI.2020.3024264 | Scheufele, K., S. Subramanian and G. Biros | Fully Automatic Calibration of Tumor-Growth Models Using a Single mpMRI Scan | IEEE Transactions on Medical Imaging | 40(1) 193–204 |
| 2021 | 10.3390/microorganisms9050985 | Hervé, V., A. Simon, F. Randevoson, G. Cailleau, G. Rajoelison, H. Razakamanarivo, S. Bindschedler, E. Verrecchia and P. Junier | Functional Diversity of the Litter-Associated Fungi from an Oxalate-Carbonate Pathway Ecosystem in Madagascar | Microorganisms | 9(5) 985 |
| 2021 | 10.1016/j.celrep.2021.108789 | Liu, H., A. L. Shiver, M. N. Price, H. K. Carlson, V. V. Trotter, Y. Chen, V. Escalante, J. Ray, K. E. Hern, C. J. Petzold, P. J. Turnbaugh, K. C. Huang, A. P. Arkin and A. M. Deutschbauer | Functional genetics of human gut commensal Bacteroides thetaiotaomicron reveals metabolic requirements for growth across environments | Cell Reports | 34(9) 108789 |
| 2021 | 10.1128/mBio.00466-21 | Hungate, B. A., J. C. Marks, M. E. Power, E. Schwartz, K. J. v. Groenigen, et al. | The Functional Significance of Bacterial Predators | mBio | 12(2) e00466-21 |
| 2021 | 10.1128/mBio.02040-21 | Castaño, J., J. Zhang, M. Zhou, C. F. Tsai, J. Y. Lee, C. Nicora and J. Schilling | A fungal secretome adapted for stress enabled a radical wood decay mechanism | mBio | 12(4) |
| 2021 | 10.1128/mBio.03509-20 | Yuan, M. M., A. Kakouridis, E. Starr, N. Nguyen, S. Shi, J. Zhou, M. Firestone, J. Pett-Ridge and E. Nuccio | Fungal-bacterial cooccurrence patterns differ between arbuscular mycorrhizal fungi and nonmycorrhizal fungi across soil niches | mBio | 12(2) |
| 2021 | 10.1111/nph.17373 | Kivlin, S. N., C. V. Hawkes, M. Papeş, K. K. Treseder and C. Averill | The future of microbial ecological niche theory and modeling | New Phytologist | 231(2) 508–11 |
| 2021 | 10.1111/1462-2920.15423 | Hage, H., S. Miyauchi, M. Virágh, E. Drula, B. Min, et al. | Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay | Environmental Microbiology | 23(10) 5716-5732 |
| 2021 | 10.1186/s13068-021-02026-5 | Yu, H., C. Liu and R. A. Dixon | A gene-editing/complementation strategy for tissue-specific lignin reduction while preserving biomass yield | Biotechnology for Biofuels | 14(1) 175 |
| 2021 | 10.1016/j.ces.2021.116766 | Ryu, J. and C. T. Maravelias | A generalized distillation network synthesis model | Chemical Engineering Science | 244 116766 |
| 2021 | 10.1021/acssuschemeng.1c03765 | Lim, H. G., T. Eng, D. Banerjee, G. Alarcon, A. K. Lau, M.-R. Park, B. A. Simmons, B. O. Palsson, S. W. Singer, A. Mukhopadhyay and A. M. Feist | Generation of Pseudomonas putida KT2440 Strains with Efficient Utilization of Xylose and Galactose via Adaptive Laboratory Evolution | ACS Sustainable Chemistry & Engineering | 9(34) 11512–23 |
| 2021 | Yang, X., G. A. Tuskan, D. Liu, R. HU, J.-G. Chen and M. Xie | Genes for enhancing drought and heat tolerance in plants and methods of use | LLC, U. B. | ||
| 2021 | 10.1002/csc2.20392 | Edmé, S. J., G. Sarath, N. Palmer, G. Y. Yuen, A. A. Muhle, R. Mitchell, S. Tatineni and C. Tobias | Genetic (co)variation and accuracy of selection for resistance to viral mosaic disease and production traits in an inter-ecotypic switchgrass breeding population | Crop Science | 61(3) 1652-1665 |
| 2021 | 10.1111/1365-2656.13541 | Barbour, M. A. and J. P. Gibert | Genetic and plastic rewiring of food webs under climate change | Journal of Animal Ecology | 90(8) 1814-1830 |
| 2021 | 10.1093/g3journal/jkab222 | Sorgini, C. A., L. M. Roberts, M. Sullivan, A. B. Cousins, I. Baxter and A. J. Studer | The genetic architecture of leaf stable carbon isotope composition in Zea mays and the effect of transpiration efficiency on leaf elemental accumulation | G3: Genes, Genomes, Genetics | 11(9) |
| 2021 | 10.1128/mSystems.00493-21 | Shi, W., Q. Ma, F. Pan, Y. Fan, M. L. Kempher, D. Ning, Y. Qu, J. D. Wall, A. Zhou and J. Zhou | Genetic Basis of Chromate Adaptation and the Role of the Pre-existing Genetic Divergence during an Experimental Evolution Study with Desulfovibrio vulgaris Populations | mSystems | 6(3) e00493-21 |
| 2021 | 10.1099/mic.0.001126 | Adler, B. A., A. E. Kazakov, C. Zhong, H. Liu, E. Kutter, L. M. Lui, T. N. Nielsen, H. Carion, A. M. Deutschbauer, V. K. Mutalik and A. P. Arkin | The genetic basis of phage susceptibility, cross-resistance and host-range in Salmonella | Microbiology | 167(12) |
| 2021 | 10.3389/fpls.2021.762067 | Ahlawat, Y. K., A. Nookaraju, A. E. Harman-Ware, C. Doeppke, A. K. Biswal and C. P. Joshi | Genetic Modification of KNAT7 Transcription Factor Expression Enhances Saccharification and Reduces Recalcitrance of Woody Biomass in Poplars | Frontiers in Plant Science | 12 762067 |
| 2021 | 10.1101/gr.266429.120 | Michael, T. P., E. Ernst, N. Hartwick, P. Chu, D. Bryant, et al. | Genome and time-of-day transcriptome of Wolffia australiana link morphological minimization with gene loss and less growth control | Genome Research | 31(2) 225–38 |
| 2021 | 10.1201/9781003048237-19 | Tsai, C.-J. | Genome editing of woody perennial trees | Genome editing for precision crop breeding | 441–57 |
| 2021 | 10.1016/j.mib.2021.08.006 | Chiappino-Pepe, A., V. Pandey and O. Billker | Genome reconstructions of metabolism of Plasmodium RBC and liver stages | Current Opinion in Microbiology | 63 259-266 |
| 2021 | 10.1128/MRA.00864-20 | Doyle, D. A., K. E. Duncan and R. S. Tanner | Genome Sequence of Clostridium sp. Strain P21, a CO-Fermenting Acetogen Isolated from Old Hay | Microbiology Resource Announcements | 10(11) |
| 2021 | 10.1128/MRA.01410-20 | Xavier, R. K. M., D. Xu, P. J. McCarthy, S. Yang and G. Wang | Genome Sequence of Streptomyces sp. Strain HB-N217, Isolated from the Marine Sponge Forcepia sp. | Microbiology Resource Announcements | 10(8) e01410-20 |
| 2021 | 10.1128/MRA.00060-21 | Dell’Anno, F., L. J. v. Zyl, M. Trindade, C. Brunet, A. Dell’Anno, A. Ianora and C. Sansone | Genome Sequence of an Alkaliphilus Species Isolated from Historically Contaminated Sediments of the Gulf of Naples (Mediterranean Sea) | Microbiology Resource Announcements | 10(11) e00060-21 |
| 2021 | 10.1094/mpmi-08-20-0222-a | Zhao, Z., N. Bokros, S. DeBolt, P. Yang and Y. Xia | Genome Sequence Resource of Bacillus sp. RRD69, a Beneficial Bacterial Endophyte Isolated from Switchgrass Plants | Molecular Plant-Microbe Interactions | 34(11) 1320–3 |
| 2021 | 10.1186/s12864-021-07957-9 | Braga, L. P. P., R. V. Pereira, L. F. Martins, L. M. S. Moura, F. B. Sanchez, J. S. L. Patané, A. M. da Silva and J. C. Setubal | Genome-resolved metagenome and metatranscriptome analyses of thermophilic composting reveal key bacterial players and their metabolic interactions | BMC Genomics | 22(1) 652 |
| 2021 | 10.1128/MRA.00244-21 | McDaniel, E. A., R. Wever, B. O. Oyserman, D. R. Noguera and K. D. McMahon | Genome-Resolved Metagenomics of a Photosynthetic Bioreactor Performing Biological Nutrient Removal | Microbiology Resource Announcements | 10(18) e00244-21 |
| 2021 | 10.1038/s41467-021-23553-7 | Xu, L., Z. Dong, D. Chiniquy, G. Pierroz, S. Deng, et al. | Genome-resolved metagenomics reveals role of iron metabolism in drought-induced rhizosphere microbiome dynamics | Nature Communications | 12(1) |
| 2021 | 10.3390/metabo11030168 | Hendry, J. I., H. V. Dinh, D. Sarkar, L. Wang, A. Bandyopadhyay, H. B. Pakrasi and C. D. Maranas | A genome-scale metabolic model of anabaena 33047 to guide genetic modifications to overproduce nylon monomers | Metabolites | 11(3) |
| 2021 | 10.1128/mSystems.01351-20 | Zhang, K., W. Zhao, D. A. Rodionov, G. M. Rubinstein, D. N. Nguyen, T. N. N. Tanwee, J. Crosby, R. G. Bing, R. M. Kelly, M. W. W. Adams and Y. Zhang | Genome-scale metabolic model of caldicellulosiruptor bescii reveals optimal metabolic engineering strategies for bio-based chemical production | mSystems | 6(3) |
| 2021 | 10.1016/j.cub.2021.01.074 | Li, Y., J. L. Steenwyk, Y. Chang, Y. Wang, T. Y. James, J. E. Stajich, J. W. Spatafora, M. Groenewald, C. W. Dunn, C. T. Hittinger, X. X. Shen and A. Rokas | A genome-scale phylogeny of the kingdom Fungi | Current Biology | 31(8) 1653–65.e5 |
| 2021 | 10.3389/fmicb.2021.695517 | Hebdon, S. D., A. T. Gerritsen, Y. P. Chen, J. G. Marcano and K. J. Chou | Genome-Wide Transcription Factor DNA Binding Sites and Gene Regulatory Networks in Clostridium thermocellum | Frontiers in Microbiology | 12 695517 |
| 2021 | 10.1093/nar/gkaa983 | Mukherjee, S., D. Stamatis, J. Bertsch, G. Ovchinnikova, J. C. Sundaramurthi, J. Lee, M. Kandimalla, I. A. Chen, N. C. Kyrpides and T. B. K. Reddy | Genomes OnLine Database (GOLD) v.8: overview and updates | Nucleic Acids Research | 49(D1) D723–33 |
| 2021 | 10.1016/j.rhisph.2021.100342 | Babalola, O. O., O. A. Fasusi, A. E. Amoo and A. S. Ayangbenro | Genomic analysis of a Pseudomonas strain with multiple plant growth promoting properties | Rhizosphere | 18 100342 |
| 2021 | 10.3390/plants10091776 | Adeleke, B. S., A. S. Ayangbenro and O. O. Babalola | Genomic Analysis of Endophytic Bacillus cereus T4S and Its Plant Growth-Promoting Traits | Plants | 10(9) 1776 |
| 2021 | 10.1038/s41564-020-00861-0 | Peng, X., S. E. Wilken, T. S. Lankiewicz, S. P. Gilmore, J. L. Brown, J. K. Henske, C. L. Swift, A. Salamov, K. Barry, I. V. Grigoriev, M. K. Theodorou, D. L. Valentine and M. A. O’Malley | Genomic and functional analyses of fungal and bacterial consortia that enable lignocellulose breakdown in goat gut microbiomes | Nature Microbiology | 6(4) 499–511 |
| 2021 | 10.1038/s41587-020-0718-6 | Nayfach, S., S. Roux, R. Seshadri, D. Udwary, N. Varghese, et al. | A genomic catalog of Earth’s microbiomes | Nature Biotechnology | 39(4) 499–509 |
| 2021 | 10.3389/ffunb.2021.708358 | Swift, C. L., N. G. Malinov, S. J. Mondo, A. Salamov, I. V. Grigoriev and M. A. O'Malley | A Genomic Catalog of Stress Response Genes in Anaerobic Fungi for Applications in Bioproduction | Frontiers in Fungal Biology | 2 |
| 2021 | 10.1094/mpmi-10-20-0272-sc | Adeniji, A. A., A. S. Ayangbenro and O. O. Babalola | Genomic Exploration of Bacillus thuringiensis MORWBS1.1, Candidate Biocontrol Agent, Predicts Genes for Biosynthesis of Zwittermicin, 4,5-DOPA Dioxygenase Extradiol, and Quercetin 2,3-Dioxygenase | Molecular Plant-Microbe Interactions | 34(6) 602–5 |
| 2021 | 10.1038/s41586-020-03127-1 | Lovell, J. T., A. H. MacQueen, S. Mamidi, J. Bonnette, J. Jenkins, et al. | Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass | Nature | 590(7846) 438–44 |
| 2021 | 10.1186/s40168-021-01057-2 | Liang, R., Z. Li, M. C. Y. Lau Vetter, T. A. Vishnivetskaya, O. G. Zanina, K. G. Lloyd, S. M. Pfiffner, E. M. Rivkina, W. Wang, J. Wiggins, J. Miller, R. L. Hettich and T. C. Onstott | Genomic reconstruction of fossil and living microorganisms in ancient Siberian permafrost | Microbiome | 9(1) |
| 2021 | 10.1002/tpg2.20114 | Bornowski, N., K. J. Michel, J. P. Hamilton, S. Ou, A. S. Seetharam, et al. | Genomic variation within the maize stiff-stalk heterotic germplasm pool | Plant Genome | 14(3) |
| 2021 | 10.3389/fbioe.2021.766674 | Banerjee, D., T. Eng, Y. Sasaki, A. Srinivasan, A. Oka, R. A. Herbert, J. Trinh, V. R. Singan, N. Sun, D. Putnam, C. D. Scown, B. Simmons and A. Mukhopadhyay | Genomics Characterization of an Engineered Corynebacterium glutamicum in Bioreactor Cultivation Under Ionic Liquid Stress | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1016/j.copbio.2021.05.010 | Ding, Y., T. R. Northen, A. Khalil, A. Huffaker and E. A. Schmelz | Getting back to the grass roots: harnessing specialized metabolites for improved crop stress resilience | Current Opinion in Biotechnology | 70 174–86 |
| 2021 | 10.3168/jds.2021-20232 | Oberg, C., K. Sorensen, T. Oberg, S. Young, M. Domek, M. Culumber and D. McMahon | Gluconate metabolism and gas production by Paucilactobacillus wasatchensis WDC04 | Journal of Dairy Science | 104(10) 10586–93 |
| 2021 | 10.1093/bioinformatics/btaa902 | Chen, C., J. Hou, X. Shi, H. Yang, J. A. Birchler and J. Cheng | GNET2: an R package for constructing gene regulatory networks from transcriptomic data | Bioinformatics | 37(14) 2068–9 |
| 2021 | 10.1088/1748-9326/abecbe | Zhang, X., T. J. Lark, C. M. Clark, Y. Yuan and S. D. LeDuc | Grassland-to-cropland conversion increased soil, nutrient, and carbon losses in the US Midwest between 2008 and 2016 | Environmental Research Letters | 16(5) 054018 |
| 2021 | 10.1021/acssuschemeng.1c04836 | Huang, K., X. Peng, L. Kong, W. Wu, Y. Chen and C. T. Maravelias | Greenhouse Gas Emission Mitigation Potential of Chemicals Produced from Biomass | ACS Sustainable Chemistry & Engineering | 9(43) 14480–7 |
| 2021 | 10.1111/nph.17383 | Ha, C. M., X. Rao, G. Saxena and R. A. Dixon | Growth–defense trade-offs and yield loss in plants with engineered cell walls | New Phytologist | 231(1) 60–74 |
| 2021 | 10.1038/s41467-021-25369-x | Wang, B., Y. Xu, X. Wang, J. S. Yuan, C. H. Johnson, J. D. Young and J. Yu | A guanidine-degrading enzyme controls genomic stability of ethylene-producing cyanobacteria | Nature Communications | 12(1) |
| 2021 | 10.1039/D0EE02870C | Abu-Omar, M. M., K. Barta, G. T. Beckham, J. S. Luterbacher, J. Ralph, R. Rinaldi, Y. Román-Leshkov, J. S. M. Samec, B. F. Sels and F. Wang | Guidelines for performing lignin-first biorefining | Energy & Environmental Science | 14(1) 262–92 |
| 2021 | 10.3389/fmicb.2021.679894 | Čadež, N., N. Bellora, R. Ulloa, M. Tome, H. Petković, M. Groenewald, C. T. Hittinger and D. Libkind | Hanseniaspora smithiae sp. nov., a Novel Apiculate Yeast Species From Patagonian Forests That Lacks the Typical Genomic Domestication Signatures for Fermentative Environments | Frontiers in Microbiology | 12 |
| 2021 | 10.3389/fmicb.2021.680267 | Liao, H.-L., G. Bonito, K. Hameed, S. H. Wu, K.-H. Chen, J. Labbé, C. W. Schadt, G. A. Tuskan, F. Martin, A. Kuo, K. Barry, I. V. Grigoriev and R. Vilgalys | Heterospecific Neighbor Plants Impact Root Microbiome Diversity and Molecular Function of Root Fungi | Frontiers in Microbiology | 12 |
| 2021 | 10.1038/s41598-020-79975-8 | Yu, K. M. J., B. McKinley, W. L. Rooney and J. E. Mullet | High planting density induces the expression of GA3-oxidase in leaves and GA mediated stem elongation in bioenergy sorghum | Scientific Reports | 11(1) 46 |
| 2021 | 10.1186/s13068-021-02033-6 | Chandrasekar, M., L. Joshi, K. Krieg, S. Chipkar, E. Burke, D. J. Debrauske, K. D. Thelen, T. K. Sato and R. G. Ong | A high solids field-to-fuel research pipeline to identify interactions between feedstocks and biofuel production | Biotechnology for Biofuels | 14(1) 179 |
| 2021 | 10.1021/acsearthspacechem.0c00299 | Dewhirst, R. A., P. Handakumbura, C. S. Clendinen, E. Arm, K. Tate, W. Wang, N. M. Washton, R. P. Young, J. C. Mortimer, N. G. McDowell and K. J. Jardine | High Temperature Acclimation of Leaf Gas Exchange, Photochemistry, and Metabolomic Profiles in Populus trichocarpa | ACS Earth and Space Chemistry | 5(8) 1813–28 |
| 2021 | 10.1021/acssuschemeng.0c07920 | Barcelos, C. A., A. M. Oka, J. Yan, L. Das, E. C. Achinivu, et al. | High-Efficiency Conversion of Ionic Liquid-Pretreated Woody Biomass to Ethanol at the Pilot Scale | ACS Sustainable Chemistry & Engineering | 9(11) 4042–53 |
| 2021 | 10.1109/MLHPC54614.2021.00010 | Gao, M., P. Lund-Andersen, A. Morehead, S. Mahmud, C. Chen, et al. | High-Performance Deep Learning Toolbox for Genome-Scale Prediction of Protein Structure and Function | Proceedings of MLHPC 2021: Workshop on Machine Learning in High Performance Computing Environments, Held in conjunction with SC 2021: The International Conference for High Performance Computing, Networking, Storage and Analysis | 46-57 |
| 2021 | 10.3389/fevo.2021.639852 | Ferreira, L. S. d. S., A. C. d. A. Butarelli, R. d. C. Sousa, M. A. d. Oliveira, P. H. G. Moraes, et al. | High-Quality Draft Genome Sequence of Pantanalinema sp. GBBB05, a Cyanobacterium From Cerrado Biome | Frontiers in Ecology and Evolution | 9 |
| 2021 | 10.1016/j.copbio.2020.09.010 | Fenster, J. A. and C. A. Eckert | High-Throughput Functional Genomics for Energy Production | Current Opinion in Biotechnology | 67 7–14 |
| 2021 | 10.1073/pnas.2018181118 | Schubert, M. G., D. B. Goodman, T. M. Wannier, D. Kaur, F. Farzadfard, T. K. Lu, S. L. Shipman and G. M. Church | High-throughput functional variant screens via in vivo production of single-stranded DNA | Proceedings of the National Academy of Sciences of the United States of America | 118(18) |
| 2021 | 10.1002/9783527815128.ch3 | Si, T., P. Xue, K. Choe, H. Zhao and J. V. Sweedler | High-Throughput Mass Spectrometry Complements Protein Engineering | Protein Engineering: Tools and Applications | 57–79 |
| 2021 | 10.1128/mSystems.00933-20 | Glanville, D. G., C. Mullineaux-Sanders, C. J. Corcoran, B. T. Burger, S. Imam, T. J. Donohue and A. T. Ulijasz | A High-Throughput Method for Identifying Novel Genes That Influence Metabolic Pathways Reveals New Iron and Heme Regulation in Pseudomonas aeruginosa | mSystems | 6(1) e00933-20 |
| 2021 | 10.1002/aps3.11410 | Folk, R. A., H. R. Kates, R. LaFrance, D. E. Soltis, P. S. Soltis and R. P. Guralnick | High-throughput methods for efficiently building massive phylogenies from natural history collections | Applications in Plant Sciences | 9(2) |
| 2021 | 10.1111/pbi.13581 | Li, G., S. Sretenovic, E. Eisenstein, G. Coleman and Y. Qi | Highly efficient C-to-T and A-to-G base editing in a Populus hybrid | Plant Biotechnology Journal | 19(6) 1086-1088 |
| 2021 | 10.1186/s12915-021-01124-y | Wang, Y., F. Baumdicker, P. Schweiger, S. Kuenzel and F. Staubach | Horizontal gene transfer-mediated bacterial strain variation affects host fitness in Drosophila | BMC Biology | 19(1) 187 |
| 2021 | 10.1146/annurev-micro-060621-043448 | Jacobson, T. B., M. M. Callaghan and D. Amador-Noguez | Hostile Takeover: How Viruses Reprogram Prokaryotic Metabolism | Annual Review of Microbiology | 75(1) 515–39 |
| 2021 | 10.1126/sciadv.abk0734 | Smith, L. M., J. N. Agar, J. Chamot-Rooke, P. O. Danis, Y. Ge, J. A. Loo, L. Paša-Toliæ, Y. O. Tsybin and N. L. Kelleher | The human proteoform project: Defining the human proteome | Science Advances | 7(46) |
| 2021 | 10.1002/btpr.3172 | Hillman, E. T., M. Li, C. A. Hooker, J. A. Englaender, I. Wheeldon and K. V. Solomon | Hydrolysis of lignocellulose by anaerobic fungi produces free sugars and organic acids for two-stage fine chemical production with Kluyveromyces marxianus | Biotechnology Progress | 37(5) |
| 2021 | 10.1016/j.biortech.2021.125817 | Singh, R., H. Liu, J. Shanklin and V. Singh | Hydrothermal pretreatment for valorization of genetically engineered bioenergy crop for lipid and cellulosic sugar recovery | Bioresource Technology | 341 125817 |
| 2021 | 10.1099/ijsem.0.004838 | Roldán, D. M., N. Kyrpides, T. Woyke, N. Shapiro, W. B. Whitman, S. Králová, I. Sedláček, H.-J. Busse and R. J. Menes | Hymenobacter caeli sp. nov., an airborne bacterium isolated from King George Island, Antarctica | International Journal of Systematic and Evolutionary Microbiology | 71(6) |
| 2021 | 10.1016/j.xplc.2021.100209 | Grzybowski, M., N. K. Wijewardane, A. Atefi, Y. Ge and J. C. Schnable | Hyperspectral reflectance-based phenotyping for quantitative genetics in crops: Progress and challenges | Plant Communications | 2(4) |
| 2021 | 10.1007/s00203-021-02566-2 | Saticioglu, I. B. | Flavobacterium erciyesense sp. nov., a putative non-pathogenic fish symbiont | Archives of Microbiology | 203(9) 5783–92 |
| 2021 | 10.1007/s12155-021-10244-w | Parrish, A. S., M.-S. Lee, T. B. Voigt and D. K. Lee | Miscanthus × giganteus Responses to Nitrogen Fertilization and Harvest Timing in Illinois, USA | BioEnergy Research | 14(4) 1126–35 |
| 2021 | 10.1111/1462-2920.15242 | Ray, P., Y. Guo, M. H. Chi, N. Krom, M. C. Saha and K. D. Craven | Serendipita bescii promotes winter wheat growth and modulates the host root transcriptome under phosphorus and nitrogen starvation | Environmental Microbiology | 23(4) 1876–88 |
| 2021 | 10.1094/mpmi-04-21-0084-r | Ray, P., Y. Guo, M.-H. Chi, N. Krom, C. Boschiero, B. Watson, D. Huhman, P. Zhao, V. R. Singan, E. A. Lindquist, J. Yan, C. Adam and K. D. Craven | Serendipita Fungi Modulate the Switchgrass Root Transcriptome to Circumvent Host Defenses and Establish a Symbiotic Relationship | Molecular Plant-Microbe Interactions | 34(10) 1128–42 |
| 2021 | 10.1016/j.plantsci.2020.110693 | Verhertbruggen, Y., A. Bouder, J. Vigouroux, C. Alvarado, A. Geairon, et al. | The TaCslA12 gene expressed in the wheat grain endosperm synthesizes wheat-like mannan when expressed in yeast and Arabidopsis | Plant Science | 302 110693 |
| 2021 | 10.1111/gcbb.12872 | Wang, J., Y. Li, C. M. Wai, G. Beuchat and L. Q. Chen | Identification and analysis of stem-specific promoters from sugarcane and energy cane for oil accumulation in their stems | GCB Bioenergy | 13(9) 1515-1527 |
| 2021 | 10.1002/biot.202100238 | Kuanyshev, N., A. Deewan, S. S. Jagtap, J. Liu, B. Selvam, L.-Q. Chen, D. Shukla, C. V. Rao and Y.-S. Jin | Identification and analysis of sugar transporters capable of co-transporting glucose and xylose simultaneously | Biotechnology Journal | 16(11) 2100238 |
| 2021 | 10.1186/s13068-021-01964-4 | Poudel, S., A. L. Cope, K. B. O’Dell, A. M. Guss, H. Seo, C. T. Trinh and R. L. Hettich | Identification and characterization of proteins of unknown function (PUFs) in Clostridium thermocellum DSM 1313 strains as potential genetic engineering targets | Biotechnology for Biofuels | 14(1) 116 |
| 2021 | 10.1371/journal.pone.0233249 | Linardić, M. and S. A. Braybrook | Identification and selection of optimal reference genes for qPCR-based gene expression analysis in Fucus distichus under various abiotic stresses | PLoS ONE | 16(44290) |
| 2021 | 10.1371/journal.pone.0248607 | Bible, A. N., M. Chang and J. L. Morrell-Falvey | Identification of a diguanylate cyclase expressed in the presence of plants and its application for discovering candidate gene products involved in plant colonization by Pantoea sp. YR343 | PLoS ONE | 16(7) e0248607 |
| 2021 | 10.1128/mSystems.00835-21 | Brisson, V., X. Mayali, B. Bowen, A. Golini, M. Thelen, R. K. Stuart and T. R. Northen | Identification of Effector Metabolites Using Exometabolite Profiling of Diverse Microalgae | mSystems | 6(6) e00835-21 |
| 2021 | 10.1016/j.ymben.2021.03.005 | Dong, C., J. C. Schultz, W. Liu, J. Lian, L. Huang, Z. Xu and H. Zhao | Identification of novel metabolic engineering targets for S-adenosyl-L-methionine production in Saccharomyces cerevisiae via genome-scale engineering | Metabolic Engineering | 66 319-327 |
| 2021 | 10.3389/fpls.2021.714164 | Simpson, J. P., J. Olson, B. Dilkes and C. Chapple | Identification of the Tyrosine- and Phenylalanine-Derived Soluble Metabolomes of Sorghum | Frontiers in Plant Science | 12 |
| 2021 | 10.3389/fpls.2021.650109 | Wang, H., J.-G. Chen and Y. Chang | Identification, Expression, and Interaction Analysis of Ovate Family Proteins in Populus trichocarpa Reveals a Role of PtOFP1 Regulating Drought Stress Response | Frontiers in Plant Science | 12 |
| 2021 | 10.1021/acssuschemeng.1c01706 | Yang, M., J. Dahlberg, N. R. Baral, D. Putnam and C. D. Scown | Identifying Forage Sorghum Ideotypes for Advanced Biorefineries | ACS Sustainable Chemistry & Engineering | 9(23) 7873–81 |
| 2021 | 10.1016/j.jrurstud.2021.04.019 | Pereira, C., A. Pereira, A. Budal, S. Dahal, J. Daniel-Wrabetz, J. Meshelemiah, J. Carvalho, M. J. Ramos, R. M. Carmo and R. P. Pires | ‘If you don't migrate, you're a nobody’: Migration recruitment networks and experiences of Nepalese farm workers in Portugal | Journal of Rural Studies | 88 500-509 |
| 2021 | 10.3390/plants10010158 | Pavicic, M., K. Overmyer, A. U. Rehman, P. Jones, D. Jacobson and K. Himanen | Image-Based Methods to Score Fungal Pathogen Symptom Progression and Severity in Excised Arabidopsis Leaves | Plants | 10(1) |
| 2021 | 10.1111/pbi.13510 | Rigoulot, S. B., T. M. Schimel, J. H. Lee, R. G. Sears, H. Brabazon, et al. | Imaging of multiple fluorescent proteins in canopies enables synthetic biology in plants | Plant Biotechnology Journal | 19(4) 830–43 |
| 2021 | 10.1093/nar/gkaa939 | Chen, I. A., K. Chu, K. Palaniappan, A. Ratner, J. Huang, et al. | The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities | Nucleic Acids Research | 49(D1) D751–63 |
| 2021 | 10.1038/s41545-021-00134-1 | Landreau, M., H. J. You, D. A. Stahl and M. K. H. Winkler | Immobilization of active ammonia-oxidizing archaea in hydrogel beads | npj Clean Water | 4(1) |
| 2021 | 10.1186/s12864-021-07397-5 | Wang, P., F. Meng, B. M. Moore and S.-H. Shiu | Impact of short-read sequencing on the misassembly of a plant genome | BMC Genomics | 22(1) 99 |
| 2021 | 10.1016/j.jbc.2021.100559 | Burley, S. K. | Impact of structural biologists and the Protein Data Bank on small-molecule drug discovery and development | Journal of Biological Chemistry | 296 |
| 2021 | 10.1107/S1600576720015526 | Tan, L., J. G. Elkins, B. H. Davison, E. G. Kelley and J. Nickels | Implementation of a self-consistent slab model of bilayer structure in the SasView suite | Journal of Applied Crystallography | 54 363–70 |
| 2021 | 10.1515/hf-2021-0015 | Ikeda, T., N. Takata, S. Sakamoto, S. Hu, Nuoendagula, S. Hishiyama, N. Mitsuda, W. Boerjan, J. Ralph and S. Kajita | Improved chemical pulping and saccharification of a natural mulberry mutant deficient in cinnamyl alcohol dehydrogenase | Holzforschung | 75(10) 968–77 |
| 2021 | 10.1021/acssynbio.0c00591 | Delorenzo, D. M., J. Diao, R. Carr, Y. Hu and T. S. Moon | An Improved CRISPR Interference Tool to Engineer Rhodococcus opacus | ACS Synthetic Biology | 10(4) 786-798 |
| 2021 | 10.1016/j.envsoft.2021.105111 | Jones, C. D., A. D. Reddy, J. Jeong, J. R. Williams, S. K. Hamilton, M. Z. Hussain, V. Bandaru and R. C. Izaurralde | Improved hydrological modeling with APEX and EPIC: Model description, testing, and assessment of bioenergy producing landscape scenarios | Environmental Modelling & Software | 143 105111 |
| 2021 | 10.1186/s12870-021-02903-z | Wang, Y., W. Dong, M. C. Saha, M. K. Udvardi and Y. Kang | Improved node culture methods for rapid vegetative propagation of switchgrass (Panicum virgatum L.) | BMC Plant Biology | 21(1) 128 |
| 2021 | 10.1093/bioinformatics/btab355 | Guo, Z., T. Wu, J. Liu, J. Hou and J. Cheng | Improving deep learning-based protein distance prediction in CASP14 | Bioinformatics | 37(19) 3190-3196 |
| 2021 | 10.1128/AEM.00808-21 | Lal, P. B., F. Wells, K. S. Myers, R. Banerjee, A. M. Guss and P. J. Kiley | Improving Mobilization of Foreign DNA into Zymomonas mobilis Strain ZM4 by Removal of Multiple Restriction Systems | Applied and Environmental Microbiology | 87(19) e00808-21 |
| 2021 | 10.1097/ebp.0000000000001228 | Brewington, J., J. Cloud, C. Johansson, D. Olson and J. Smiley | In patients with Clostridium difficile infection, is fecal microbiota transplant better than vancomycin for resolving diarrhea? | Evidence-Based Practice | 24(10) 39–40 |
| 2021 | 10.1093/femsec/fiab082 | Schreiber, L., N. Fortin, J. Tremblay, J. Wasserscheid, S. Sanschagrin, J. Mason, C. A. Wright, D. Spear, S. C. Johannessen, B. Robinson, T. King, K. Lee and C. W. Greer | In situ microcosms deployed at the coast of British Columbia (Canada) to study dilbit weathering and associated microbial communities under marine conditions | FEMS Microbiology Ecology | 97(7) |
| 2021 | 10.1021/accountsmr.1c00075 | Li, J., C. Chen, J. Y. Zhu, A. J. Ragauskas and L. Hu | In Situ Wood Delignification toward Sustainable Applications | Accounts of Materials Research | 2(8) 606–20 |
| 2021 | 10.1007/s00253-021-11213-1 | Jayakody, L. N. and Y.-S. Jin | In-depth understanding of molecular mechanisms of aldehyde toxicity to engineer robust Saccharomyces cerevisiae | Applied Microbiology and Biotechnology | 105(7) 2675–92 |
| 2021 | 10.1016/j.ymben.2021.04.011 | Lin, C.-Y., K. M. Vuu, B. Amer, P. M. Shih, E. E. K. Baidoo, H. V. Scheller and A. Eudes | In-planta production of the biodegradable polyester precursor 2-pyrone-4,6-dicarboxylic acid (PDC): Stacking reduced biomass recalcitrance with value-added co-product | Metabolic Engineering | 66 148–56 |
| 2021 | 10.1039/D1GC03022A | Ando, D., F. Lu, H. Kim, A. Eugene, Y. Tobimatsu, R. Vanholme, T. J. Elder, W. Boerjan and J. Ralph | Incorporation of catechyl monomers into lignins: lignification from the non-phenolic end via Diels–Alder cycloaddition? | Green Chemistry | 23(22) 8995–9013 |
| 2021 | 10.1002/ece3.8335 | Singleton, A. L., M. H. Liu, S. Votzke, A. Yammine and J. P. Gibert | Increasing temperature weakens the positive effect of genetic diversity on population growth | Ecology and Evolution | 11(24) 17810-17816 |
| 2021 | 10.3389/fpls.2021.755576 | Zhao, Y., X.-H. Yu and C.-J. Liu | The Inducible Accumulation of Cell Wall-Bound p-Hydroxybenzoates Is Involved in the Regulation of Gravitropic Response of Poplar | Frontiers in Plant Science | 12 |
| 2021 | 10.3390/cells10092217 | Moseley, R. C., F. Motta, G. A. Tuskan, S. B. Haase and X. Yang | Inference of Gene Regulatory Network Uncovers the Linkage between Circadian Clock and Crassulacean Acid Metabolism in Kalanchoë fedtschenkoi | Cells | 10(9) 2217 |
| 2021 | 10.1111/1462-2920.15785 | Cha, G., K. A. Meinhardt, L. H. Orellana, J. K. Hatt, M. W. Pannu, D. A. Stahl and K. T. Konstantinidis | The influence of alfalfa-switchgrass intercropping on microbial community structure and function | Environmental Microbiology | 23(11) 6828-6843 |
| 2021 | 10.1111/jpy.13132 | Chorazyczewski, A. M., I.-S. Huang, H. Abdulla, X. Mayali and P. V. Zimba | The Influence of Bacteria on the Growth, Lipid Production, and Extracellular Metabolite Accumulation by Phaeodactylum tricornutum (Bacillariophyceae) | Journal of Phycology | 57(3) 931–40 |
| 2021 | 10.1016/j.cropro.2021.105576 | Ribeiro, V. H. V., L. S. G. Maia, N. J. Arneson, M. C. Oliveira, H. W. Read, J. M. Ané, J. B. dos Santos and R. Werle | Influence of PRE-emergence herbicides on soybean development, root nodulation and symbiotic nitrogen fixation | Crop Protection | 144 |
| 2021 | 10.1007/s10533-020-00742-y | Ostrom, P. H., S. DeCamp, H. Gandhi, J. Haslun and N. E. Ostrom | The influence of tillage and fertilizer on the flux and source of nitrous oxide with reference to atmospheric variation using laser spectroscopy | Biogeochemistry | 152(2–3) 143–59 |
| 2021 | 10.1038/s41598-021-99994-3 | Cuevas, H. E., C. M. Cruet-Burgos, L. K. Prom, J. E. Knoll, L. R. Stutts and W. Vermerris | The inheritance of anthracnose (Colletotrichum sublineola) resistance in sorghum differential lines QL3 and IS18760 | Scientific Reports | 11(1) |
| 2021 | 10.1038/s42003-021-02057-6 | Kiefer, J. S. T., S. Batsukh, E. Bauer, B. Hirota, B. Weiss, J. C. Wierz, T. Fukatsu, M. Kaltenpoth and T. Engl | Inhibition of a nutritional endosymbiont by glyphosate abolishes mutualistic benefit on cuticle synthesis in Oryzaephilus surinamensis | Communications Biology | 4(1) 554 |
| 2021 | 10.3389/fmicb.2021.628308 | Fenton, C. A., Q. Tang, D. G. Olson, M. I. Maloney, J. L. Bose, L. R. Lynd and A. W. Fenton | Inhibition of Pyruvate Kinase From Thermoanaerobacterium saccharolyticum by IMP Is Independent of the Extra-C Domain | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.jbc.2021.100385 | Liberato, M. V., E. Teixeira Prates, T. A. Gonçalves, A. Bernardes, N. Vilela, J. Fattori, G. C. Ematsu, M. Chinaglia, E. R. Machi Gomes, A. C. Migliorini Figueira, A. Damasio, I. Polikarpov, M. S. Skaf and F. M. Squina | Insights into the dual cleavage activity of the GH16 laminarinase enzyme class on β-1,3 and β-1,4 glycosidic bonds | Journal of Biological Chemistry | 296 100385 |
| 2021 | 10.1089/ind.2021.0020 | Singh, R. and V. Singh | Integrated Biorefinery for Valorization of Engineered Bioenergy Crops—A Review | Industrial Biotechnology | 17(5) 271–82 |
| 2021 | 10.1146/annurev-bioeng-082120-022836 | Leggieri, P. A., Y. Liu, M. Hayes, B. Connors, S. Seppälä, M. A. O'Malley and O. S. Venturelli | Integrating Systems and Synthetic Biology to Understand and Engineer Microbiomes | Annual Review of Biomedical Engineering | 23(1) 169–201 |
| 2021 | 10.1007/s00253-021-11549-8 | Jagtap, S. S., A. Deewan, J.-J. Liu, H. E. Walukiewicz, E. J. Yun, Y.-S. Jin and C. V. Rao | Integrating transcriptomic and metabolomic analysis of the oleaginous yeast Rhodosporidium toruloides IFO0880 during growth under different carbon sources | Applied Microbiology and Biotechnology | 105(19) 7411–25 |
| 2021 | 10.1146/annurev-virology-010421-053015 | Sommers, P., A. Chatterjee, A. Varsani and G. Trubl | Integrating Viral Metagenomics into an Ecological Framework | Annual Review of Virology | 8(1) 133–58 |
| 2021 | 10.1039/D1GC01727F | Huang, K., M. Mohan, A. George, B. A. Simmons, Y. Xu and J. M. Gladden | Integration of acetic acid catalysis with one-pot protic ionic liquid configuration to achieve high-efficient biorefinery of poplar biomass | Green Chemistry | 23(16) 6036–49 |
| 2021 | 10.1038/s41438-021-00606-y | Hyden, B., C. H. Carlson, F. E. Gouker, J. Schmutz, K. Barry, A. Lipzen, A. Sharma, L. Sandor, G. A. Tuskan, G. Feng, M. S. Olson, S. P. DiFazio and L. B. Smart | Integrative genomics reveals paths to sex dimorphism in Salix purpurea L | Horticulture Research | 8 |
| 2021 | 10.1029/2021JG006392 | Liang, J., G. Wang, S. Singh, S. Jagadamma, L. Gu, C. W. Schadt, J. D. Wood, P. J. Hanson and M. A. Mayes | Intensified Soil Moisture Extremes Decrease Soil Organic Carbon Decomposition: A Mechanistic Modeling Analysis | Journal of Geophysical Research: Biogeosciences | 126(8) |
| 2021 | 10.1093/jxb/erab437 | Griffiths, M., X. Wang, K. Dhakal, H. Guo, A. Seethepalli, Y. Kang and L. M. York | Interactions among rooting traits for deep water and nitrogen uptake in upland and lowland ecotypes of switchgrass (Panicum virgatum L.) | Journal of Experimental Botany | 73(3) 967–79 |
| 2021 | 10.1002/adma.202007758 | Li, J., S. P. Wang, G. Zong, E. Kim, C.-Y. Tsao, E. VanArsdale, L.-X. Wang, W. E. Bentley and G. F. Payne | Interactive Materials for Bidirectional Redox-Based Communication | Advanced Materials | 33(18) 2007758 |
| 2021 | 10.1038/s41467-021-27548-2 | Nam, H. I., Z. Shahzad, Y. Dorone, S. Clowez, K. Zhao, N. Bouain, K. S. Lay-Pruitt, H. Cho, S. Y. Rhee and H. Rouached | Interdependent iron and phosphorus availability controls photosynthesis through retrograde signaling | Nature Communications | 12(1) |
| 2021 | 10.1021/jasms.1c00113 | Zenaidee, M. A., B. Wei, C. Lantz, H. T. Wu, T. R. Lambeth, J. K. Diedrich, R. R. Ogorzalek Loo, R. R. Julian and J. A. Loo | Internal Fragments Generated from Different Top-Down Mass Spectrometry Fragmentation Methods Extend Protein Sequence Coverage | Journal of the American Society for Mass Spectrometry | 32(7) 1752-1758 |
| 2021 | 10.1094/pbiomes-12-19-0069-fi | Ulbrich, T. C., M. L. Friesen, S. S. Roley, L. K. Tiemann and S. E. Evans | Intraspecific Variability in Root Traits and Edaphic Conditions Influence Soil Microbiomes Across 12 Switchgrass Cultivars | Phytobiomes Journal | 5(1) 108–20 |
| 2021 | 10.1039/9781839161056-00102 | Loo, J. A., A. K. Goring, C. Lantz, B. Wei and M. A. Zenaidee | Investigating 3D Structures of Native Proteins and Complexes through Electron-based Dissociation | New Developments in Mass Spectrometry | 2021-January 102-133 |
| 2021 | 10.1128/mSystems.00173-21 | Lawson, C. E., A. B. Mundinger, H. Koch, T. B. Jacobson, C. A. Weathersby, M. S. M. Jetten, M. Pabst, D. Amador-Noguez, D. R. Noguera, K. McMahon, S. Lücker, S. J. Hallam and B. L. Mellbye | Investigating the Chemolithoautotrophic and Formate Metabolism of Nitrospira moscoviensis by Constraint-Based Metabolic Modeling and 13C-Tracer Analysis | mSystems | 6(4) e00173-21 |
| 2021 | 10.1007/s00253-021-11394-9 | Liu, J.-J., W. Woodruff, A. Deewan, S. S. Jagtap, E. J. Yun, H. E. Walukiewicz, Y.-S. Jin and C. V. Rao | Investigating the role of the transcriptional regulator Ure2 on the metabolism of Saccharomyces cerevisiae: a multi-omics approach | Applied Microbiology and Biotechnology | 105(12) 5103–12 |
| 2021 | 10.1016/j.watres.2021.117119 | Nguyen Quoc, B., M. Armenta, J. A. Carter, R. Bucher, P. Sukapanpotharam, S. J. Bryson, D. A. Stahl, H. D. Stensel and M.-K. H. Winkler | An investigation into the optimal granular sludge size for simultaneous nitrogen and phosphate removal | Water Research | 198 117119 |
| 2021 | 10.1016/j.indcrop.2021.113924 | Pérez-Pimienta, J. A., R. M. García-López, H. O. Méndez-Acosta, V. González-Álvarez, B. A. Simmons, J. A. Méndoza-Pérez and J. Arreola-Vargas | Ionic liquid-water mixtures enhance pretreatment and anaerobic digestion of agave bagasse | Industrial Crops and Products | 171 113924 |
| 2021 | 10.1186/s13068-021-01891-4 | Lin, C.-Y., B. S. Donohoe, Y. J. Bomble, H. Yang, M. Yunes, N. S. Sarai, T. Shollenberger, S. R. Decker, X. Chen, M. C. McCann, M. P. Tucker, H. Wei and M. E. Himmel | Iron incorporation both intra- and extra-cellularly improves the yield and saccharification of switchgrass (Panicum virgatum L.) biomass | Biotechnology for Biofuels | 14(1) 55 |
| 2021 | 10.1021/acs.orglett.0c03966 | Nelson, H. M., J. C. Siu, A. Saha, D. Cascio, S. N. MacMillan, S. B. Wu, C. Lu, J. A. Rodríguez, K. N. Houk and S. Lin | Isolation and X-ray Crystal Structure of an Electrogenerated TEMPO-N3Charge-Transfer Complex | Organic Letters | 23(2) 454-458 |
| 2021 | 10.3791/61707 | Zhou, M., S. H. Abdali, D. Dilworth, L. Liu, B. Cole, et al. | Isolation of histone from sorghum leaf tissue for top down mass spectrometry profiling of potential epigenetic markers | Journal of Visualized Experiments | 2021(169) |
| 2021 | 10.1099/ijsem.0.004801 | Chen, S., S. Zheng, D. Zhang, B. Hetharua, J. Gui, X. An and H. Xu | Isolation of Thalassobius mangrovi sp. nov., a novel bacterium in the family Rhodobacteraceae, from marine mangrove sediment | International Journal of Systematic and Evolutionary Microbiology | 71(5) |
| 2021 | 10.1038/s43705-021-00083-3 | Bolduc, B., O. Zablocki, J. Guo, A. A. Zayed, D. Vik, P. Dehal, E. M. Wood-Charlson, A. Arkin, N. Merchant, J. Pett-Ridge, S. Roux, M. Vaughn and M. B. Sullivan | iVirus 2.0: Cyberinfrastructure-supported tools and data to power DNA virus ecology | ISME Communications | 1(1) 77 |
| 2021 | 10.1126/sciadv.abe4724 | Stebbing, J., G. S. Nievas, M. Falcone, S. Youhanna, P. Richardson, et al. | JAK inhibition reduces SARS-CoV-2 liver infectivity and modulates inflammatory responses to reduce morbidity and mortality | Science Advances | 7(1) |
| 2021 | 10.1016/j.csbj.2021.10.029 | Garcia, B. J., R. Simha, M. Garvin, A. Furches, P. Jones, J. G. F. M. Gazolla, P. D. Hyatt, C. W. Schadt, D. Pelletier and D. Jacobson | A k-mer based approach for classifying viruses without taxonomy identifies viral associations in human autism and plant microbiomes | Computational and Structural Biotechnology Journal | 19 5911–9 |
| 2021 | 10.34133/2021/9805489 | Guo, X., Y. Qiu, D. Nettleton, C. T. Yeh, Z. Zheng, S. Hey and P. S. Schnable | KAT4IA: K-means assisted training for image analysis of field-grown plant phenotypes | Plant Phenomics | 2021 |
| 2021 | 10.1016/j.cpb.2021.100229 | Kumari, S., V. Kumar, K. Beilsmith, S. M. D. Seaver, S. Canon, et al. | A KBase case study on genome-wide transcriptomics and plant primary metabolism in response to drought stress in Sorghum | Current Plant Biology | 28 100229 |
| 2021 | 10.1007/s10532-021-09932-3 | Ma, Y., T. J. Donohue and D. R. Noguera | Kinetic modeling of anaerobic degradation of plant-derived aromatic mixtures by Rhodopseudomonas palustris | Biodegradation | 32(2) 179–92 |
| 2021 | 10.1016/j.copbio.2021.06.024 | Zuniga, C., J. D. Tibocha-Bonilla and M. J. Betenbaugh | Kinetic, metabolic, and statistical analytics: addressing metabolic transport limitations among organelles and microbial communities | Current Opinion in Biotechnology | 71 91-97 |
| 2021 | 10.1128/AEM.03017-20 | Yayo, J., T. Kuil, D. G. Olson, L. R. Lynd, E. K. Holwerda and A. J. A. v. Maris | Laboratory Evolution and Reverse Engineering of Clostridium thermocellum for Growth on Glucose and Fructose | Applied and Environmental Microbiology | 87(9) e03017-20 |
| 2021 | 10.5194/essd-13-5689-2021 | Xie, Y., H. K. Gibbs and T. J. Lark | Landsat-based Irrigation Dataset (LANID): 30 m resolution maps of irrigation distribution, frequency, and change for the US, 1997–2017 | Earth System Science Data | 13(12) 5689–710 |
| 2021 | 10.3390/ijms22062845 | Burjoski, V. and A. S. N. Reddy | The landscape of rna-protein interactions in plants: Approaches and current status | International Journal of Molecular Sciences | 22(6) 45317 |
| 2021 | 10.1093/plphys/kiaa071 | Young, D. Y. and Y. Shachar-Hill | Large fluxes of fatty acids from membranes to triacylglycerol and back during N-deprivation and recovery in Chlamydomonas | Plant Physiology | 185(3) 796–814 |
| 2021 | 10.1214/20-AOAS1431 | Jernigan, R., K. Jia, Z. Ren and W. Zhou | Large-scale multiple inference of collective dependence with applications to protein function | Annals of Applied Statistics | 15(2) 902-924 |
| 2021 | 10.1073/pnas.2022241118 | Epihov, D. Z., K. Saltonstall, S. A. Batterman, L. O. Hedin, J. S. Hall, M. van Breugel, J. R. Leake and D. J. Beerling | Legume–microbiome interactions unlock mineral nutrients in regrowing tropical forests | Proceedings of the National Academy of Sciences | 118(11) e2022241118 |
| 2021 | 10.1016/j.ymben.2021.10.007 | Pang, B., J. Li, C. B. Eiben, E. Oksen, C. Barcelos, R. Chen, E. Englund, E. Sundstrom and J. D. Keasling | Lepidopteran mevalonate pathway optimization in Escherichia coli efficiently produces isoprenol analogs for next-generation biofuels | Metabolic Engineering | 68 210–9 |
| 2021 | 10.1086/713026 | Khanna, M., D. Rajagopal and D. Zilberman | Lessons Learned from US Experience with Biofuels: Comparing the Hype with the Evidence | Review of Environmental Economics and Policy | 15(1) 67–86 |
| 2021 | 10.1111/gcb.15795 | Jian, J., B. Bond-Lamberty, D. Hao, B. N. Sulman, K. F. Patel, J. Zheng, K. Dorheim, S. C. Pennington, M. D. Hartman, D. Warner and W. R. Wieder | Leveraging observed soil heterotrophic respiration fluxes as a novel constraint on global-scale models | Global Change Biology | 27(20) 5392-5403 |
| 2021 | 10.1016/j.apenergy.2021.117098 | Mousavi-Avval, S. H. and A. Shah | Life cycle energy and environmental impacts of hydroprocessed renewable jet fuel production from pennycress | Applied Energy | 297 |
| 2021 | 10.1002/wsbm.1500 | Kichuk, T. C., C. Carrasco-López and J. L. Avalos | Lights up on organelles: Optogenetic tools to control subcellular structure and organization | WIREs Mechanisms of Disease | 13(1) |
| 2021 | 10.1002/9781119545958.ch7 | del Río, J. C., J. Rencoret, A. Gutiérrez, W. Lan, H. Kim and J. Ralph | Lignin Monomers Derived from the Flavonoid and Hydroxystilbene Biosynthetic Pathways | Recent Advances in Polyphenol Research | 177–206 |
| 2021 | 10.1038/s41396-020-00782-0 | St James, A. R., J. B. Yavitt, S. H. Zinder and R. E. Richardson | Linking microbial Sphagnum degradation and acetate mineralization in acidic peat bogs: from global insights to a genome-centric case study | The ISME Journal | 15(1) 293–303 |
| 2021 | 10.3791/62852 | Dinglasan, J. L. N., D. T. Reeves, R. L. Hettich and M. J. Doktycz | Liquid Chromatography Coupled to Refractive Index or Mass Spectrometric Detection for Metabolite Profiling in Lysate-based Cell-free Systems | JoVE | (175) e62852 |
| 2021 | 10.1039/D0GC03664A | Jiang, H. J., S. Miao, S. Imberti, B. A. Simmons, R. Atkin and G. G. Warr | Liquid nanostructure of choline lysinate with water and a model lignin residue | Green Chemistry | 23(2) 856–66 |
| 2021 | 10.1021/acssuschemeng.0c08829 | Brunner, M., S. Imberti, B. A. Simmons, G. G. Warr and R. Atkin | Liquid Nanostructure of Cholinium Argininate Biomass Solvents | ACS Sustainable Chemistry & Engineering | 9(7) 2880–90 |
| 2021 | 10.1016/j.xpro.2021.101025 | Dorone, Y., S. Boeynaems and S. Y. Rhee | Live imaging Arabidopsis thaliana embryos under different hydration conditions | STAR Protocols | 2(4) |
| 2021 | 10.1016/j.cub.2021.04.077 | Shmakova, L., S. Malavin, N. Iakovenko, T. Vishnivetskaya, D. Shain, M. Plewka and E. Rivkina | A living bdelloid rotifer from 24,000-year-old Arctic permafrost | Current Biology | 31(11) R712-R713 |
| 2021 | 10.1016/j.jwpe.2021.102137 | Shen, X.-y., Y.-y. Zhuge, Y.-d. Liu, J. P. Shapleigh and W. Li | Long-term effects of acetylene on denitrifying N2O production: Biomass performance and microbial community | Journal of Water Process Engineering | 42 102137 |
| 2021 | 10.1016/j.soilbio.2021.108349 | Li, B.-B., S. S. Roley, D. S. Duncan, J. Guo, J. F. Quensen, H.-Q. Yu and J. M. Tiedje | Long-term excess nitrogen fertilizer increases sensitivity of soil microbial community to seasonal change revealed by ecological network and metagenome analyses | Soil Biology and Biochemistry | 160 108349 |
| 2021 | 10.1093/jpe/rtab018 | Lei, C., M. Abraha, J. Chen and Y.-J. Su | Long-term variability of root production in bioenergy crops from ingrowth core measurements | Journal of Plant Ecology | 14(5) 757–70 |
| 2021 | 10.1038/s41592-021-01100-y | Biswas, S., G. Khimulya, E. C. Alley, K. M. Esvelt and G. M. Church | Low-N protein engineering with data-efficient deep learning | Nature Methods | 18(4) 389-396 |
| 2021 | 10.1016/j.mec.2021.e00162 | Garcia, D. C., J. L. N. Dinglasan, H. Shrestha, P. E. Abraham, R. L. Hettich and M. J. Doktycz | A lysate proteome engineering strategy for enhancing cell-free metabolite production | Metabolic Engineering Communications | 12 e00162 |
| 2021 | 10.1088/1748-9326/abd2f3 | Saha, D., B. Basso and G. P. Robertson | Machine learning improves predictions of agricultural nitrous oxide (N2O) emissions from intensively managed cropping systems | Environmental Research Letters | 16(2) |
| 2021 | 10.3390/ijms22084107 | Nag, A., A. Gerritsen, C. Doeppke and A. E. Harman-Ware | Machine Learning-Based Classification of Lignocellulosic Biomass from Pyrolysis-Molecular Beam Mass Spectrometry Data | International Journal of Molecular Sciences | 22(8) 4107 |
| 2021 | 10.1021/jasms.1c00013 | Choe, K., P. Xue, H. Zhao and J. V. Sweedler | macroMS: Image-Guided Analysis of Random Objects by Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 32(5) 1180–8 |
| 2021 | 10.1016/j.csbj.2021.01.004 | Desmet, S., Y. Saeys, K. Verstaen, R. Dauwe, H. Kim, C. Niculaes, A. Fukushima, G. Goeminne, R. Vanholme, J. Ralph, W. Boerjan and K. Morreel | Maize specialized metabolome networks reveal organ-preferential mixed glycosides | Computational and Structural Biotechnology Journal | 19 1127–44 |
| 2021 | 10.1371/journal.pone.0240390 | Dong, H., L. V. Clark, X. Jin, K. Anzoua, L. Bagmet, et al. | Managing flowering time in Miscanthus and sugarcane to facilitate intra- and intergeneric crosses | PLoS One | 16(1) e0240390 |
| 2021 | 10.1094/pbiomes-12-20-0090-e | Zhalnina, K., C. Hawkes, A. Shade, M. K. Firestone and J. Pett-Ridge | Managing Plant Microbiomes for Sustainable Biofuel Production | Phytobiomes Journal | 5(1) 3–13 |
| 2021 | 10.1201/9781003243090 | Kim, Y. J., J. Y. Jung and U. Mishra | Managing Soil Organic Carbon for Climate Change Mitigation and Food Security | Soil Organic Carbon and Feeding the Future | 25–46 |
| 2021 | 10.1016/j.rse.2021.112445 | Xie, Y. and T. J. Lark | Mapping annual irrigation from Landsat imagery and environmental variables across the conterminous United States | Remote Sensing of Environment | 260 112445 |
| 2021 | 10.7554/eLife.63775 | Huss, P., A. Meger, M. Leander, K. Nishikawa and S. Raman | Mapping the functional landscape of the receptor binding domain of T7 bacteriophage by deep mutational scanning | eLife | 10 e63775 |
| 2021 | 10.1111/ejss.13005 | Guber, A., T. Kutlu, M. Rivers and A. Kravchenko | Mass-balance approach to quantify water distribution in soils based on X-ray computed tomography images | European Journal of Soil Science | 72(2) 578–92 |
| 2021 | 10.1099/ijsem.0.004765 | Peta, V., R. Raths and H. Bücking | Massilia horti sp. nov. and Noviherbaspirillum arenae sp. nov., two novel soil bacteria of the Oxalobacteraceae | International Journal of Systematic and Evolutionary Microbiology | 71(5) |
| 2021 | 10.3389/fmicb.2021.720644 | Öztürk, Y., C. E. Blaby-Haas, N. Daum, A. Andrei, J. Rauch, F. Daldal and H.-G. Koch | Maturation of Rhodobacter capsulatus Multicopper Oxidase CutO Depends on the CopA Copper Efflux Pathway and Requires the cutF Product | Frontiers in Microbiology | 12 |
| 2021 | 10.1108/BEPAM-03-2020-0053 | Tariq, H., C. Pathirage and T. Fernando | Measuring community disaster resilience using Q-methods: a physical resilience perspective | Built Environment Project and Asset Management | 11(4) 722-737 |
| 2021 | 10.3389/fmicb.2021.642422 | Lui, L. M., E. L.-W. Majumder, H. J. Smith, H. K. Carlson, F. von Netzer, M. W. Fields, D. A. Stahl, J. Zhou, T. C. Hazen, N. S. Baliga, P. D. Adams and A. P. Arkin | Mechanism Across Scales: A Holistic Modeling Framework Integrating Laboratory and Field Studies for Microbial Ecology | Frontiers in Microbiology | 12 |
| 2021 | 10.1111/tpj.15273 | Yu, L., C. Zhou, J. Fan, J. Shanklin and C. Xu | Mechanisms and functions of membrane lipid remodeling in plants | The Plant Journal | 107(1) 37–53 |
| 2021 | 10.1021/acschembio.1c00267 | Zhao, Z., E. E. Ozcan, E. VanArsdale, J. Li, E. Kim, A. D. Sandler, D. L. Kelly, W. E. Bentley and G. F. Payne | Mediated Electrochemical Probing: A Systems-Level Tool for Redox Biology | ACS Chemical Biology | 16(7) 1099–110 |
| 2021 | 10.1016/j.copbio.2021.07.017 | Motabar, D., J. Li, G. F. Payne and W. E. Bentley | Mediated electrochemistry for redox-based biological targeting: entangling sensing and actuation for maximizing information transfer | Current Opinion in Biotechnology | 71 137–44 |
| 2021 | 10.3390/ijms22095020 | Guo, Q., L. Liu, W. C. Yim, J. C. Cushman and B. J. Barkla | Membrane profiling by free flow electrophoresis and swath-ms to characterize subcellular compartment proteomes in Mesembryanthemum crystallinum | International Journal of Molecular Sciences | 22(9) |
| 2021 | 10.1007/s00248-020-01638-y | Hutchinson, M. I., T. A. S. Bell, L. V. Gallegos-Graves, J. Dunbar and M. Albright | Merging Fungal and Bacterial Community Profiles via an Internal Control | Microbial Ecology | 82(2) 484–97 |
| 2021 | 10.1093/GENETICS/IYAB087 | Mural, R. V., M. Grzybowski, C. Miao, A. Damke, S. Sapkota, R. E. Boyles, M. G. S. Fernandez, P. S. Schnable, B. Sigmon, S. Kresovich and J. C. Schnable | Meta-analysis identifies pleiotropic loci controlling phenotypic trade-offs in sorghum | Genetics | 218(3) |
| 2021 | 10.1038/s41467-021-22408-5 | Dove, N. C., M. S. Torn, S. C. Hart and N. Taş | Metabolic capabilities mute positive response to direct and indirect impacts of warming throughout the soil profile | Nature Communications | 12(1) 2089 |
| 2021 | 10.1126/sciadv.abh2433 | Schulte, C. C. M., K. Borah, R. M. Wheatley, J. J. Terpolilli, G. Saalbach, N. Crang, D. H. de Groot, R. G. Ratcliffe, N. J. Kruger, A. Papachristodoulou and P. S. Poole | Metabolic control of nitrogen fixation in rhizobium-legume symbioses | Science Advances | 7(31) eabh2433 |
| 2021 | 10.1128/mSystems.00474-21 | McDaniel, E. A., F. Moya-Flores, N. K. Beach, P. Y. Camejo, B. O. Oyserman, M. Kizaric, E. H. Khor, D. R. Noguera and K. D. McMahon | Metabolic Differentiation of Co-occurring Accumulibacter Clades Revealed through Genome-Resolved Metatranscriptomics | mSystems | 6(4) e00474-21 |
| 2021 | 10.1007/s00253-021-11436-2 | Lee, J. W., Y.-G. Lee, Y.-S. Jin and C. V. Rao | Metabolic engineering of non-pathogenic microorganisms for 2,3-butanediol production | Applied Microbiology and Biotechnology | 105(14) 5751–67 |
| 2021 | 10.1186/s13068-021-02039-0 | Jagtap, S. S., A. A. Bedekar, V. Singh, Y.-S. Jin and C. V. Rao | Metabolic engineering of the oleaginous yeast Yarrowia lipolytica PO1f for production of erythritol from glycerol | Biotechnology for Biofuels | 14(1) 188 |
| 2021 | 10.1038/s41596-021-00593-3 | Dukovski, I., D. Bajić, J. M. Chacón, M. Quintin, J. C. C. Vila, S. Sulheim, A. R. Pacheco, D. B. Bernstein, W. J. Riehl, K. S. Korolev, A. Sanchez, W. R. Harcombe and D. Segrè | A metabolic modeling platform for the computation of microbial ecosystems in time and space (COMETS) | Nature Protocols | 16(11) 5030–82 |
| 2021 | 10.1071/FP20332 | Mayer, J. A., B. W. M. Wone, D. C. Alexander, L. Guo, J. A. Ryals and J. C. Cushman | Metabolic profiling of epidermal and mesophyll tissues under water-deficit stress in Opuntia ficus-indica reveals stress-adaptive metabolic responses | Functional Plant Biology | 48(7) 717-731 |
| 2021 | 10.1128/mSystems.00987-21 | Martien, J. I., E. A. Trujillo, T. B. Jacobson, M. Tatli, A. S. Hebert, D. M. Stevenson, J. J. Coon and D. Amador-Noguez | Metabolic Remodeling during Nitrogen Fixation in Zymomonas mobilis | mSystems | 6(6) e00987-21 |
| 2021 | 10.1093/plcell/koaa046 | Simpson, J. P., C. Wunderlich, X. Li, E. Svedin, B. Dilkes and C. Chapple | Metabolic source isotopic pair labeling and genome-wide association are complementary tools for the identification of metabolite-gene associations in plants | Plant Cell | 33(3) 492-510 |
| 2021 | 10.1016/j.ymben.2021.02.005 | Notonier, S., A. Z. Werner, E. Kuatsjah, L. Dumalo, P. E. Abraham, et al. | Metabolism of syringyl lignin-derived compounds in Pseudomonas putida enables convergent production of 2-pyrone-4,6-dicarboxylic acid | Metabolic Engineering | 65 111–22 |
| 2021 | 10.1038/s41592-021-01303-3 | Chen, L., W. Lu, L. Wang, X. Xing, Z. Chen, et al. | Metabolite discovery through global annotation of untargeted metabolomics data | Nature Methods | 18(11) 1377–85 |
| 2021 | 10.1094/phyto-02-21-0053-r | Lenz, R. R., K. B. Louie, K. L. Søndreli, S. S. Galanie, J.-G. Chen, W. Muchero, B. P. Bowen, T. R. Northen and J. M. LeBoldus | Metabolomic Patterns of Septoria Canker Resistant and Susceptible Populus trichocarpa Genotypes 24 Hours Postinoculation | Phytopathology | 111(11) 2052–66 |
| 2021 | 10.1128/mSystems.00201-21 | Liu, J., P. Villanueva, J. Choi, S. Gunturu, Y. Ouyang, L. K. Tiemann, J. R. Cole, K. R. Glanville, S. J. Hall, M. D. McDaniel, J. Lee and A. Howe | MetaFunPrimer: an Environment-Specific, High-Throughput Primer Design Tool for Improved Quantification of Target Genes | mSystems | 6(5) e00201-21 |
| 2021 | 10.1128/MRA.00954-20 | Babalola, O. O., R. R. Molefe and A. E. Amoo | Metagenome Assembly and Metagenome-Assembled Genome Sequences from the Rhizosphere of Maize Plants in Mafikeng, South Africa | Microbiology Resource Announcements | 10(8) e00954-20 |
| 2021 | 10.1093/g3journal/jkab210 | Dell’Anno, F., L. J. van Zyl, M. Trindade, C. Brunet, A. Dell’Anno, A. Ianora and C. Sansone | Metagenome-assembled genome (MAG) of Oceancaulis alexandrii NP7 isolated from Mediterranean Sea polluted marine sediments and its bioremediation potential | G3 Genes|Genomes|Genetics | 11(9) |
| 2021 | 10.1128/MRA.01380-20 | Martin, R. M., M. Kausch, K. Yap, J. D. Wehr, G. L. Boyer and S. W. Wilhelm | Metagenome-Assembled Genome Sequences of Raphidiopsis raciborskii and Planktothrix agardhii from a Cyanobacterial Bloom in Kissena Lake, New York, USA | Microbiology Resource Announcements | 10(2) e01380-20 |
| 2021 | 10.1128/MRA.00664-21 | Martinez, J. N., A. Nishihara and S. Haruta | Metagenome-Assembled Genome Sequences Recovered from Epilithic River Biofilm in the Tama River, Japan | Microbiology Resource Announcements | 10(38) e00664-21 |
| 2021 | 10.1128/MRA.01411-20 | Ateba, T. P., K. A. Alayande and M. Mwanza | Metagenomes and Assembled Genomes from Diarrhea-Affected Cattle (Bos taurus) | Microbiology Resource Announcements | 10(7) e01411-20 |
| 2021 | 10.1007/978-981-16-3595-3_6 | Chellappan, M. and M. T. Ranjith | Metagenomic Approaches for Insect Symbionts | Microbial Approaches for Insect Pest Management | 271–313 |
| 2021 | 10.1128/AEM.00546-21 | Karthikeyan, S., L. H. Orellana, E. R. Johnston, J. K. Hatt, F. E. Löffler, H. L. Ayala-del-Río, G. González and K. T. Konstantinidis | Metagenomic Characterization of Soil Microbial Communities in the Luquillo Experimental Forest (Puerto Rico) and Implications for Nitrogen Cycling | Applied and Environmental Microbiology | 87(12) |
| 2021 | 10.1016/j.copbio.2021.01.019 | Taş, N., A. E. E. de Jong, Y. Li, G. Trubl, Y. Xue and N. C. Dove | Metagenomic tools in microbial ecology research | Current Opinion in Biotechnology | 67 184–91 |
| 2021 | 10.1016/j.watres.2021.117505 | Li, W., J. Gao, J.-l. Zhuang, G.-j. Yao, X. Zhang, Y.-d. Liu, Q.-k. Liu, J. P. Shapleigh and L. Ma | Metagenomics and metatranscriptomics uncover the microbial community associated with high S0 production in a denitrifying desulfurization granular sludge reactor | Water Research | 203 117505 |
| 2021 | 10.1016/bs.mie.2021.01.046 | Johnson, Z. J., D. D. Krutkin, P. Bohutskyi and M. G. Kalyuzhnaya | Metals and methylotrophy: Via global gene expression studies | Methods in Enzymology | 650 185-213 |
| 2021 | 10.1186/s12866-021-02370-4 | Shrestha, H. K., M. R. Appidi, M. I. Villalobos Solis, J. Wang, D. L. Carper, L. Burdick, D. A. Pelletier, M. J. Doktycz, R. L. Hettich and P. E. Abraham | Metaproteomics reveals insights into microbial structure, interactions, and dynamic regulation in defined communities as they respond to environmental disturbance | BMC Microbiology | 21(1) 308 |
| 2021 | 10.1073/pnas.2105124118 | Lee, S., E. T. Sieradzki, A. M. Nicolas, R. L. Walker, M. K. Firestone, C. Hazard and G. W. Nicol | Methane-derived carbon flows into host-virus networks at different trophic levels in soil | Proceedings of the National Academy of Sciences of the United States of America | 118(32) |
| 2021 | 10.1371/journal.pcbi.1008972 | Lui, L. M., T. N. Nielsen and A. P. Arkin | A method for achieving complete microbial genomes and improving bins from metagenomics data | PLoS Computational Biology | 17(5) e1008972 |
| 2021 | 10.21769/BioProtoc.4156 | Ellis-Guardiola, K., J. Soule and R. T. Clubb | Methods for the extraction of heme prosthetic groups from hemoproteins | Bio-protocol | 11(18) |
| 2021 | Xie, M., J.-G. Chen, W. Muchero, C. Pan, D. M. Close, E. B. Gee and Q. Yao | Methods of improving drought and salt resistance in a plant and genetically engineering plants with improved drought and salt resistance | LLC, U. B. | ||
| 2021 | 10.1093/femsec/fiab091 | Smercina, D. N., V. L. Bailey and K. S. Hofmockel | Micro on a macroscale: relating microbial-scale soil processes to global ecosystem function | FEMS Microbiology Ecology | 97(7) fiab091 |
| 2021 | 10.1111/1462-2920.15705 | Kroeger, M. E., M. Rae DeVan, J. Thompson, R. Johansen, L. V. Gallegos-Graves, D. Lopez, A. Runde, T. Yoshida, B. Munsky, S. Sevanto, M. B. N. Albright and J. Dunbar | Microbial community composition controls carbon flux across litter types in early phase of litter decomposition | Environmental Microbiology | 23(11) 6676–93 |
| 2021 | 10.3389/fmicb.2021.598180 | Chiniquy, D., E. M. Barnes, J. Zhou, K. Hartman, X. Li, A. Sheflin, A. Pella, E. Marsh, J. Prenni, A. M. Deutschbauer, D. P. Schachtman and S. G. Tringe | Microbial Community Field Surveys Reveal Abundant Pseudomonas Population in Sorghum Rhizosphere Composed of Many Closely Related Phylotypes | Frontiers in Microbiology | 12 |
| 2021 | 10.1525/elementa.2021.00124 | Finks, S. S., C. Weihe, S. Kimball, S. D. Allison, A. C. Martiny, K. K. Treseder and J. B. H. Martiny | Microbial community response to a decade of simulated global changes depends on the plant community | Elementa | 9(1) |
| 2021 | 10.1002/wsbm.1512 | Vasdekis, A. E. and A. Singh | Microbial metabolic noise | WIREs Systems Biology and Medicine | 13(3) e1512 |
| 2021 | 10.1038/s41579-021-00577-w | Keasling, J., H. Garcia Martin, T. S. Lee, A. Mukhopadhyay, S. W. Singer and E. Sundstrom | Microbial production of advanced biofuels | Nature Reviews Microbiology | 19(11) 701–15 |
| 2021 | 10.1016/j.tim.2020.12.010 | Sanford, R. A., K. G. Lloyd, K. T. Konstantinidis and F. E. Löffler | Microbial Taxonomy Run Amok | Trends in Microbiology | 29(5) 394-404 |
| 2021 | 10.1016/j.tibtech.2020.07.008 | Ke, J., B. Wang and Y. Yoshikuni | Microbiome Engineering: Synthetic Biology of Plant-Associated Microbiomes in Sustainable Agriculture | Trends in Biotechnology | 39(3) 244–61 |
| 2021 | 10.1128/mSystems.01194-20 | Vangay, P., J. Burgin, A. Johnston, K. L. Beck, D. C. Berrios, et al. | Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities | mSystems | 6(1) |
| 2021 | 10.1073/pnas.2021683118 | Drott, M. T., T. A. Rush, T. R. Satterlee, R. J. Giannone, P. E. Abraham, C. Greco, N. Venkatesh, J. M. Skerker, N. L. Glass, J. L. Labbé, M. G. Milgroom and N. P. Keller | Microevolution in the pansecondary metabolome of Aspergillus flavus and its potential macroevolutionary implications for filamentous fungi | Proceedings of the National Academy of Sciences | 118(21) e2021683118 |
| 2021 | 10.3390/ijms22157880 | Jabusch, L. K., P. W. Kim, D. Chiniquy, Z. Zhao, B. Wang, B. Bowen, A. J. Kang, Y. Yoshikuni, A. M. Deutschbauer, A. K. Singh and T. R. Northen | Microfabrication of a Chamber for High-Resolution, In Situ Imaging of the Whole Root for Plant–Microbe Interactions | International Journal of Molecular Sciences | 22(15) 7880 |
| 2021 | 10.1007/978-3-030-63512-1_13 | Mayali, X. | Microscale Carbon Cycling Between Bacteria and Algae Under the Sun | Microbes: The Foundation Stone of the Biosphere | 205–10 |
| 2021 | 10.1038/s41467-021-23202-z | Lin, H., H. J. Lee, N. Tague, J. B. Lugagne, C. Zong, F. Deng, J. Shin, L. Tian, W. Wong, M. J. Dunlop and J. X. Cheng | Microsecond fingerprint stimulated Raman spectroscopic imaging by ultrafast tuning and spatial-spectral learning | Nature Communications | 12(1) |
| 2021 | 10.1186/s40168-021-01156-0 | ter Horst, A. M., C. Santos-Medellín, J. W. Sorensen, L. A. Zinke, R. M. Wilson, E. R. Johnston, G. Trubl, J. Pett-Ridge, S. J. Blazewicz, P. J. Hanson, J. P. Chanton, C. W. Schadt, J. E. Kostka and J. B. Emerson | Minnesota peat viromes reveal terrestrial and aquatic niche partitioning for local and global viral populations | Microbiome | 9(1) 233 |
| 2021 | 10.1371/journal.pgen.1009510 | Im, J. H., J.-H. Ko, W.-C. Kim, B. Crain, D. Keathley and K.-H. Han | Mitogen-activated protein kinase 6 negatively regulates secondary wall biosynthesis by modulating MYB46 protein stability in Arabidopsis thaliana | PLoS Genetics | 17(4) e1009510 |
| 2021 | 10.3389/fbioe.2021.724304 | Ingle, A. T., N. W. Fortney, K. A. Walters, T. J. Donohue and D. R. Noguera | Mixed Acid Fermentation of Carbohydrate-Rich Dairy Manure Hydrolysate | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.3389/fpls.2021.708902 | Anaokar, S., H. Liu, J. Keereetaweep, Z. Zhai and J. Shanklin | Mobilizing Vacuolar Sugar Increases Vegetative Triacylglycerol Accumulation | Frontiers in Plant Science | 12 |
| 2021 | 10.1029/2021JG006363 | Reed, D. E., J. Poe, M. Abraha, K. M. Dahlin and J. Chen | Modeled Surface-Atmosphere Fluxes From Paired Sites in the Upper Great Lakes Region Using Neural Networks | JGR Biogeosciences | 126(8) e2021JG006363 |
| 2021 | 10.1128/MSYSTEMS.01325-20 | Foster, C., K. Charubin, E. T. Papoutsakis and C. D. Maranasa | Modeling growth kinetics, interspecies cell fusion, and metabolism of a Clostridium acetobutylicum/Clostridium ljungdahlii syntrophic coculture | mSystems | 6(1) |
| 2021 | 10.1002/prot.26231 | Kryshtafovych, A., J. Moult, W. M. Billings, D. Della Corte, K. Fidelis, et al. | Modeling SARS-CoV-2 proteins in the CASP-commons experiment | Proteins: Structure, Function and Bioinformatics | 89(12) 1987-1996 |
| 2021 | 10.1093/plcell/koab287 | Moore, B. M., Y. S. Lee, P. Wang, C. Azodi, E. Grotewold and S.-H. Shiu | Modeling temporal and hormonal regulation of plant transcriptional response to wounding | The Plant Cell | 34(2) 867–88 |
| 2021 | 10.1021/acs.biochem.1c00613 | Bathe, U., B. J. Leong, D. R. McCarty, C. S. Henry, P. E. Abraham, M. A. Wilson and A. D. Hanson | The Moderately (D)efficient Enzyme: Catalysis-Related Damage In Vivo and Its Repair | Biochemistry | 60(47) 3555–65 |
| 2021 | 10.1111/omi.12323 | Lamont, E. I., A. Gadkari, K. A. Kerns, T. T. To, D. Daubert, G. Kotsakis, B. Bor, X. He and J. S. McLean | Modified SHI medium supports growth of a disease-state subgingival polymicrobial community in vitro | Molecular Oral Microbiology | 36(1) 37–49 |
| 2021 | 10.1038/s42003-021-02514-2 | Wu, R., M. R. Davison, Y. Gao, C. D. Nicora, J. E. McDermott, K. E. Burnum-Johnson, K. S. Hofmockel and J. K. Jansson | Moisture modulates soil reservoirs of active DNA and RNA viruses | Communications Biology | 4(1) 992 |
| 2021 | 10.1016/j.jbc.2021.100431 | Chundawat, S. P. S., B. Nemmaru, M. Hackl, S. K. Brady, M. A. Hilton, M. M. Johnson, S. Chang, M. J. Lang, H. Huh, S.-H. Lee, J. M. Yarbrough, C. A. López and S. Gnanakaran | Molecular origins of reduced activity and binding commitment of processive cellulases and associated carbohydrate-binding proteins to cellulose III | Journal of Biological Chemistry | 296 100431 |
| 2021 | 10.1039/D0CS01297A | Reed, C. J., Q. N. Lam, E. N. Mirts and Y. Lu | Molecular understanding of heteronuclear active sites in heme–copper oxidases, nitric oxide reductases, and sulfite reductases through biomimetic modelling | Chemical Society Reviews | 50(4) 2486–539 |
| 2021 | 10.1038/s41477-021-00975-1 | Zhao, Y., X. Yu, P.-Y. Lam, K. Zhang, Y. Tobimatsu and C.-J. Liu | Monolignol acyltransferase for lignin p-hydroxybenzoylation in Populus | Nature Plants | 7(9) 1288–300 |
| 2021 | 10.1093/sysbio/syaa038 | Neumann, J. S., R. Desalle, A. Narechania, B. Schierwater and M. Tessler | Morphological Characters Can Strongly Influence Early Animal Relationships Inferred from Phylogenomic Data Sets | Systematic Biology | 70(2) 360–75 |
| 2021 | 10.1158/0008-5472.CAN-21-0206 | Zhang, S., Y. F. Zhou, J. Cao, S. K. Burley, H. Y. Wang and X. F. S. Zheng | mTORC1 Promotes ARID1A degradation and oncogenic chromatin remodeling in hepatocellular carcinoma | Cancer Research | 81(22) 5642-5665 |
| 2021 | 10.1073/pnas.2008888118 | Oates, N. C., A. Abood, A. M. Schirmacher, A. M. Alessi, S. M. Bird, J. P. Bennett, D. R. Leadbeater, Y. Li, A. A. Dowle, S. Liu, V. I. Tymokhin, J. Ralph, S. J. McQueen-Mason and N. C. Bruce | A multi-omics approach to lignocellulolytic enzyme discovery reveals a new ligninase activity from Parascedosporium putredinis NO1 | Proceedings of the National Academy of Sciences | 118(18) e2008888118 |
| 2021 | 10.3389/fbioe.2020.612832 | Kim, J., S. T. Coradetti, Y.-M. Kim, Y. Gao, J. Yaegashi, J. D. Zucker, N. Munoz, E. M. Zink, K. E. Burnum-Johnson, S. E. Baker, B. A. Simmons, J. M. Skerker, J. M. Gladden and J. K. Magnuson | Multi-Omics Driven Metabolic Network Reconstruction and Analysis of Lignocellulosic Carbon Utilization in Rhodosporidium toruloides | Frontiers in Bioengineering and Biotechnology | 8 |
| 2021 | 10.3389/fgeed.2021.654996 | Eid, A., C. Mohan, S. Sanchez, D. Wang and F. Altpeter | Multiallelic, Targeted Mutagenesis of Magnesium Chelatase With CRISPR/Cas9 Provides a Rapidly Scorable Phenotype in Highly Polyploid Sugarcane | Frontiers in Genome Editing | 3 |
| 2021 | 10.1038/s41598-021-92395-6 | Wu, T., J. Liu, Z. Guo, J. Hou and J. Cheng | MULTICOM2 open-source protein structure prediction system powered by deep learning and distance prediction | Scientific Reports | 11(1) |
| 2021 | 10.1016/j.copbio.2020.12.020 | Glasgow, E., K. Vander Meulen, N. Kuch and B. G. Fox | Multifunctional cellulases are potent, versatile tools for a renewable bioeconomy | Current Opinion in Biotechnology | 67 141–8 |
| 2021 | 10.3389/fbioe.2021.612893 | Roy, S., T. Radivojevic, M. Forrer, J. M. Marti, V. Jonnalagadda, T. Backman, W. Morrell, H. Plahar, J. Kim, N. Hillson and H. Garcia Martin | Multiomics Data Collection, Visualization, and Utilization for Guiding Metabolic Engineering | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1093/g3journal/jkab074 | Ecale Zhou, C. L., J. Kimbrel, R. Edwards, K. McNair, B. A. Souza and S. Malfatti | MultiPhATE2: code for functional annotation and comparison of phage genomes | G3 Genes|Genomes|Genetics | 11(5) |
| 2021 | 10.7554/eLife.65091 | Pessotti, R. d. C., B. L. Hansen, J. N. Reaso, J. A. Ceja-Navarro, L. El-Hifnawi, E. L. Brodie and M. F. Traxler | Multiple lineages of Streptomyces produce antimicrobials within passalid beetle galleries across eastern North America | eLife | 10 e65091 |
| 2021 | 10.1038/s41467-020-20094-3 | Yu, T. C., W. L. Liu, M. S. Brinck, J. E. Davis, J. Shek, G. Bower, T. Einav, K. D. Insigne, R. Phillips, S. Kosuri and G. Urtecho | Multiplexed characterization of rationally designed promoter architectures deconstructs combinatorial logic for IPTG-inducible systems | Nature Communications | 12(1) |
| 2021 | 10.1038/s41598-021-91181-8 | Ing, N., K. Deng, Y. Chen, M. Aulitto, J. W. Gin, T. L. M. Pham, C. J. Petzold, S. W. Singer, B. Bowen, K. L. Sale, B. A. Simmons, A. K. Singh, P. D. Adams and T. R. Northen | A multiplexed nanostructure-initiator mass spectrometry (NIMS) assay for simultaneously detecting glycosyl hydrolase and lignin modifying enzyme activities | Scientific Reports | 11(1) 11803 |
| 2021 | 10.1073/pnas.2115292118 | Barnett, S. E., N. D. Youngblut, C. N. Koechli and D. H. Buckley | Multisubstrate DNA stable isotope probing reveals guild structure of bacteria that mediate soil carbon cycling | Proceedings of the National Academy of Sciences of the United States of America | 118(47) |
| 2021 | 10.1038/s41565-021-00854-y | Demirer, G. S., T. N. Silva, C. T. Jackson, J. B. Thomas, D. W. Ehrhardt, S. Y. Rhee, J. C. Mortimer and M. P. Landry | Nanotechnology to advance CRISPR–Cas genetic engineering of plants | Nature Nanotechnology | 16(3) 243–50 |
| 2021 | 10.12688/f1000research.51494.2 | Werbin, Z. R., B. Hackos, J. Lopez-Nava, M. C. Dietze and J. M. Bhatnagar | The National Ecological Observatory Network's soil metagenomes: assembly and basic analysis | F1000Research | 10 299 |
| 2021 | 10.1093/nar/gkab990 | Eloe-Fadrosh, E. A., F. Ahmed, Anubhav, M. Babinski, J. Baumes, et al. | The National Microbiome Data Collaborative Data Portal: an integrated multi-omics microbiome data resource | Nucleic Acids Research | 50(D1) D828–36 |
| 2021 | 10.7554/eLife.70564 | Robinson, D., M. Place, J. Hose, A. Jochem and A. P. Gasch | Natural variation in the consequences of gene overexpression and its implications for evolutionary trajectories | eLife | 10 e70564 |
| 2021 | 10.3389/fmicb.2020.607679 | Ellis-Guardiola, K., B. J. Mahoney and R. T. Clubb | NEAr Transporter (NEAT) Domains: Unique Surface Displayed Heme Chaperones That Enable Gram-Positive Bacteria to Capture Heme-Iron From Hemoglobin | Frontiers in Microbiology | 11 |
| 2021 | 10.1021/acssynbio.1c00229 | Lalwani, M. A., E. M. Zhao, S. A. Wegner and J. L. Avalos | The Neurospora crassa Inducible Q System Enables Simultaneous Optogenetic Amplification and Inversion in Saccharomyces cerevisiae for Bidirectional Control of Gene Expression | ACS Synthetic Biology | 10(8) 2060-2075 |
| 2021 | 10.1038/s41592-021-01146-y | Cohen, A. E. | A new era of synchrotron-enabled macromolecular crystallography | Nature Methods | 18(5) 433-434 |
| 2021 | 10.1007/s00374-021-01544-6 | Zhang, B., C. R. Penton, Z. Yu, C. Xue, Q. Chen, Z. Chen, C. Yan, Q. Zhang, M. Zhao, J. F. Quensen and J. M. Tiedje | A new primer set for Clade I nosZ that recovers genes from a broader range of taxa | Biology and Fertility of Soils | 57(4) 523–31 |
| 2021 | 10.1111/gcb.15833 | Liang, D. and G. P. Robertson | Nitrification is a minor source of nitrous oxide (N2O) in an agricultural landscape and declines with increasing management intensity | Global Change Biology | 27(21) 5599–613 |
| 2021 | 10.1094/pbiomes-09-19-0050-fi | Bahulikar, R. A., S. R. Chaluvadi, I. Torres-Jerez, J. Mosali, J. L. Bennetzen and M. Udvardi | Nitrogen Fertilization Reduces Nitrogen Fixation Activity of Diverse Diazotrophs in Switchgrass Roots | Phytobiomes Journal | 5(1) 80–7 |
| 2021 | 10.1094/pbiomes-11-19-0064-fi | Roley, S. S., T. C. Ulbrich and G. P. Robertson | Nitrogen Fixation and Resorption Efficiency Differences Among Twelve Upland and Lowland Switchgrass Cultivars | Phytobiomes Journal | 5(1) 97–107 |
| 2021 | 10.1002/ecs2.3638 | Cates, A. M., B. D. Wills, T. N. Kim, D. A. Landis, C. Gratton, H. W. Read and R. D. Jackson | No evidence of top-down effects by ants on litter decomposition in a temperate grassland | Ecosphere | 12(7) e03638 |
| 2021 | 10.1186/s43008-021-00067-x | Yurkov, A., A. Alves, F.-Y. Bai, K. Boundy-Mills, P. Buzzini, et al. | Nomenclatural issues concerning cultured yeasts and other fungi: why it is important to avoid unneeded name changes | IMA Fungus | 12(1) 18 |
| 2021 | 10.1038/s41467-021-22426-3 | Pacheco, A. R., M. L. Osborne and D. Segrè | Non-additive microbial community responses to environmental complexity | Nature Communications | 12(1) 2365 |
| 2021 | 10.1186/s12934-021-01684-2 | Leggieri, P. A., C. Kerdman-Andrade, T. S. Lankiewicz, M. T. Valentine and M. A. O’Malley | Non-destructive quantification of anaerobic gut fungi and methanogens in co-culture reveals increased fungal growth rate and changes in metabolic flux relative to mono-culture | Microbial Cell Factories | 20(1) 199 |
| 2021 | 10.1111/mec.15823 | Fischer, E. K., Y. Song, K. A. Hughes, W. Zhou and K. L. Hoke | Nonparallel transcriptional divergence during parallel adaptation | Molecular Ecology | 30(6) 1516-1530 |
| 2021 | 10.1094/pbiomes-05-20-0042-rvw | Singer, E., J. P. Vogel, T. Northen, C. J. Mungall and T. E. Juenger | Novel and Emerging Capabilities that Can Provide a Holistic Understanding of the Plant Root Microbiome | Phytobiomes Journal | 5(2) 122–32 |
| 2021 | 10.1038/s41598-021-83937-z | Silva, P. C., J. A. Ceja-Navarro, F. Azevedo, U. Karaoz, E. L. Brodie and B. Johansson | A novel d-xylose isomerase from the gut of the wood feeding beetle Odontotaenius disjunctus efficiently expressed in Saccharomyces cerevisiae | Scientific Reports | 11(1) 4766 |
| 2021 | 10.7554/eLife.69508 | Zhao, K., D. Kong, B. Jin, C. D. Smolke and S. Y. Rhee | A novel form of bivalent chromatin associates with rapid induction of camalexin biosynthesis genes in response to a pathogen signal in Arabidopsis | eLife | 10 |
| 2021 | 10.1038/s41396-021-00992-0 | Flieder, M., J. Buongiorno, C. W. Herbold, B. Hausmann, T. Rattei, K. G. Lloyd, A. Loy and K. Wasmund | Novel taxa of Acidobacteriota implicated in seafloor sulfur cycling | The ISME Journal | 15(11) 3159–80 |
| 2021 | 10.3390/plants10122611 | Im, J. H., S. Son, J.-H. Ko, K.-H. Kim, C. S. An and K.-H. Han | Nuclear Translocation of Soybean MPK6, GmMPK6, Is Mediated by Hydrogen Peroxide in Salt Stress | Plants | 10(12) 2611 |
| 2021 | 10.1073/pnas.2023348118 | Hanson, A. D., D. R. McCarty, C. S. Henry, X. Xian, J. Joshi, J. A. Patterson, J. D. García-García, S. D. Fleischmann, N. D. Tivendale and A. H. Millar | The number of catalytic cycles in an enzyme’s lifetime and why it matters to metabolic engineering | Proceedings of the National Academy of Sciences | 118(13) e2023348118 |
| 2021 | 10.1525/elementa.2020.00144 | Treseder, K. K., C. J. Alster, L. A. Cat, M. E. Gorris, A. L. Kuhn, K. G. Lovero, F. Hagedorn, J. F. Kerekes, T. A. McHugh and E. F. Solly | Nutrient and stress tolerance traits linked to fungal responses to global change: Four case studies | Elementa | 9(1) |
| 2021 | 10.1038/s41467-021-23676-x | Stone, B. W., J. Li, B. J. Koch, S. J. Blazewicz, P. Dijkstra, M. Hayer, K. S. Hofmockel, X. J. A. Liu, R. L. Mau, E. M. Morrissey, J. Pett-Ridge, E. Schwartz and B. A. Hungate | Nutrients cause consolidation of soil carbon flux to small proportion of bacterial community | Nature Communications | 12(1) |
| 2021 | 10.1111/gcbb.12745 | Tejera, M. D., F. E. Miguez and E. A. Heaton | The older plant gets the sun: Age-related changes in Miscanthus × giganteus phenology | GCB Bioenergy | 13(1) 45402 |
| 2021 | 10.3389/fbioe.2021.613307 | Amer, B. and E. E. K. Baidoo | Omics-Driven Biotechnology for Industrial Applications | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1016/j.str.2021.04.010 | Burley, S. K. and H. M. Berman | Open-access data: A cornerstone for artificial intelligence approaches to protein structure prediction | Structure | 29(6) 515-520 |
| 2021 | 10.1016/j.ohx.2021.e00208 | Berry, T. D., C. Creelman, N. Nickerson, A. Enders and T. Whitman | An open-source, automated, gas sampling peripheral for laboratory incubation experiments using cavity ring-down spectroscopy | HardwareX | 10 |
| 2021 | 10.1021/bk-2021-1377.ch001 | Yoo, C. G. and A. J. Ragauskas | Opportunities and Challenges of Lignin Utilization | Lignin Utilization Strategies: From Processing to Applications | 1377 1–12 |
| 2021 | 10.1086/716182 | Steidinger, B. S. and K. G. Peay | Optimal allocation ratios: A square root relationship between the ratios of symbiotic costs and benefits | American Naturalist | 198(4) 460-472 |
| 2021 | 10.1111/nph.17355 | Wang, P., B. M. Moore, S. Uygun, M. D. Lehti-Shiu, C. S. Barry and S.-H. Shiu | Optimising the use of gene expression data to predict plant metabolic pathway memberships | New Phytologist | 231(1) 475–89 |
| 2021 | 10.1111/gcbb.12826 | Kemmerling, L. R., S. R. Griffin and N. M. Haddad | Optimizing pollinator conservation and crop yield among perennial bioenergy crops | GCB Bioenergy | 13(7) 1030–42 |
| 2021 | 10.1021/acssynbio.0c00642 | Zhao, E. M., M. A. Lalwani, J. M. Chen, P. Orillac, J. E. Toettcher and J. L. Avalos | Optogenetic Amplification Circuits for Light-Induced Metabolic Control | ACS Synthetic Biology | 10(5) 1143-1154 |
| 2021 | 10.1021/acssynbio.1c00182 | Lalwani, M. A., H. Kawabe, R. L. Mays, S. M. Hoffman and J. L. Avalos | Optogenetic control of microbial consortia populations for chemical production | ACS Synthetic Biology | 10(8) 2015-2029 |
| 2021 | 10.1038/s41589-020-0639-1 | Lalwani, M. A., S. S. Ip, C. Carrasco-López, C. Day, E. M. Zhao, H. Kawabe and J. L. Avalos | Optogenetic control of the lac operon for bacterial chemical and protein production | Nature Chemical Biology | 17(1) 71-79 |
| 2021 | 10.3389/fpls.2021.687652 | Dale, R., S. Oswald, A. Jalihal, M.-F. LaPorte, D. M. Fletcher, A. Hubbard, S.-H. Shiu, A. D. L. Nelson and A. Bucksch | Overcoming the Challenges to Enhancing Experimental Plant Biology With Computational Modeling | Frontiers in Plant Science | 12 |
| 2021 | 10.3389/fpls.2021.626168 | Fanelli, A., D. M. Rancour, M. Sullivan, S. D. Karlen, J. Ralph, D. M. Riaño-Pachón, R. Vicentini, T. d. F. Silva, A. Ferraz, R. D. Hatfield and E. Romanel | Overexpression of a Sugarcane BAHD Acyltransferase Alters Hydroxycinnamate Content in Maize Cell Wall | Frontiers in Plant Science | 12 |
| 2021 | 10.3390/cells10030582 | Liu, D., R. Hu, J. Zhang, H. B. Guo, H. Cheng, L. Li, A. M. Borland, H. Qin, J. G. Chen, W. Muchero, G. A. Tuskan and X. Yang | Overexpression of an Agave Phosphoenolpyruvate Carboxylase Improves Plant Growth and Stress Tolerance | Cells | 10(3) |
| 2021 | 10.1186/s13068-021-02068-9 | Tian, Y., C.-Y. Lin, J.-H. Park, C.-Y. Wu, R. Kakumanu, et al. | Overexpression of the rice BAHD acyltransferase AT10 increases xylan-bound p-coumarate and reduces lignin in Sorghum bicolor | Biotechnology for Biofuels | 14(1) 217 |
| 2021 | 10.1021/jacs.1c08635 | Luo, H., E. P. Weeda, M. Alherech, C. W. Anson, S. D. Karlen, Y. Cui, C. E. Foster and S. S. Stahl | Oxidative Catalytic Fractionation of Lignocellulosic Biomass under Non-alkaline Conditions | Journal of the American Chemical Society | 143(37) 15462–70 |
| 2021 | 10.1128/AEM.00286-21 | Dershwitz, P., N. L. Bandow, J. Yang, J. D. Semrau, M. T. McEllistrem, et al. | Oxygen generation via water splitting by a novel biogenic metal ion-binding compound | Applied and Environmental Microbiology | 87(14) 45305 |
| 2021 | 10.1016/j.xplc.2021.100215 | Chen, T.-C., M. Chern, M. Steinwand, D. Ruan, Y. Wang, A. Isharani and P. Ronald | Paladin, a tyrosine phosphatase-like protein, is required for XA21-mediated immunity in rice | Plant Communications | 2(4) 100215 |
| 2021 | 10.3390/v13010074 | Faleye, T. O. C., E. Driver, D. Bowes, S. Adhikari, D. Adams, A. Varsani, R. U. Halden and M. Scotch | Pan-Enterovirus Amplicon-Based High-Throughput Sequencing Detects the Complete Capsid of a EVA71 Genotype C1 Variant via Wastewater-Based Epidemiology in Arizona | Viruses | 13(1) 74 |
| 2021 | 10.1002/bit.27740 | Santala, S., V. Santala, N. Liu and G. Stephanopoulos | Partitioning metabolism between growth and product synthesis for coordinated production of wax esters in Acinetobacter baylyi ADP1 | Biotechnology and Bioengineering | 118(6) 2283-2292 |
| 2021 | 10.1099/ijsem.0.005100 | Jansson, M. K., S. Hering and M. E. J. Buhl | Parvimonas parva sp. nov., derived from a human genito-urinary lesion | International Journal of Systematic and Evolutionary Microbiology | 71(12) |
| 2021 | 10.1093/nar/gkab781 | Lee, Y.-J., N. Dai, S. I. Müller, C. Guan, M. J. Parker, et al. | Pathways of thymidine hypermodification | Nucleic Acids Research | 50(6) 3001–17 |
| 2021 | 10.1080/15592324.2021.1903758 | R. Cope, K., T. B. Irving, S. Chakraborty and J. M. Ané | Perception of lipo-chitooligosaccharides by the bioenergy crop Populus | Plant Signaling and Behavior | 16(6) |
| 2021 | 10.1021/acs.est.0c06452 | Mishra, S. K., S. Gautam, U. Mishra and C. D. Scown | Performance-Based Payments for Soil Carbon Sequestration Can Enable a Low-Carbon Bioeconomy | Environmental Science & Technology | 55(8) 5180–8 |
| 2021 | 10.1038/s42003-021-02009-0 | Healey, A. L., M. Shepherd, G. J. King, J. B. Butler, J. S. Freeman, et al. | Pests, diseases, and aridity have shaped the genome of Corymbia citriodora | Communications Biology | 4(1) 537 |
| 2021 | 10.1093/plphys/kiab546 | de Vries, L., H. A. MacKay, R. A. Smith, Y. Mottiar, S. D. Karlen, F. Unda, E. Muirragui, C. Bingman, K. Vander Meulen, E. T. Beebe, B. G. Fox, J. Ralph and S. D. Mansfield | pHBMT1, a BAHD-family monolignol acyltransferase, mediates lignin acylation in poplar | Plant Physiology | 188(2) 1014–27 |
| 2021 | 10.1093/plphys/kiab395 | Pignon, C. P., S. B. Fernandes, R. Valluru, N. Bandillo, R. Lozano, E. Buckler, M. A. Gore, S. P. Long, P. J. Brown and A. D. B. Leakey | Phenotyping stomatal closure by thermal imaging for GWAS and TWAS of water use efficiency-related genes | Plant Physiology | 187(4) 254-2562 |
| 2021 | 10.3389/fpls.2021.640930 | Saha, P., F. Lin, S. Thibivilliers, Y. Xiong, C. Pan and L. E. Bartley | Phenylpropanoid Biosynthesis Gene Expression Precedes Lignin Accumulation During Shoot Development in Lowland and Upland Switchgrass Genotypes | Frontiers in Plant Science | 12 |
| 2021 | 10.1038/s41598-021-99877-7 | Hussain, M. Z., S. K. Hamilton, G. P. Robertson and B. Basso | Phosphorus availability and leaching losses in annual and perennial cropping systems in an upper US Midwest landscape | Scientific Reports | 11(1) 20367 |
| 2021 | 10.1002/fes3.348 | Roney, H. E. and B. J. Walker | Photon to plate: A holistic view of photosynthetic and anthropogenic energy fluxes | Food and Energy Security | e348 |
| 2021 | 10.1111/1462-2920.15409 | Viljakainen, V. R. and L. A. Hug | The phylogenetic and global distribution of bacterial polyhydroxyalkanoate bioplastic-degrading genes | Environmental Microbiology | 23(3) 1717-1731 |
| 2021 | 10.1371/journal.pone.0231367 | Vélez, J. M., R. M. Morris, R. Vilgalys, J. Labbé and C. W. Schadt | Phylogenetic diversity of 200+ isolates of the ectomycorrhizal fungus Cenococcum geophilum associated with Populus trichocarpa soils in the Pacific Northwest, USA and comparison to globally distributed representatives | PLoS ONE | 16(1) e0231367 |
| 2021 | 10.3389/fpls.2021.704697 | Yao, T., K. Feng, M. Xie, J. Barros, T. J. Tschaplinski, G. A. Tuskan, W. Muchero and J. G. Chen | Phylogenetic Occurrence of the Phenylpropanoid Pathway and Lignin Biosynthesis in Plants | Frontiers in Plant Science | 12 704697 |
| 2021 | 10.1371/journal.pone.0245069 | Sim, M. S., C. T. Skennerton and V. J. Orphan | Physiological, genomic, and sulfur isotopic characterization of methanol metabolism by Desulfovibrio carbinolicus | PLoS One | 16(1) e0245069 |
| 2021 | 10.1111/1758-2229.13012 | Yadav, S., M. Koenen, N. Bale, J. S. Sinninghe Damsté and L. Villanueva | The physiology and metabolic properties of a novel, low-abundance Psychrilyobacter species isolated from the anoxic Black Sea shed light on its ecological role | Environmental Microbiology Reports | 13(6) 899–910 |
| 2021 | 10.1007/s00425-021-03718-w | Babst, B. A., A. Karve, A. Sementilli, I. Dweikat and D. M. Braun | Physiology and whole-plant carbon partitioning during stem sugar accumulation in sweet dwarf sorghum | Planta | 254(4) |
| 2021 | 10.1002/ppj2.20014 | Casto, A. L., H. Schuhl, J. C. Tovar, Q. Wang, R. S. Bart, N. Fahlgren and M. A. Gehan | Picturing the future of food | Plant Phenome Journal | 4(1) |
| 2021 | 10.12688/F1000RESEARCH.27262.1 | Varoquaux, N. and E. Purdom | A pipeline to analyse time-course gene expression data [version 1; peer review: 1 approved with reservations] | F1000Research | 9 15342 |
| 2021 | 10.1111/nph.17583 | Joo, Y., H. Kim, M. Kang, G. Lee, S. Choung, H. Kaur, S. Oh, J. W. Choi, J. Ralph, I. T. Baldwin and S.-G. Kim | Pith-specific lignification in Nicotiana attenuata as a defense against a stem-boring herbivore | New Phytologist | 232(1) 332–44 |
| 2021 | 10.1094/pbiomes-07-20-0056-fi | Lee, M. R. and C. V. Hawkes | Plant and Soil Drivers of Whole-Plant Microbiomes: Variation in Switchgrass Fungi from Coastal to Mountain Sites | Phytobiomes Journal | 5(1) 69–79 |
| 2021 | 10.1016/j.tibs.2021.06.007 | Wedow, J. M., E. A. Ainsworth and S. Li | Plant biochemistry influences tropospheric ozone formation, destruction, deposition, and response | Trends in Biochemical Sciences | 46(12) 992–1002 |
| 2021 | 10.1073/pnas.2101177118 | Eshel, G., V. Araus, S. Undurraga, D. C. Soto, C. Moraga, et al. | Plant ecological genomics at the limits of life in the Atacama Desert | Proceedings of the National Academy of Sciences of the United States of America | 118(46) |
| 2021 | 10.1038/s42003-021-02464-9 | Khlystov, N. A., Y. Yoshikuni, S. Deutsch and E. S. Sattely | A plant host, Nicotiana benthamiana, enables the production and study of fungal lignin-degrading enzymes | Communications Biology | 4(1) |
| 2021 | 10.1111/jipb.13163 | Hawkins, C., D. Ginzburg, K. Zhao, W. Dwyer, B. Xue, A. Xu, S. Rice, B. Cole, S. Paley, P. Karp and S. Y. Rhee | Plant Metabolic Network 15: A resource of genome-wide metabolism databases for 126 plants and algae | Journal of Integrative Plant Biology | 63(11) 1888-1905 |
| 2021 | 10.1038/s42003-021-02477-4 | Cole, B., D. Bergmann, C. E. Blaby-Haas, I. K. Blaby, K. E. Bouchard, et al. | Plant single-cell solutions for energy and the environment | Communications Biology | 4(1) 962 |
| 2021 | 10.1021/acssynbio.1c00455 | Yuan, G., M. M. Hassan, T. Yao, H. Lu, M. M. Vergara, J. L. Labbé, W. Muchero, C. Pan, J.-G. Chen, G. A. Tuskan, Y. Qi, P. E. Abraham and X. Yang | Plant-Based Biosensors for Detecting CRISPR-Mediated Genome Engineering | ACS Synthetic Biology | 10(12) 3600–3 |
| 2021 | 10.1094/pbiomes-01-20-0009-fi | Cregger, M. A., D. L. Carper, S. Christel, M. J. Doktycz, J. Labbé, et al. | Plant–Microbe Interactions: From Genes to Ecosystems Using Populus as a Model System | Phytobiomes Journal | 5(1) 29–38 |
| 2021 | 10.1111/gcbb.12870 | Edmonds, P., K. J. Franz, E. A. Heaton, A. L. Kaleita, M. L. Soupir and A. VanLoocke | Planting miscanthus instead of row crops may increase the productivity and economic performance of farmed potholes | GCB Bioenergy | 13(9) 1481–97 |
| 2021 | 10.1111/nph.17527 | Hestrin, R., P. K. Weber, J. Pett-Ridge and J. Lehmann | Plants and mycorrhizal symbionts acquire substantial soil nitrogen from gaseous ammonia transport | New Phytologist | 231(5) 1746–57 |
| 2021 | 10.1021/jacs.1c03129 | Lyu, M., L. Kong, Z. Yang, Y. Wu, C. E. McGhee and Y. Lu | PNA-Assisted DNAzymes to Cleave Double-Stranded DNA for Genetic Engineering with High Sequence Fidelity | Journal of the American Chemical Society | 143(26) 9724–8 |
| 2021 | 10.1021/acs.biomac.1c00223 | Wang, Y.-Y., B. Scheidemantle, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Polyurethanes Based on Unmodified and Refined Technical Lignins: Correlation between Molecular Structure and Material Properties | Biomacromolecules | 22(5) 2129–36 |
| 2021 | 10.1071/mf20024 | Stoessel, D. J., A. R. van Rooyen, L. B. Beheregaray, S. M. C. Raymond, B. van Wyk, J. Haddy, J. Lieschke and A. R. Weeks | Population genetic structure of estuary perch (Percalates colonorum Gunther) in south-eastern Australia | Marine and Freshwater Research | 72(2) |
| 2021 | 10.1371/journal.ppat.1009138 | O’Brien, C. E., J. Oliveira-Pacheco, E. Ó Cinnéide, M. A. B. Haase, C. T. Hittinger, T. R. Rogers, O. Zaragoza, U. Bond and G. Butler | Population genomics of the pathogenic yeast Candida tropicalis identifies hybrid isolates in environmental samples | PLoS Pathogens | 17(3) e1009138 |
| 2021 | 10.1038/s41598-021-01533-7 | Juyal, A., A. Guber, M. Oerther, M. Quigley and A. Kravchenko | Pore architecture and particulate organic matter in soils under monoculture switchgrass and restored prairie in contrasting topography | Scientific Reports | 11(1) 21998 |
| 2021 | 10.1007/s11242-021-01654-7 | Jung, H. and C. Meile | Pore-scale numerical investigation of evolving porosity and permeability driven by biofilm growth | Transport in Porous Media | 139(2) 203-221 |
| 2021 | 10.3389/fmicb.2021.702015 | Schmidt, J. M., T. M. Royalty, K. G. Lloyd and A. D. Steen | Potential activities and long lifetimes of organic carbon-degrading extracellular enzymes in deep subsurface sediments of the Baltic Sea | Frontiers in Microbiology | 12 |
| 2021 | 10.1038/s43016-021-00283-z | Basso, B. | Precision conservation for a changing climate | Nature Food | 2(5) 322–3 |
| 2021 | 10.1073/pnas.2026330118 | Meng, X., Z. Liang, X. Dai, Y. Zhang, S. Mahboub, D. W. Ngu, R. L. Roston and J. C. Schnable | Predicting transcriptional responses to cold stress across plant species | Proceedings of the National Academy of Sciences of the United States of America | 118(10) |
| 2021 | 10.1002/prot.26222 | Lensink, M. F., G. Brysbaert, T. Mauri, N. Nadzirin, S. Velankar, et al. | Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment | Proteins: Structure, Function and Bioinformatics | 89(12) 1800-1823 |
| 2021 | 10.1093/molbev/msab111 | Cusack, S. A., P. Wang, S. G. Lotreck, B. M. Moore, F. Meng, J. K. Conner, P. J. Krysan, M. D. Lehti-Shiu and S.-H. Shiu | Predictive Models of Genetic Redundancy in Arabidopsis thaliana | Molecular Biology and Evolution | 38(8) 3397–414 |
| 2021 | 10.1039/D1GC01186C | Achinivu, E. C., M. Mohan, H. Choudhary, L. Das, K. Huang, H. D. Magurudeniya, V. R. Pidatala, A. George, B. A. Simmons and J. M. Gladden | A predictive toolset for the identification of effective lignocellulosic pretreatment solvents: a case study of solvents tailored for lignin extraction | Green Chemistry | 23(18) 7269–89 |
| 2021 | 10.1016/j.cell.2021.06.009 | Dorone, Y., S. Boeynaems, E. Flores, B. Jin, S. Hateley, et al. | A prion-like protein regulator of seed germination undergoes hydration-dependent phase separation | Cell | 184(16) 4284-4298.e27 |
| 2021 | 10.1002/bit.27926 | Lee, J.-W., H. Seo, C. Young and C. T. Trinh | Probing specificities of alcohol acyltransferases for designer ester biosynthesis with a high-throughput microbial screening platform | Biotechnology and Bioengineering | 118(12) 4655–67 |
| 2021 | 10.1021/acssuschemeng.1c03772 | Baral, N. R., M. Yang, B. G. Harvey, B. A. Simmons, A. Mukhopadhyay, T. S. Lee and C. D. Scown | Production Cost and Carbon Footprint of Biomass-Derived Dimethylcyclooctane as a High-Performance Jet Fuel Blendstock | ACS Sustainable Chemistry & Engineering | 9(35) 11872–82 |
| 2021 | 10.1093/jxb/erab450 | Silva, T. N., J. B. Thomas, J. Dahlberg, S. Y. Rhee and J. C. Mortimer | Progress and challenges in sorghum biotechnology, a multipurpose feedstock for the bioeconomy | Journal of Experimental Botany | 73(3) 646–64 |
| 2021 | 10.1128/mSystems.00526-21 | Myers, K. S., D. R. Noguera and T. J. Donohue | Promoter Architecture Differences among Alphaproteobacteria and Other Bacterial Taxa | mSystems | 6(4) e00526-21 |
| 2021 | 10.1038/s41589-021-00834-2 | Kim, L. J., M. Ohashi, Z. Zhang, D. Tan, M. Asay, D. Cascio, J. A. Rodriguez, Y. Tang and H. M. Nelson | Prospecting for natural products by genome mining and microcrystal electron diffraction | Nature Chemical Biology | 17(8) 872-877 |
| 2021 | 10.1038/s41598-021-90303-6 | Chen, X., J. Liu, Z. Guo, T. Wu, J. Hou and J. Cheng | Protein model accuracy estimation empowered by deep learning and inter-residue distance prediction in CASP14 | Scientific Reports | 11(1) |
| 2021 | 10.1016/j.isci.2021.103405 | Ataeian, M., A. Vadlamani, M. Haines, D. Mosier, X. Dong, M. Kleiner, M. Strous and A. K. Hawley | Proteome and strain analysis of cyanobacterium Candidatus “Phormidium alkaliphilum” reveals traits for success in biotechnology | iScience | 24(12) |
| 2021 | 10.1186/s40168-021-01042-9 | Ceja-Navarro, J. A., Y. Wang, D. Ning, A. Arellano, L. Ramanculova, M. M. Yuan, A. Byer, K. D. Craven, M. C. Saha, E. L. Brodie, J. Pett-Ridge and M. K. Firestone | Protist diversity and community complexity in the rhizosphere of switchgrass are dynamic as plants develop | Microbiome | 9(1) |
| 2021 | 10.3389/fmars.2021.611937 | Bourbonnais, A., C. Frey, X. Sun, L. A. Bristow, A. Jayakumar, N. E. Ostrom, K. L. Casciotti and B. B. Ward | Protocols for Assessing Transformation Rates of Nitrous Oxide in the Water Column | Frontiers in Marine Science | 8 |
| 2021 | 10.7554/eLife.52770 | Turnšek, J., J. K. Brunson, M. P. Martinez Viedma, T. J. Deerinck, A. Horák, M. Oborník, V. A. Bielinski and A. E. Allen | Proximity proteomics in a marine diatom reveals a putative cell surface-to-chloroplast iron trafficking pathway | eLife | 10 1-113 |
| 2021 | 10.1007/s11120-020-00806-y | Dahlgren, K. K., C. Gates, T. Lee and J. C. Cameron | Proximity-based proteomics reveals the thylakoid lumen proteome in the cyanobacterium Synechococcus sp. PCC 7002 | Photosynthesis Research | 147(2) 177–95 |
| 2021 | 10.3389/fmicb.2021.729289 | Fischer, M. S., F. G. Stark, T. D. Berry, N. Zeba, T. Whitman and M. F. Traxler | Pyrolyzed substrates induce aromatic compound metabolism in the post-fire fungus, Pyronema domesticum | Frontiers in Microbiology | 12 |
| 2021 | 10.1093/g3journal/jkab144 | Zhang, L., A. MacQueen, J. Bonnette, F. B. Fritschi, D. B. Lowry and T. E. Juenger | QTL × environment interactions underlie ionome divergence in switchgrass | G3 Genes|Genomes|Genetics | 11(7) |
| 2021 | 10.1007/s10681-021-02788-x | Razar, R. M., S. Makaju and A. M. Missaoui | QTL mapping of biomass and forage quality traits measured using near-infrared reflectance spectroscopy (NIRS) in switchgrass | Euphytica | 217(3) 51 |
| 2021 | 10.5194/soil-7-47-2021 | Belanger, M. A., C. Vizza, G. P. Robertson and S. S. Roley | Quantifying and correcting for pre-assay CO2 loss in short-term carbon mineralization assays | SOIL | 7(1) 47–52 |
| 2021 | 10.1007/s10533-021-00789-5 | Bradford, M. A., S. A. Wood, E. T. Addicott, E. P. Fenichel, N. Fields, J. González-Rivero, F. V. Jevon, D. S. Maynard, E. E. Oldfield, A. Polussa, E. B. Ward and W. R. Wieder | Quantifying microbial control of soil organic matter dynamics at macrosystem scales | Biogeochemistry | 156(1) 19-40 |
| 2021 | 10.1111/nph.17462 | Veneault-Fourrey, C. and M. Rep | Quantitative resistance linked to late effectors | New Phytologist | 231(4) 1301–3 |
| 2021 | 10.1007/s00122-021-03798-y | Qi, P., T. H. Pendergast, A. Johnson, B. A. Bahri, S. Choi, A. Missaoui and K. M. Devos | Quantitative trait locus mapping combined with variant and transcriptome analyses identifies a cluster of gene candidates underlying the variation in leaf wax between upland and lowland switchgrass ecotypes | Theoretical and Applied Genetics | 134(7) 1957–75 |
| 2021 | 10.1021/acsomega.1c00997 | Joshi, R. P., A. McNaughton, D. G. Thomas, C. S. Henry, S. R. Canon, L. A. McCue and N. Kumar | Quantum Mechanical Methods Predict Accurate Thermodynamics of Biochemical Reactions | ACS Omega | 6(14) 9948–59 |
| 2021 | 10.3389/fpls.2021.642848 | Elder, T., J. Rencoret, J. C. del Río, H. Kim and J. Ralph | Radical Coupling Reactions of Hydroxystilbene Glucosides and Coniferyl Alcohol: A Density Functional Theory Study | Frontiers in Plant Science | 12 |
| 2021 | 10.1002/agg2.20214 | Bendorf, J., S. Hubbard, C. J. Kucharik and A. VanLoocke | Rapid changes in agricultural land use and hydrology in the Driftless Region | Agrosystems, Geosciences & Environment | 4(4) e20214 |
| 2021 | 10.1128/mSystems.00161-21 | Chuckran, P. F., V. Fofanov, B. A. Hungate, E. M. Morrissey, E. Schwartz, J. Walkup and P. Dijkstra | Rapid Response of Nitrogen Cycling Gene Transcription to Labile Carbon Amendments in a Soil Microbial Community | mSystems | 6(3) e00161-21 |
| 2021 | 10.1186/s13068-020-01865-y | Chen, F., C. Zhuo, X. Xiao, T. H. Pendergast and K. M. Devos | A rapid thioacidolysis method for biomass lignin composition and tricin analysis | Biotechnology for Biofuels | 14(1) 18 |
| 2021 | 10.1111/pbi.13550 | Yang, Y., J. H. Lee, M. R. Poindexter, Y. Shao, W. Liu, S. C. Lenaghan, A. H. Ahkami, E. Blumwald and C. N. Stewart | Rational design and testing of abiotic stress-inducible synthetic promoters from poplar cis-regulatory elements | Plant Biotechnology Journal | 19(7) 1354-1369 |
| 2021 | 10.1016/j.carbpol.2021.118564 | Wang, H.-T., V. S. Bharadwaj, J.-Y. Yang, T. M. Curry, K. W. Moremen, Y. J. Bomble and B. R. Urbanowicz | Rational enzyme design for controlled functionalization of acetylated xylan for cell-free polymer biosynthesis | Carbohydrate Polymers | 273 118564 |
| 2021 | 10.1016/j.jmb.2020.11.003 | Rose, Y., J. M. Duarte, R. Lowe, J. Segura, C. Bi, C. Bhikadiya, L. Chen, A. S. Rose, S. Bittrich, S. K. Burley and J. D. Westbrook | RCSB Protein Data Bank: Architectural advances towards integrated searching and efficient access to macromolecular structure data from the PDB archive | Journal of Molecular Biology | 433(11) |
| 2021 | 10.1093/nar/gkaa1038 | Burley, S. K., C. Bhikadiya, C. Bi, S. Bittrich, L. Chen, et al. | RCSB Protein Data Bank: Powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences | Nucleic Acids Research | 49(1) D437-D451 |
| 2021 | 10.1021/acscatal.0c05393 | Yun, D., E. Z. Ayla, D. T. Bregante and D. W. Flaherty | Reactive Species and Reaction Pathways for the Oxidative Cleavage of 4-Octene and Oleic Acid with H2O2 over Tungsten Oxide Catalysts | ACS Catalysis | 11(5) 3137–52 |
| 2021 | 10.1021/jasms.0c00251 | Weitz, K. K., M. L. Smith, K. K. Hixson, E. A. Hill, J. K. Jansson, K. S. Hofmockel and M. S. Lipton | Real-Time Mass Spectrometry Measurements of Respiration Rates in Biological Systems | Journal of the American Society for Mass Spectrometry | 32(3) 648–52 |
| 2021 | 10.1016/j.ymben.2020.11.013 | Suthers, P. F., C. J. Foster, D. Sarkar, L. Wang and C. D. Maranas | Recent advances in constraint and machine learning-based metabolic modeling by leveraging stoichiometric balances, thermodynamic feasibility and kinetic law formalisms | Metabolic Engineering | 63 13–33 |
| 2021 | 10.1021/bk-2021-1377.ch011 | Meng, X., M. Poonia, C. G. Yoo and A. J. Ragauskas | Recent Advances in Synthesis and Application of Lignin Nanoparticles | Lignin Utilization Strategies: From Processing to Applications | 1377 273–93 |
| 2021 | 10.3389/fpls.2021.704905 | Tian, F., X.-L. Hu, T. Yao, X. Yang, J.-G. Chen, M.-Z. Lu and J. Zhang | Recent Advances in the Roles of HSFs and HSPs in Heat Stress Response in Woody Plants | Frontiers in Plant Science | 12 |
| 2021 | 10.1038/s43586-020-00006-x | Wannier, T. M., P. N. Ciaccia, A. D. Ellington, G. T. Filsinger, F. J. Isaacs, K. Javanmardi, M. A. Jones, A. M. Kunjapur, A. Nyerges, C. Pal, M. G. Schubert and G. M. Church | Recombineering and MAGE | Nature Reviews Methods Primers | 1(1) |
| 2021 | 10.1111/gcbb.12877 | Khanna, M., L. Chen, B. Basso, X. Cai, J. L. Field, K. Guan, C. Jiang, T. J. Lark, T. L. Richard, S. A. Spawn-Lee, P. Yang and K. Y. Zipp | Redefining marginal land for bioenergy crop production | GCB Bioenergy | 13(10) 1590–609 |
| 2021 | 10.1039/d0an02022b | Do, H., S. R. Kwon, S. Baek, C. S. Madukoma, M. K. Smiley, L. E. Dietrich, J. D. Shrout and P. W. Bohn | Redox cycling-based detection of phenazine metabolites secreted from Pseudomonas aeruginosa in nanopore electrode arrays | Analyst | 146(4) 1346–54 |
| 2021 | 10.1002/bit.27637 | Nemmaru, B., N. Ramirez, C. J. Farino, J. M. Yarbrough, N. Kravchenko and S. P. S. Chundawat | Reduced type-A carbohydrate-binding module interactions to cellulose I leads to improved endocellulase activity | Biotechnology and Bioengineering | 118(3) 1141-1151 |
| 2021 | 10.1128/AEM.02794-20 | Perez, J. M., W. S. Kontur, C. Gehl, D. M. Gille, Y. Ma, A. V. Niles, G. Umana, T. J. Donohue and D. R. Noguera | Redundancy in Aromatic O-Demethylation and Ring-Opening Reactions in Novosphingobium aromaticivorans and Their Impact in the Metabolism of Plant-Derived Phenolics | Applied and Environmental Microbiology | 87(8) e02794-20 |
| 2021 | 10.1038/s41598-021-85992-y | Gonçalves, D. R. P., U. Mishra, S. Wills and S. Gautam | Regional environmental controllers influence continental scale soil carbon stocks and future carbon dynamics | Scientific Reports | 11(1) 6474 |
| 2021 | 10.1007/s00425-021-03774-2 | Gleadow, R. M., B. A. McKinley, C. K. Blomstedt, A. C. Lamb, B. L. Møller and J. E. Mullet | Regulation of dhurrin pathway gene expression during Sorghum bicolor development | Planta | 254(6) 119 |
| 2021 | 10.1007/s00248-020-01651-1 | St. James, A. R., J. Lin and R. E. Richardson | Relationship Between Peat Type and Microbial Ecology in Sphagnum-Containing Peatlands of the Adirondack Mountains, NY, USA | Microbial Ecology | 82(2) 429–41 |
| 2021 | 10.1089/ast.2020.2313 | Angelos, E., D. K. Ko, S. Zemelis-Durfee and F. Brandizzi | Relevance of the Unfolded Protein Response to Spaceflight-Induced Transcriptional Reprogramming in Arabidopsis | Astrobiology | 21(3) 367–80 |
| 2021 | 10.1016/j.scitotenv.2020.144429 | Bhatia, S. K., S. S. Jagtap, A. A. Bedekar, R. K. Bhatia, K. Rajendran, A. Pugazhendhi, C. V. Rao, A. E. Atabani, G. Kumar and Y. H. Yang | Renewable biohydrogen production from lignocellulosic biomass using fermentation and integration of systems with other energy generation technologies | Science of the Total Environment | 765 144429 |
| 2021 | 10.1039/D1GC00243K | McClelland, D. J., B.-X. Wang, W. T. Cordell, Y. R. Cortes-Peña, E. B. Gilcher, L. Zhang, J. S. Guest, B. F. Pfleger, G. W. Huber and J. A. Dumesic | Renewable linear alpha-olefins by base-catalyzed dehydration of biologically-derived fatty alcohols | Green Chemistry | 23(12) 4338–54 |
| 2021 | 10.1111/ajae.12189 | Khanna, M., X. Chen, W. Wang and A. Oliver | Repeal of the Clean Power Plan: Social Cost and Distributional Implications | American Journal of Agricultural Economics | 104(1) 33–51 |
| 2021 | 10.1093/genetics/iyaa012 | Haase, M. A. B., J. Kominek, D. A. Opulente, X.-X. Shen, A. L. LaBella, X. Zhou, J. DeVirgilio, A. B. Hulfachor, C. P. Kurtzman, A. Rokas and C. T. Hittinger | Repeated horizontal gene transfer of GALactose metabolism genes violates Dollo’s law of irreversible loss | Genetics | 217(2) |
| 2021 | 10.1016/j.cub.2021.03.067 | Moore, W. M., C. Chan, T. Ishikawa, E. A. Rennie, H. M. L. Wipf, V. Benites, M. Kawai-Yamada, J. C. Mortimer and H. V. Scheller | Reprogramming sphingolipid glycosylation is required for endosymbiont persistence in Medicago truncatula | Current Biology | 31(11) 2374–85.e4 |
| 2021 | 10.1002/bbb.2255 | Singh, R., B. S. Dien and V. Singh | Response surface methodology guided adsorption and recovery of free fatty acids from oil using resin | Biofuels, Bioproducts and Biorefining | 15(5) 1485–95 |
| 2021 | 10.1093/pcp/pcab103 | Takahashi, D., I. R. Willick, J. Kasuga and D. P. Livingston III | Responses of the Plant Cell Wall to Sub-Zero Temperatures: A Brief Update | Plant and Cell Physiology | 62(12) 1858–66 |
| 2021 | 10.3389/fsufs.2021.706142 | Mosier, S., S. C. Córdova and G. P. Robertson | Restoring Soil Fertility on Degraded Lands to Meet Food, Fuel, and Climate Security Needs via Perennialization | Frontiers in Sustainable Food Systems | 5 |
| 2021 | 10.1109/Cluster48925.2021.00053 | Wolf, M., J. Logan, K. Mehta, D. Jacobson, M. Cashman, A. M. Walker, G. Eisenhauer, P. Widener and A. Cliff | Reusability First: Toward FAIR Workflows | 2021 IEEE International Conference on Cluster Computing (CLUSTER) | 444–55 |
| 2021 | 10.3389/fclim.2021.603239 | Field, J. L. | Revisiting “Additional Carbon”: Tracking Atmosphere–Ecosystem Carbon Exchange to Establish Mitigation and Negative Emissions From Bio-Based Systems | Frontiers in Climate | 3 |
| 2021 | 10.1007/s00253-021-11399-4 | Lopez, C., M. Cao, Z. Yao and Z. Shao | Revisiting the unique structure of autonomously replicating sequences in Yarrowia lipolytica and its role in pathway engineering | Applied Microbiology and Biotechnology | 105(14) 5959–72 |
| 2021 | 10.1111/tpj.15108 | Liu, X., R. Van Acker, W. Voorend, A. Pallidis, G. Goeminne, J. Pollier, K. Morreel, H. Kim, H. Muylle, M. Bosio, J. Ralph, R. Vanholme and W. Boerjan | Rewired phenolic metabolism and improved saccharification efficiency of a Zea mays cinnamyl alcohol dehydrogenase 2 (zmcad2) mutant | The Plant Journal | 105(5) 1240–57 |
| 2021 | 10.1093/aobpla/plab056 | Seethepalli, A., K. Dhakal, M. Griffiths, H. Guo, G. T. Freschet and L. M. York | RhizoVision Explorer: open-source software for root image analysis and measurement standardization | AoB PLANTS | 13(6) plab056 |
| 2021 | 10.1016/j.enpol.2021.112159 | Giarola, S., A. Molar-Cruz, K. Vaillancourt, O. Bahn, L. Sarmiento, A. Hawkes and M. Brown | The role of energy storage in the uptake of renewable energy: A model comparison approach | Energy Policy | 151 |
| 2021 | 10.3390/ijms22168843 | Devireddy, A. R., T. J. Tschaplinski, G. A. Tuskan, W. Muchero and J.-G. Chen | Role of Reactive Oxygen Species and Hormones in Plant Responses to Temperature Changes | International Journal of Molecular Sciences | 22(16) 8843 |
| 2021 | 10.1002/ajb2.1659 | Valverde-Barrantes, O. J., L. Authier, H. Schimann and C. Baraloto | Root anatomy helps to reconcile observed root trait syndromes in tropical tree species | American Journal of Botany | 108(5) 744-755 |
| 2021 | 10.1021/acs.est.1c00300 | Neurath, R. A., J. Pett-Ridge, I. Chu-Jacoby, D. Herman, T. Whitman, P. S. Nico, A. S. Lipton, J. Kyle, M. M. Tfaily, A. Thompson and M. K. Firestone | Root Carbon Interaction with Soil Minerals Is Dynamic, Leaving a Legacy of Microbially Derived Residues | Environmental Science & Technology | 55(19) 13345–55 |
| 2021 | 10.3389/fmicb.2021.651282 | Mavrodi, O. V., J. R. McWilliams, J. O. Peter, A. Berim, K. A. Hassan, L. D. H. Elbourne, M. K. LeTourneau, D. R. Gang, I. T. Paulsen, D. M. Weller, L. S. Thomashow, A. S. Flynt and D. V. Mavrodi | Root Exudates Alter the Expression of Diverse Metabolic, Transport, Regulatory, and Stress Response Genes in Rhizosphere Pseudomonas | Frontiers in Microbiology | 12 |
| 2021 | 10.1002/vzj2.20124 | Kuhl, A. S., A. D. Kendall, R. L. van Dam, S. K. Hamilton and D. W. Hyndman | Root water uptake of biofuel crops revealed by coupled electrical resistivity and soil water content measurements | Vadose Zone Journal | 20(4) e20124 |
| 2021 | 10.1016/j.soilbio.2021.108451 | Polussa, A., J. Gonzalez-Rivero, N. Fields, F. V. Jevon, S. A. Wood, W. R. Wieder and M. A. Bradford | Scale dependence in functional equivalence and difference in the soil microbiome | Soil Biology and Biochemistry | 163 |
| 2021 | 10.1094/pbiomes-07-20-0051-r | Bowsher, A. W., G. M. N. Benucci, G. Bonito and A. Shade | Seasonal Dynamics of Core Fungi in the Switchgrass Phyllosphere, and Co-Occurrence with Leaf Bacteria | Phytobiomes Journal | 5(1) 60–8 |
| 2021 | 10.1080/00275514.2021.1965852 | Ndinga-Muniania, C., R. C. Mueller, C. R. Kuske and A. Porras-Alfaro | Seasonal variation and potential roles of dark septate fungi in an arid grassland | Mycologia | 113(6) 1181–98 |
| 2021 | 10.1016/J.JBC.2021.100742 | Richardson, J. S., D. C. Richardson and D. S. Goodsell | Seeing the PDB | Journal of Biological Chemistry | 296 |
| 2021 | 10.1021/acsomega.1c04750 | Lin, H.-H., Y. Cheng, J. Huo and B. H. Shanks | Selective Ammonolysis of Bioderived Esters for Biobased Amide Synthesis | ACS Omega | 6(44) 30040–9 |
| 2021 | 10.1016/j.jmb.2020.11.020 | Kennedy, N. W., S. P. Ikonomova, M. Slininger Lee, H. W. Raeder and D. Tullman-Ercek | Self-assembling Shell Proteins PduA and PduJ have Essential and Redundant Roles in Bacterial Microcompartment Assembly | Journal of Molecular Biology | 433(2) 166721 |
| 2021 | 10.1016/j.jmva.2021.104786 | Zhang, L., W. Zhou and H. Wang | A semiparametric latent factor model for large scale temporal data with heteroscedasticity | Journal of Multivariate Analysis | 186 |
| 2021 | 10.1016/bs.adioch.2021.02.003 | Cui, Y., S. L. Goes and S. S. Stahl | Sequential oxidation-depolymerization strategies for lignin conversion to low molecular weight aromatic chemicals | Advances in Inorganic Chemistry | 77 99–136 |
| 2021 | Ntana, F., W. W. Bhat, S. R. Johnson, H. J. L. Jørgensen, D. B. Collinge, B. Jensen and B. Hamberger | A Sesquiterpene Synthase from the Endophytic Fungus Serendipita indica Catalyzes Formation of Viridiflorol | Biomolecules | 11(6) 898 | |
| 2021 | 10.3390/biom11060898 | Ntana, F., W. W. Bhat, S. R. Johnson, H. J. L. Jørgensen, D. B. Collinge, B. Jensen and B. Hamberger | A sesquiterpene synthase from the endophytic fungus Serendipita indica catalyzes formation of viridiflorol | Biomolecules | 11(6) |
| 2021 | 10.1007/978-1-0716-1032-9_5 | Pavan, M. | Setting Up an Automated Biomanufacturing Laboratory | Methods in Molecular Biology | 2229 137–55 |
| 2021 | 10.1371/journal.pbio.3001185 | LaBella, A. L., D. A. Opulente, J. L. Steenwyk, C. T. Hittinger and A. Rokas | Signatures of optimal codon usage in metabolic genes inform budding yeast ecology | PLoS Biology | 19(4) e3001185 |
| 2021 | 10.1128/mSystems.00224-21 | Song, F., J. V. Kuehl, A. Chandran and A. P. Arkin | A Simple, Cost-Effective, and Automation-Friendly Direct PCR Approach for Bacterial Community Analysis | mSystems | 6(5) e00224-21 |
| 2021 | 10.1021/acs.analchem.1c01246 | Xue, J., R. J. E. Derks, B. Webb, E. M. Billings, A. Aisporna, M. Giera and G. Siuzdak | Single Quadrupole Multiple Fragment Ion Monitoring Quantitative Mass Spectrometry | Analytical Chemistry | 93(31) 10879–89 |
| 2021 | 10.1093/plcell/koab025 | Ma, F., P. A. Salomé, S. S. Merchant and M. Pellegrini | Single-cell RNA sequencing of batch Chlamydomonas cultures reveals heterogeneity in their diurnal cycle phase | Plant Cell | 33(4) 1042-1057 |
| 2021 | 10.1097/MOH.0000000000000651 | Ma, F., G. E. Hernandez, M. Romay and M. L. Iruela-Arispe | Single-cell RNA sequencing to study vascular diversity and function | Current Opinion in Hematology | 28(3) 221-229 |
| 2021 | 10.1016/j.molp.2021.01.001 | Farmer, A., S. Thibivilliers, K. H. Ryu, J. Schiefelbein and M. Libault | Single-nucleus RNA and ATAC sequencing reveals the impact of chromatin accessibility on gene expression in Arabidopsis roots at the single-cell level | Molecular Plant | 14(3) 372-383 |
| 2021 | 10.1111/tpj.15042 | Li, Z., P. Zhou, R. Della Coletta, T. Zhang, A. B. Brohammer, et al. | Single-parent expression drives dynamic gene expression complementation in maize hybrids | Plant Journal | 105(1) 93-107 |
| 2021 | 10.3389/fmicb.2021.725756 | Leichty, S. I., C. P. Kasanke, S. L. Bell and K. S. Hofmockel | Site and Bioenergy Cropping System Similarly Affect Distinct Live and Total Soil Microbial Communities | Frontiers in Microbiology | 12 |
| 2021 | 10.1021/acs.nanolett.0c05038 | Chen, P., Y. Li, Y. Nishiyama, S. V. Pingali, H. M. O’Neill, Q. Zhang and L. A. Berglund | Small Angle Neutron Scattering Shows Nanoscale PMMA Distribution in Transparent Wood Biocomposites | Nano Letters | 21(7) 2883–90 |
| 2021 | Sawyer, C. R. and J. L. Labbé | Small RNAs at the Interface of the Plant-Fungal Interactions | Fungal Genomics & Biology | 11(1) | |
| 2021 | 10.1128/mSystems.01205-20 | Nicolas, A. M., A. L. Jaffe, E. E. Nuccio, M. E. Taga, M. K. Firestone and J. F. Banfield | Soil candidate phyla radiation bacteria encode components of aerobic metabolism and co-occur with nanoarchaea in the rare biosphere of rhizosphere grassland communities | mSystems | 6(4) |
| 2021 | 10.1002/saj2.20273 | Grace, P. and G. P. Robertson | Soil carbon sequestration potential and the identification of hotspots in the eastern Corn Belt of the United States | Soil Science Society of America Journal | 85(5) 1410–24 |
| 2021 | 10.1111/gcbb.12875 | Studt, J. E., M. D. McDaniel, M. D. Tejera, A. VanLoocke, A. Howe and E. A. Heaton | Soil net nitrogen mineralization and leaching under Miscanthus × giganteus and Zea mays | GCB Bioenergy | 13(9) 1545–60 |
| 2021 | 10.3389/fpls.2021.732307 | Tetreault, H. M., T. Gries, S. Liu, J. Toy, Z. Xin, W. Vermerris, J. Ralph, D. L. Funnell-Harris and S. E. Sattler | The Sorghum (Sorghum bicolor) Brown Midrib 30 Gene Encodes a Chalcone Isomerase Required for Cell Wall Lignification | Frontiers in Plant Science | 12 |
| 2021 | 10.1128/MSYSTEMS.00749-20 | Wang, P., Y. N. Chai, R. Roston, F. E. Dayan and D. P. Schachtman | The Sorghum bicolor root exudate sorgoleone shapes bacterial communities and delays network formation | mSystems | 6(2) |
| 2021 | 10.1016/j.agee.2020.107150 | De Antoni Migliorati, M., W. J. Parton, M. J. Bell, W. Wang and P. R. Grace | Soybean fallow and nitrification inhibitors: Strategies to reduce N2O emission intensities and N losses in Australian sugarcane cropping systems | Agriculture, Ecosystems & Environment | 306 |
| 2021 | 10.1002/celc.202100425 | He, X., G. Chadwick, F. Jiménez Otero, V. Orphan and C. Meile | Spatially resolved electron transport through anode-respiring Geobacter sulfurreducens biofilms: Controls and constraints | ChemElectroChem | 8(10) 1697 |
| 2021 | 10.3389/fmicb.2021.625752 | Yee, M. O., P. Kim, Y. Li, A. K. Singh, T. R. Northen and R. Chakraborty | Specialized Plant Growth Chamber Designs to Study Complex Rhizosphere Interactions | Frontiers in Microbiology | 12 |
| 2021 | 10.1073/pnas.2100678118 | Teixeira, P. J. P. L., N. R. Colaianni, T. F. Law, J. M. Conway, S. Gilbert, H. Li, I. Salas-González, D. Panda, N. M. Del Risco, O. M. Finkel, G. Castrillo, P. Mieczkowski, C. D. Jones and J. L. Dangl | Specific modulation of the root immune system by a community of commensal bacteria | Proceedings of the National Academy of Sciences of the United States of America | 118(16) |
| 2021 | 10.1016/j.jinorgbio.2021.111496 | Eckert, P., A. Johs, J. D. Semrau, A. A. DiSpirito, J. Richardson, R. Sarangi, E. Herndon, B. Gu and E. M. Pierce | Spectroscopic and computational investigations of organometallic complexation of group 12 transition metals by methanobactins from Methylocystis sp. SB2 | Journal of Inorganic Biochemistry | 223 |
| 2021 | 10.1111/pbi.13589 | Qiao, L., C. Lan, L. Capriotti, A. Ah-Fong, J. Nino Sanchez, R. Hamby, J. Heller, H. Zhao, N. L. Glass, H. S. Judelson, B. Mezzetti, D. Niu and H. Jin | Spray-induced gene silencing for disease control is dependent on the efficiency of pathogen RNA uptake | Plant Biotechnology Journal | 19(9) 1756–68 |
| 2021 | 10.1128/mSphere.00085-21 | Starr, E. P., S. Shi, S. J. Blazewicz, B. J. Koch, A. J. Probst, B. A. Hungate, J. Pett-Ridge, M. K. Firestone and J. F. Banfield | Stable-Isotope-Informed, Genome-Resolved Metagenomics Uncovers Potential Cross-Kingdom Interactions in Rhizosphere Soil | mSphere | 6(5) e00085-21 |
| 2021 | 10.1111/pbi.13606 | Smith, R. A., C. L. Cass, D. L. Petrik, D. Padmakshan, J. Ralph, J. C. Sedbrook and S. D. Karlen | Stacking AsFMT overexpression with BdPMT loss of function enhances monolignol ferulate production in Brachypodium distachyon | Plant Biotechnology Journal | 19(9) 1878–86 |
| 2021 | 10.1038/s41564-021-00918-8 | Rinke, C., M. Chuvochina, A. J. Mussig, P.-A. Chaumeil, A. A. Davín, D. W. Waite, W. B. Whitman, D. H. Parks and P. Hugenholtz | A standardized archaeal taxonomy for the Genome Taxonomy Database | Nature Microbiology | 6(7) 946–59 |
| 2021 | 10.1111/nph.17572 | Freschet, G. T., L. Pagès, C. M. Iversen, L. H. Comas, B. Rewald, et al. | A starting guide to root ecology: strengthening ecological concepts and standardising root classification, sampling, processing and trait measurements | New Phytologist | 232(3) 973–1122 |
| 2021 | Katari, M. S., S. Tyagi and D. Shasha | Statistics is easy case studies on real scientific datasets | Synthesis Lectures on Mathematics and Statistics | 13 26665 | |
| 2021 | 10.1093/femsle/fnab153 | St James, A. R. and R. E. Richardson | Stimulation of dissimilatory sulfate reduction in response to sulfate in microcosm incubations from two contrasting temperate peatlands near Ithaca, NY, USA | FEMS Microbiology Letters | 368(21-24) |
| 2021 | 10.3389/fpls.2021.740534 | Santos, M. G., P. A. Davey, T. A. Hofmann, A. Borland, J. Hartwell and T. Lawson | Stomatal Responses to Light, CO2, and Mesophyll Tissue in Vicia faba and Kalanchoë fedtschenkoi | Frontiers in Plant Science | 12 |
| 2021 | 10.1016/j.syapm.2021.126244 | Sandoval-Powers, M., S. Králová, G.-S. Nguyen, D. V. Fawwal, K. Degnes, A. S. Lewin, G. Klinkenberg, A. Wentzel and M. R. Liles | Streptomyces poriferorum sp. nov., a novel marine sponge-derived Actinobacteria species expressing anti-MRSA activity | Systematic and Applied Microbiology | 44(5) 126244 |
| 2021 | 10.3390/biology10040309 | Ganie, S. A. and A. S. N. Reddy | Stress-induced changes in alternative splicing landscape in rice: Functional significance of splice isoforms in stress tolerance | Biology | 10(4) |
| 2021 | 10.1016/j.jbc.2021.100758 | Kuatsjah, E., A. C. K. Chan, R. Katahira, S. J. Haugen, G. T. Beckham, M. E. P. Murphy and L. D. Eltis | Structural and functional analysis of lignostilbene dioxygenases from Sphingobium sp. SYK-6 | Journal of Biological Chemistry | 296 100758 |
| 2021 | 10.1073/pnas.2019462118 | Luo, S., B. G. Coutinho, P. Dadhwal, Y. Oda, J. Ren, A. L. Schaefer, E. P. Greenberg, C. S. Harwood and L. Tong | Structural basis for a bacterial Pip system plant effector recognition protein | Proceedings of the National Academy of Sciences | 118(10) e2019462118 |
| 2021 | 10.1107/S2053230X21007470 | Ochoa, J. M., O. Mijares, A. A. Acosta, X. Escoto, N. Leon-Rivera, J. D. Marshall, M. R. Sawaya and T. O. Yeatesa | Structural characterization of hexameric shell proteins from two types of choline-utilization bacterial microcompartments | Acta Crystallographica Section F: Structural Biology Communications | 77 275-285 |
| 2021 | 10.1107/S2059798321003922 | Vadivel, K., A. E. Schmidt, D. Cascio, K. Padmanabhan, S. Krishnaswamy, H. Brandstetter and S. P. Bajaj | Structure of human factor VIIa-soluble tissue factor with calcium, magnesium and rubidium | Acta Crystallographica Section D: Structural Biology | 77 809-819 |
| 2021 | 10.1002/bmb.21578 | Riley, K. J., D. Vardar-Ulu, E. Pollock and S. Dutta | Students authoring molecular case studies as a partial course-based undergraduate research experience (CURE) for lab instruction | Biochemistry and Molecular Biology Education | 49(6) 853-855 |
| 2021 | 10.1007/s11119-021-09810-1 | Maestrini, B. and B. Basso | Subfield crop yields and temporal stability in thousands of US Midwest fields | Precision Agriculture | 22(6) 1749–67 |
| 2021 | 10.1002/tpg2.20149 | Tilhou, N. W. and M. D. Casler | Subsampling and DNA pooling can increase gains through genomic selection in switchgrass | The Plant Genome | 14(3) e20149 |
| 2021 | 10.1016/j.jplph.2021.153541 | Dhungana, S. R. and D. M. Braun | Sugar transporters in grasses: Function and modulation in source and storage tissues | Journal of Plant Physiology | 266 |
| 2021 | 10.1128/mSystems.01025-20 | Otwell, A. E., A. V. Carr, E. L. W. Majumder, M. K. Ruiz, R. L. Wilpiszeski, L. T. Hoang, B. Webb, S. Turkarslan, S. M. Gibbons, D. A. Elias, D. A. Stahl, G. Siuzdak and N. S. Baliga | Sulfur Metabolites Play Key System-Level Roles in Modulating Denitrification | mSystems | 6(1) e01025-20 |
| 2021 | 10.1016/j.copbio.2021.01.013 | Zaramela, L. S., O. Moyne, M. Kumar, C. Zuniga, J. D. Tibocha-Bonilla and K. Zengler | The Sum is Greater than the Parts: Exploiting Microbial Communities to Achieve Complex Functions | Current Opinion in Biotechnology | 67 149–57 |
| 2021 | 10.1038/s41477-021-00852-x | Wang, H., Y. Li, M. Chern, Y. Zhu, L.-L. Zhang, et al. | Suppression of rice miR168 improves yield, flowering time and immunity | Nature Plants | 7(2) 129–36 |
| 2021 | 10.1093/oso/9780197534755.001.0001 | Drahos, P. | Survival governance: Energy and climate in the Chinese century | ||
| 2021 | 10.3390/plants10122726 | Xu, Y., V. Shrestha, C. Piasecki, B. Wolfe, L. Hamilton, R. J. Millwood, M. Mazarei and C. N. Stewart | Sustainability Trait Modeling of Field-Grown Switchgrass (Panicum virgatum) Using UAV-Based Imagery | Plants | 10(12) 2726 |
| 2021 | 10.1021/acssuschemeng.0c08055 | Li, Y., S. S. Bhagwat, Y. R. Cortés-Peña, D. Ki, C. V. Rao, Y.-S. Jin and J. S. Guest | Sustainable Lactic Acid Production from Lignocellulosic Biomass | ACS Sustainable Chemistry & Engineering | 9(3) 1341–51 |
| 2021 | 10.1039/D1GC00311A | Chang, H., I. Bajaj, A. H. Motagamwala, A. Somasundaram, G. W. Huber, C. T. Maravelias and J. A. Dumesic | Sustainable production of 5-hydroxymethyl furfural from glucose for process integration with high fructose corn syrup infrastructure | Green Chemistry | 23(9) 3277–88 |
| 2021 | 10.1021/acssuschemeng.1c05441 | Bhagwat, S. S., Y. Li, Y. R. Cortés-Peña, E. C. Brace, T. A. Martin, H. Zhao and J. S. Guest | Sustainable Production of Acrylic Acid via 3-Hydroxypropionic Acid from Lignocellulosic Biomass | ACS Sustainable Chemistry & Engineering | 9(49) 16659–69 |
| 2021 | 10.1016/j.watres.2021.117426 | Gottshall, E. Y., S. J. Bryson, K. I. Cogert, M. Landreau, C. J. Sedlacek, D. A. Stahl, H. Daims and M. Winkler | Sustained nitrogen loss in a symbiotic association of Comammox Nitrospira and Anammox bacteria | Water Research | 202 |
| 2021 | 10.1093/plphys/kiab169 | Yang, J., E. Bertolini, M. Braud, J. Preciado, A. Chepote, H. Jiang and A. L. Eveland | The SvFUL2 transcription factor is required for inflorescence determinacy and timely flowering in Setaria viridis | Plant Physiology | 187(3) 1202-1220 |
| 2021 | 10.3390/microorganisms9061329 | Lopes, L. D., Y. N. Chai, E. L. Marsh, J. F. Rajewski, I. Dweikat and D. P. Schachtman | Sweet sorghum genotypes tolerant and sensitive to nitrogen stress select distinct root endosphere and rhizosphere bacterial communities | Microorganisms | 9(6) |
| 2021 | 10.1016/j.ymben.2021.04.009 | Podolsky, I. A., S. Seppälä, H. Xu, Y.-S. Jin and M. A. O'Malley | A SWEET surprise: Anaerobic fungal sugar transporters and chimeras enhance sugar uptake in yeast | Metabolic Engineering | 66 137–47 |
| 2021 | 10.1094/pbiomes-04-20-0029-fi | Hestrin, R., M. R. Lee, B. K. Whitaker and J. Pett-Ridge | The Switchgrass Microbiome: A Review of Structure, Function, and Taxonomic Distribution | Phytobiomes Journal | 5(1) 14–28 |
| 2021 | 10.1094/pbiomes-09-19-0055-fi | Smercina, D. N., A. W. Bowsher, S. E. Evans, M. L. Friesen, E. K. Eder, D. W. Hoyt and L. K. Tiemann | Switchgrass Rhizosphere Metabolite Chemistry Driven by Nitrogen Availability | Phytobiomes Journal | 5(1) 88–96 |
| 2021 | 10.1146/annurev-ento-040920-061140 | Li, H., S. E. Young, M. Poulsen and C. R. Currie | Symbiont-Mediated Digestion of Plant Biomass in Fungus-Farming Insects | Annual Review of Entomology | 66 297–316 |
| 2021 | 10.3389/fpls.2021.639769 | Coleman, H. D., A. M. Brunner and C.-J. Tsai | Synergies and Entanglement in Secondary Cell Wall Development and Abiotic Stress Response in Trees | Frontiers in Plant Science | 12 |
| 2021 | 10.1038/s41396-021-00919-9 | Turkarslan, S., N. Stopnisek, A. W. Thompson, C. E. Arens, J. J. Valenzuela, et al. | Synergistic epistasis enhances the co-operativity of mutualistic interspecies interactions | The ISME Journal | 15(8) 2233–47 |
| 2021 | 10.1016/j.rser.2020.110613 | Leibensperger, C., P. Yang, Q. K. Zhao, S. R. Wei and X. M. Cai | The synergy between stakeholders for cellulosic biofuel development: Perspectives, opportunities, and barriers | Renewable and Sustainable Energy Reviews | 137 |
| 2021 | 10.1016/j.nbt.2020.10.005 | Li, M., Y. Pu, F. Chen and A. J. Ragauskas | Synthesis and Characterization of Lignin-grafted-poly(ε-caprolactone) from Different Biomass Sources | New Biotechnology | 60 189–99 |
| 2021 | 10.1038/s41396-021-00921-1 | Carim, S., A. L. Azadeh, A. E. Kazakov, M. N. Price, P. J. Walian, L. M. Lui, T. N. Nielsen, R. Chakraborty, A. M. Deutschbauer, V. K. Mutalik and A. P. Arkin | Systematic discovery of pseudomonad genetic factors involved in sensitivity to tailocins | The ISME Journal | 15(8) 2289–305 |
| 2021 | 10.1021/acssynbio.0c00471 | Cetnar, D. P. and H. M. Salis | Systematic quantification of sequence and structural determinants controlling mRNA stability in bacterial operons | ACS Synthetic Biology | 10(2) 318-332 |
| 2021 | 10.1093/plcell/koaa016 | Bastiaanse, H., I. M. Henry, H. Tsai, M. Lieberman, C. Canning, L. Comai and A. Groover | A systems genetics approach to deciphering the effect of dosage variation on leaf morphology in Populus | Plant Cell | 33(4) 940-960 |
| 2021 | 10.1186/s13068-021-02010-z | de Vries, L., S. Guevara-Rozo, M. Cho, L.-Y. Liu, S. Renneckar and S. D. Mansfield | Tailoring renewable materials via plant biotechnology | Biotechnology for Biofuels | 14(1) 167 |
| 2021 | 10.1002/prot.26247 | Alexander, L. T., R. Lepore, A. Kryshtafovych, A. Adamopoulos, M. Alahuhta, et al. | Target highlights in CASP14: Analysis of models by structure providers | Proteins: Structure, Function, and Bioinformatics | 89(12) 1647–72 |
| 2021 | 10.1073/pnas.2004834117 | Dong, O. X. and P. C. Ronald | Targeted DNA insertion in plants | Proceedings of the National Academy of Sciences | 118(22) e2004834117 |
| 2021 | 10.7554/eLife.65145 | Staquicini, F. I., A. Hajitou, W. H. P. Driessen, B. Proneth, M. Cardó-Vila, et al. | Targeting a cell surface vitamin d receptor on tumor-associated macrophages in triple-negative breast cancer | eLife | 10 |
| 2021 | 10.1186/s13068-021-01905-1 | Serrani-Yarce, J. C., L. Escamilla-Trevino, J. Barros, L. Gallego-Giraldo, Y. Pu, A. Ragauskas and R. A. Dixon | Targeting hydroxycinnamoyl CoA: shikimate hydroxycinnamoyl transferase for lignin modification in Brachypodium distachyon | Biotechnology for Biofuels | 14(1) 50 |
| 2021 | 10.1093/nar/gkaa721 | Marchand, J. A., M. D. Pierson Smela, T. H. H. Jordan, K. Narasimhan and G. M. Church | TBDB: A database of structurally annotated T-box riboswitch:tRNA pairs | Nucleic Acids Research | 49(D1) D229-D235 |
| 2021 | 10.1002/bbb.2212 | Kurambhatti, C., D. Kumar and V. Singh | Technical and economic feasibility of an integrated ethanol and anthocyanin coproduction process using purple corn stover | Biofuels, Bioproducts and Biorefining | 15(3) 719–35 |
| 2021 | 10.1039/D1EE01642C | Bartling, A. W., M. L. Stone, R. J. Hanes, A. Bhatt, Y. Zhang, et al. | Techno-economic analysis and life cycle assessment of a biorefinery utilizing reductive catalytic fractionation | Energy & Environmental Science | 14(8) 4147–68 |
| 2021 | 10.1016/j.rser.2021.111340 | Mousavi-Avval, S. H. and A. Shah | Techno-economic analysis of hydroprocessed renewable jet fuel production from pennycress oilseed | Renewable and Sustainable Energy Reviews | 149 |
| 2021 | 10.1016/j.copbio.2021.01.002 | Scown, C. D., N. R. Baral, M. Yang, N. Vora and T. Huntington | Technoeconomic analysis for biofuels and bioproducts | Current Opinion in Biotechnology | 67 58–64 |
| 2021 | 10.1038/s41477-021-00877-2 | Horton, P., S. P. Long, P. Smith, S. A. Banwart and D. J. Beerling | Technologies to deliver food and climate security through agriculture | Nature Plants | 7(3) 250–5 |
| 2021 | 10.1111/gcbb.12893 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Temporal dynamics of free-living nitrogen fixation in the switchgrass rhizosphere | GCB Bioenergy | 13(11) 1814–30 |
| 2021 | 10.1002/pmic.202100127 | Shrestha, H. K., M. I. V. Solis, S. S. Jawdy, G. A. Tuskan, X. Yang and P. E. Abraham | Temporal dynamics of protein and post-translational modification abundances in Populus leaf across a diurnal period | Proteomics | 21(20) 2100127 |
| 2021 | 10.1111/tpj.15044 | Ko, D. K. and F. Brandizzi | A temporal hierarchy underpins the transcription factor–DNA interactome of the maize UPR | The Plant Journal | 105(1) 254–70 |
| 2021 | 10.1111/1758-2229.12943 | Bing, R. G., D. B. Sulis, J. P. Wang, M. W. W. Adams and R. M. Kelly | Thermophilic microbial deconstruction and conversion of natural and transgenic lignocellulose | Environmental Microbiology Reports | 13(3) 272-293 |
| 2021 | 10.1186/s13068-021-01904-2 | Patri, A. S., R. Mohan, Y. Pu, C. G. Yoo, A. J. Ragauskas, R. Kumar, D. Kisailus, C. M. Cai and C. E. Wyman | THF co-solvent pretreatment prevents lignin redeposition from interfering with enzymes yielding prolonged cellulase activity | Biotechnology for Biofuels | 14(1) 63 |
| 2021 | 10.1039/d0gc03597a | Fang, Z., M. G. Flynn, J. E. Jackson and E. L. Hegg | Thio-assisted reductive electrolytic cleavage of lignin β-O-4 models and authentic lignin | Green Chemistry | 23(1) 412–21 |
| 2021 | 10.1128/MRA.00759-21 | Castillo, D. J., M. W. V. Goethem and T. P. Makhalanyane | Three Draft Single-Cell Genome Sequences of Novel SAR324 Strains Isolated from the Abyssopelagic Southern Ocean | Microbiology Resource Announcements | 10(39) e00759-21 |
| 2021 | 10.3390/ijms222413199 | Di Costanzo, F., V. Di Dato, L. J. van Zyl, A. Cutignano, F. Esposito, M. Trindade and G. Romano | Three Novel Bacteria Associated with Two Centric Diatom Species from the Mediterranean Sea, Thalassiosira rotula and Skeletonema marinoi | International Journal of Molecular Sciences | 22(24) 13199 |
| 2021 | 10.1111/1758-2229.12892 | Lloyd, K. G. | Time as a microbial resource | Environmental Microbiology Reports | 13(1) 18–21 |
| 2021 | 10.1016/j.soilbio.2021.108225 | Guber, A., E. Blagodatskaya, A. Juyal, B. S. Razavi, Y. Kuzyakov and A. Kravchenko | Time-lapse approach to correct deficiencies of 2D soil zymography | Soil Biology and Biochemistry | 157 108225 |
| 2021 | 10.1021/acs.jproteome.0c00813 | Johnson, A., M. Stadlmeier and M. Wühr | TMTpro Complementary Ion Quantification Increases Plexing and Sensitivity for Accurate Multiplexed Proteomics at the MS2 Level | Journal of Proteome Research | 20(6) 3043–52 |
| 2021 | 10.1515/hf-2020-0130 | Goacher, R. E., Y. Mottiar and S. D. Mansfield | ToF-SIMS imaging reveals that p-hydroxybenzoate groups specifically decorate the lignin of fibres in the xylem of poplar and willow | Holzforschung | 75(5) 452–62 |
| 2021 | 10.1186/s40168-020-00983-x | Blaustein, R. A., L. M. Michelitsch, A. J. Glawe, H. Lee, S. Huttelmaier, N. Hellgeth, S. Ben Maamar and E. M. Hartmann | Toothbrush microbiomes feature a meeting ground for human oral and environmental microbiota | Microbiome | 9(1) 32 |
| 2021 | 10.1111/gcbb.12883 | Park, K., S. A. Sanjaya, T. Quach and E. B. Cahoon | Toward sustainable production of value-added bioenergy and industrial oils in oilseed and biomass feedstocks | GCB Bioenergy | 13(10) 1610–23 |
| 2021 | 10.1016/j.copbio.2020.12.012 | Rasor, B. J., B. Vögeli, G. M. Landwehr, J. W. Bogart, A. S. Karim and M. C. Jewett | Toward sustainable, cell-free biomanufacturing | Current Opinion in Biotechnology | 69 136-144 |
| 2021 | 10.1016/j.mib.2021.05.003 | Qian, Y., F. Lan and O. S. Venturelli | Towards a deeper understanding of microbial communities: integrating experimental data with dynamic models | Current Opinion in Microbiology | 62 84-92 |
| 2021 | 10.1111/tpj.15365 | Wang, Y., K. X. Chan and S. P. Long | Towards a dynamic photosynthesis model to guide yield improvement in C4 crops | The Plant Journal | 107(2) 343–59 |
| 2021 | 10.1007/s12010-021-03594-w | Castaño, J. D., M. Zhou and J. Schilling | Towards an Understanding of Oxidative Damage in an α-L-Arabinofuranosidase of Trichoderma reesei: a Molecular Dynamics Approach | Applied Biochemistry and Biotechnology | 193(10) 3287-3300 |
| 2021 | 10.1039/D1GC02854E | Zhang, J., E. Yoo, B. H. Davison, D. Liu, J. A. Schaidle, L. Tao and Z. Li | Towards cost-competitive middle distillate fuels from ethanol within a market-flexible biorefinery concept | Green Chemistry | 23(23) 9534–48 |
| 2021 | 10.1111/pbi.13671 | Qiao, Z., T. B. Yates, H. K. Shrestha, N. L. Engle, A. Flanagan, et al. | Towards engineering ectomycorrhization into switchgrass bioenergy crops via a lectin receptor-like kinase | Plant Biotechnology Journal | 19(12) 2454–68 |
| 2021 | 10.1016/j.coche.2020.100666 | O’Neill, E. G. and C. T. Maravelias | Towards integrated landscape design and biofuel supply chain optimization | Current Opinion in Chemical Engineering | 31 100666 |
| 2021 | 10.1039/D1GC01622A | Mohan, M., H. Choudhary, A. George, B. A. Simmons, K. Sale and J. M. Gladden | Towards understanding of delignification of grassy and woody biomass in cholinium-based ionic liquids | Green Chemistry | 23(16) 6020–35 |
| 2021 | 10.1038/s41586-021-03306-8 | Terrer, C., R. P. Phillips, B. A. Hungate, J. Rosende, J. Pett-Ridge, et al. | A trade-off between plant and soil carbon storage under elevated CO2 | Nature | 591(7851) 599–603 |
| 2021 | 10.1128/mSystems.01345-20 | Rodionov, D. A., I. A. Rodionova, V. A. Rodionov, A. A. Arzamasov, K. Zhang, et al. | Transcriptional regulation of plant biomass degradation and carbohydrate utilization genes in the extreme thermophile Caldicellulosiruptor bescii | mSystems | 6(3) |
| 2021 | 10.1021/acssynbio.0c00253 | Liang, L., R. Liu, E. F. Freed, C. A. Eckert and R. T. Gill | Transcriptional regulatory networks involved in C3-C4 alcohol stress response and tolerance in yeast | ACS Synthetic Biology | 10(1) 19-28 |
| 2021 | 10.1111/pce.13872 | Ding, N., R. Huertas, I. Torres-Jerez, W. Liu, B. Watson, W. R. Scheible and M. Udvardi | Transcriptional, metabolic, physiological and developmental responses of switchgrass to phosphorus limitation | Plant, Cell & Environment | 44(1) 186–202 |
| 2021 | 10.3390/cells10061526 | Hu, Z., Z. Nie, C. Yan, H. Huang, X. Ma, Y. Wang, N. Ye, G. A. Tuskan, X. Yang and H. Yin | Transcriptome and Degradome Profiling Reveals a Role of miR530 in the Circadian Regulation of Gene Expression in Kalanchoë marnieriana | Cells | 10(6) 1526 |
| 2021 | 10.3390/microorganisms9122612 | Ruytinx, J., S. Miyauchi, S. Hartmann-Wittulsky, M. de Freitas Pereira, F. Guinet, J.-L. Churin, C. Put, F. Le Tacon, C. Veneault-Fourrey, F. Martin and A. Kohler | A Transcriptomic Atlas of the Ectomycorrhizal Fungus Laccaria bicolor | Microorganisms | 9(12) 2612 |
| 2021 | 10.1109/BIBM52615.2021.9669503 | Labhishetty, S., I. Lourentzou, M. J. Volk, S. Mishra, H. Zhao and C. Zhai | TriGORank: A Gene Ontology Enriched Learning-to-Rank Framework for Trigenic Fitness Prediction | 2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) | 1841–8 |
| 2021 | 10.1021/acssynbio.1c00136 | Vezeau, G. E. and H. M. Salis | Tuning cell-free composition controls the time delay, dynamics, and productivity of TX-TL expression | ACS Synthetic Biology | 10(10) 2508-2519 |
| 2021 | 10.1016/j.jece.2021.105665 | Scott, F., L. Yañez, R. Conejeros, B. Araya and A. Vergara-Fernández | Two internal bottlenecks cause the overflow metabolism leading to poly(3-hydroxybutyrate) production in Azohydromonas lata DSM1123 | Journal of Environmental Chemical Engineering | 9(4) 105665 |
| 2021 | 10.3390/rs13091763 | Varela, S., T. Pederson, C. J. Bernacchi and A. D. B. Leakey | Understanding Growth Dynamics and Yield Prediction of Sorghum Using High Temporal Resolution UAV Imagery Time Series and Machine Learning | Remote Sensing | 13(9) 1763 |
| 2021 | 10.1093/gbe/evab148 | Wu, K., Z.-H. Cheng, E. Williams, N. T. Turner, D. Ran, H. Li, X. Zhou, H. Guo, W. Sung, D.-F. Liu, M. Lynch and H. Long | Unexpected Discovery of Hypermutator Phenotype Sounds the Alarm for Quality Control Strains | Genome Biology and Evolution | 13(8) |
| 2021 | 10.1007/s00253-021-11614-2 | Gardner, J. G. and H. J. Schreier | Unifying themes and distinct features of carbon and nitrogen assimilation by polysaccharide-degrading bacteria: a summary of four model systems | Applied Microbiology and Biotechnology | 105(21-22) 8109-8127 |
| 2021 | 10.1093/jxb/eraa432 | Wang, S., K. Guan, Z. Wang, E. A. Ainsworth, T. Zheng, P. A. Townsend, K. Li, C. Moller, G. Wu and C. Jiang | Unique contributions of chlorophyll and nitrogen to predict crop photosynthetic capacity from leaf spectroscopy | Journal of Experimental Botany | 72(2) 341–54 |
| 2021 | 10.1038/s41557-021-00801-3 | Huang, J., Z. Liu, B. J. Bloomer, D. S. Clark, A. Mukhopadhyay, J. D. Keasling and J. F. Hartwig | Unnatural biosynthesis by an engineered microorganism with heterologously expressed natural enzymes and an artificial metalloenzyme | Nature Chemistry | 13(12) 1186–91 |
| 2021 | 10.1039/D0GC03260C | Magurudeniya, H. D., N. R. Baral, A. Rodriguez, C. D. Scown, J. Dahlberg, D. Putnam, A. George, B. A. Simmons and J. M. Gladden | Use of ensiled biomass sorghum increases ionic liquid pretreatment efficiency and reduces biofuel production cost and carbon footprint | Green Chemistry | 23(8) 3127–40 |
| 2021 | 10.1186/s12879-021-06526-5 | Faleye, T. O. C., D. Adams, S. Adhikari, H. Sandrolini, R. U. Halden, A. Varsani and M. Scotch | Use of hemagglutinin and neuraminidase amplicon-based high-throughput sequencing with variant analysis to detect co-infection and resolve identical consensus sequences of seasonal influenza in a university setting | BMC Infectious Diseases | 21(1) 810 |
| 2021 | 10.3390/jof7080609 | Veličković, D., M. Zhou, J. S. Schilling and J. Zhang | Using MALDI-FTICR-MS imaging to track low-molecular-weight aromatic derivatives of fungal decayed wood | Journal of Fungi | 7(8) |
| 2021 | 10.1039/D1GC02744A | Haridevan, H., D. A. C. Evans, A. J. Ragauskas, D. J. Martin and P. K. Annamalai | Valorisation of technical lignin in rigid polyurethane foam: a critical evaluation on trends, guidelines and future perspectives | Green Chemistry | 23(22) 8725–53 |
| 2021 | 10.3390/plants10081536 | Cui, Y., D. Chen, Y. Jiang, D. Xu, P. Balint-Kurti and G. Stacey | Variation in gene expression between two sorghum bicolor lines differing in innate immunity response | Plants | 10(8) |
| 2021 | 10.1093/femsmc/xtab020 | Chuckran, P. F., B. A. Hungate, E. Schwartz and P. Dijkstra | Variation in genomic traits of microbial communities among ecosystems | FEMS Microbes | 2 xtab020 |
| 2021 | 10.1016/j.biombioe.2021.106051 | Murphy, E. K., Y. Mottiar, R. Y. Soolanayakanahally and S. D. Mansfield | Variations in cell wall traits impact saccharification potential of Salix famelica and Salix eriocephala | Biomass and Bioenergy | 148 106051 |
| 2021 | 10.1038/s42003-021-01767-1 | Gimeno, A., C. E. Stanley, Z. Ngamenie, M.-H. Hsung, F. Walder, S. S. Schmieder, S. Bindschedler, P. Junier, B. Keller and S. Vogelgsang | A versatile microfluidic platform measures hyphal interactions between Fusarium graminearum and Clonostachys rosea in real-time | Communications Biology | 4(1) 262 |
| 2021 | 10.1093/plphys/kiab197 | Khakhar, A., C. Wang, R. Swanson, S. Stokke, F. Rizvi, S. Sarup, J. Hobbs and D. F. Voytas | VipariNama: RNA viral vectors to rapidly elucidate the relationship between gene expression and phenotype | Plant Physiology | 186(4) 2222-2238 |
| 2021 | 10.7717/peerj.11088 | Zablocki, O., M. Michelsen, M. Burris, N. Solonenko, J. Warwick-Dugdale, R. Ghosh, J. Pett-Ridge, M. B. Sullivan and B. Temperton | VirION2: a short- and long-read sequencing and informatics workflow to study the genomic diversity of viruses in nature | PeerJ | 9 e11088 |
| 2021 | 10.1038/s41396-021-00897-y | Santos-Medellin, C., L. A. Zinke, A. M. ter Horst, D. L. Gelardi, S. J. Parikh and J. B. Emerson | Viromes outperform total metagenomes in revealing the spatiotemporal patterns of agricultural soil viral communities | ISME Journal | 15(7) 1956-1970 |
| 2021 | 10.1186/s40168-020-00990-y | Guo, J., B. Bolduc, A. A. Zayed, A. Varsani, G. Dominguez-Huerta, T. O. Delmont, A. A. Pratama, M. C. Gazitúa, D. Vik, M. B. Sullivan and S. Roux | VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses | Microbiome | 9(1) |
| 2021 | 10.1016/j.cej.2021.128660 | Zhang, J., W. Shen, C. Collings, K. A. Vander Meulen, B. G. Fox, L. M. Vázquez Ramos, J. A. Dumesic and S.-Y. Ding | Visualizing plant cell wall changes proves the superiority of hydrochloric acid over sulfuric acid catalyzed γ-valerolactone pretreatment | Chemical Engineering Journal | 412 128660 |
| 2021 | 10.1128/msystems.00765-21 | Handakumbura, P. P., A. R. Ubach and A. K. Battu | Visualizing the Hidden Half: Plant-Microbe Interactions in the Rhizosphere | mSystems | 6(5) |
| 2021 | 10.1021/acs.est.0c04358 | Ferin, K. M., L. Chen, J. Zhong, S. Acquah, E. A. Heaton, M. Khanna and A. VanLoocke | Water Quality Effects of Economically Viable Land Use Change in the Mississippi River Basin under the Renewable Fuel Standard | Environmental Science & Technology | 55(3) 1566–75 |
| 2021 | 10.3390/microorganisms9091928 | Maguvu, T. E. and C. C. Bezuidenhout | Whole Genome Sequencing Based Taxonomic Classification, and Comparative Genomic Analysis of Potentially Human Pathogenic Enterobacter spp. Isolated from Chlorinated Wastewater in the North West Province, South Africa | Microorganisms | 9(9) 1928 |
| 2021 | 10.1038/s41598-021-88318-0 | Ocejo, M., B. Oporto, J. L. Lavín and A. Hurtado | Whole genome-based characterisation of antimicrobial resistance and genetic diversity in Campylobacter jejuni and Campylobacter coli from ruminants | Scientific Reports | 11(1) 8998 |
| 2021 | 10.1002/aepp.13067 | Swinton, S. M., F. Dulys and S. S. H. Klammer | Why Biomass Residue Is Not as Plentiful as It Looks: Case Study on Economic Supply of Logging Residues | Applied Economic Perspectives and Policy | 43(3) 1003–25 |
| 2021 | 10.1038/s42003-021-02693-y | Robinson, A. J., G. L. House, D. P. Morales, J. M. Kelliher, L. V. Gallegos-Graves, et al. | Widespread bacterial diversity within the bacteriome of fungi | Communications Biology | 4(1) 1168 |
| 2021 | 10.1002/ppp3.10181 | Lee, M. R. and C. V. Hawkes | Widespread co-occurrence of Sebacinales and arbuscular mycorrhizal fungi in switchgrass roots and soils has limited dependence on soil carbon or nutrients | Plants, People, Planet | 3(5) 614–26 |
| 2021 | 10.1073/pnas.2017714118 | Gallaher, S. D., R. J. Craig, I. Ganesan, S. O. Purvine, S. R. McCorkle, et al. | Widespread polycistronic gene expression in green algae | Proceedings of the National Academy of Sciences of the United States of America | 118(7) |
| 2021 | 10.1016/j.baae.2021.08.009 | Rowe, L., D. Gibson, D. A. Landis and R. Isaacs | Wild bees and natural enemies prefer similar flower species and respond to similar plant traits | Basic and Applied Ecology | 56 259-269 |
| 2021 | 10.1111/mec.15773 | Cheng, J., Y. Yang, M. M. Yuan, Q. Gao, L. Wu, Z. Qin, Z. J. Shi, E. A. G. Schuur, J. R. Cole, J. M. Tiedje and J. Zhou | Winter warming rapidly increases carbon degradation capacities of fungal communities in tundra soil: Potential consequences on carbon stability | Molecular Ecology | 30(4) 926-937 |
| 2021 | 10.1038/s41592-021-01137-z | Young, J. Y., J. Berrisford and M. Chen | wwPDB biocuration: on the front line of structural biology | Nature Methods | 18(5) 431-432 |
| 2021 | 10.3389/fpls.2021.737690 | Crowe, J. D., P. Hao, S. Pattathil, H. Pan, S.-Y. Ding, D. B. Hodge and J. K. Jensen | Xylan Is Critical for Proper Bundling and Alignment of Cellulose Microfibrils in Plant Secondary Cell Walls | Frontiers in Plant Science | 12 |
| 2021 | 10.1002/biot.202000142 | Sun, L. and Y. S. Jin | Xylose Assimilation for the Efficient Production of Biofuels and Chemicals by Engineered Saccharomyces cerevisiae | Biotechnology Journal | 16(4) e2000142 |
| 2021 | 10.3390/d13120641 | Pira, H., C. Risdian, P. Kämpfer, M. Müsken, P. J. Schupp and J. Wink | Zooshikella harenae sp. nov., Isolated from Pacific Oyster Crassostrea gigas, and Establishment of Zooshikella ganghwensis subsp. marina subsp. nov. and Zooshikella ganghwensis subsp. ganghwensis subsp. nov | Diversity | 13(12) 641 |
| 2021 | 10.1186/s13068-021-01958-2 | Felczak, M. M., R. M. Bowers, T. Woyke and M. A. TerAvest | Zymomonas diversity and potential for biofuel production | Biotechnology for Biofuels | 14(1) 112 |
| 2020 | 10.1002/slct.202000406 | Bryant, N., C. G. Yoo, Y. Q. Pu and A. J. Ragauskas | 2D HSQC Chemical Shifts of Impurities from Biomass Pretreatment | ChemistrySelect | 5(11) 3359–64 |
| 2020 | 10.1111/gcbb.12730 | Berardi, D., E. Brzostek, E. Blanc‐Betes, B. Davison, E. H. DeLucia, M. D. Hartman, J. Kent, W. J. Parton, D. Saha and T. W. Hudiburg | 21st‐century biogeochemical modeling: Challenges for Century‐based models and where do we go from here? | GCB Bioenergy | 12(10) 774–88 |
| 2020 | 10.1073/pnas.2000053117 | Yang, M., N. R. Baral, B. A. Simmons, J. C. Mortimer, P. M. Shih and C. D. Scown | Accumulation of high-value bioproducts in planta can improve the economics of advanced biofuels | Proceedings of the National Academy of Sciences of the United States of America | 117(15) 8639–48 |
| 2020 | 10.21203/rs.3.rs-23478/v1 | Harman-Ware, A. E., D. Macaya-Sans, C. R. Abeyratne, C. Doeppke, K. Haiby, G. A. Tuskan, B. Stanton, S. P. DiFazio and M. F. Davis | Accurate Determination of Genotypic Variance of Cell Wall Characteristics of a Populus trichocarpa Pedigree Using High-Throughput Pyrolysis-Molecular Beam Mass Spectrometry | Biotechnology for Biofuels | |
| 2020 | 10.1021/acssuschemeng.0c04433 | Ragauskas, A. and X. Z. Meng | ACS Sustainable Chemistry & Engineering Virtual Special Issue on Recent Advances in Biomass Characterization and Modeling | ACS Sustainable Chemistry & Engineering | 8(28) 10321–2 |
| 2020 | 10.1093/bioinformatics/btz592 | Ma, F. and M. Pellegrini | ACTINN: automated identification of cell types in single cell RNA sequencing | Bioinformatics | 36(2) 533–8 |
| 2020 | 10.1021/acssynbio.9b00402 | Eiben, C. B., T. Tian, M. G. Thompson, D. Mendez-Perez, N. Kaplan, G. Goyal, J. Chiniquy, N. J. Hillson, T. S. Lee and J. D. Keasling | Adenosine Triphosphate and Carbon Efficient Route to Second Generation Biofuel Isopentanol | ACS Synthetic Biology | 9(3) 468–74 |
| 2020 | 10.1186/s13104-020-04968-9 | Sharma, R., Y. Liang, M. Y. Lee, V. R. Pidatala, J. C. Mortimer and H. V. Scheller | Agrobacterium-mediated transient transformation of sorghum leaves for accelerating functional genomics and genome editing studies | BMC Research Notes | 13(1) |
| 2020 | 10.1061/(ASCE)WR.1943-5452.0001197 | Zhao, Q., X. Cai and Y. Li | Algorithm Design Based on Derived Operation Rules for a System of Reservoirs in Parallel | Journal of Water Resources Planning and Management | 146(5) |
| 2020 | 10.3389/fevo.2020.00092 | Martinez, N. D. | Allometric Trophic Networks From Individuals to Socio-Ecosystems: Consumer–Resource Theory of the Ecological Elephant in the Room | Frontiers in Ecology and Evolution | 8 |
| 2020 | 10.1007/s00248-019-01406-7 | Jha, P. N., A. B. Gomaa, Y. G. Yanni, A. Y. El-Saadany, T. M. Stedtfeld, R. D. Stedtfeld, S. Gantner, B. Chai, J. Cole, S. A. Hashsham and F. B. Dazzo | Alterations in the Endophyte-Enriched Root-Associated Microbiome of Rice Receiving Growth-Promoting Treatments of Urea Fertilizer and Rhizobium Biofertilizer | Microbial Ecology | 79(2) 367–82 |
| 2020 | 10.1007/s00572-020-00976-6 | Behr, M., F. Baldacci-Cresp, A. Kohler, K. Morreel, G. Goeminne, R. Van Acker, C. Veneault-Fourrey, A. Mol, G. Pilate, W. Boerjan, J. de Almeida Engler, M. El Jaziri and M. Baucher | Alterations in the phenylpropanoid pathway affect poplar ability for ectomycorrhizal colonisation and susceptibility to root-knot nematodes | Mycorrhiza | 30(5) 555–66 |
| 2020 | 10.3791/57488 | Chundawat, S. P. S., R. K. Pal, C. Zhao, T. Campbell, F. Teymouri, et al. | Ammonia fiber expansion (AFEX) pretreatment of lignocellulosic biomass | Journal of Visualized Experiments | 2020(158) |
| 2020 | 10.1039/c9gc03524a | Chundawat, S. P. S., L. D. Sousa, S. Roy, Z. Yang, S. Gupta, R. Pal, C. Zhao, S. H. Liu, L. Petridis, H. O'Neill and S. V. Pingali | Ammonia-salt solvent promotes cellulosic biomass deconstruction under ambient pretreatment conditions to enable rapid soluble sugar production at ultra-low enzyme loadings | Green Chemistry | 22(1) 204–18 |
| 2020 | 10.1128/AEM.01888-19 | Oshlag, J. Z., Y. Ma, K. Morse, B. T. Burger, R. A. Lemke, S. D. Karlen, K. S. Myers, T. J. Donohue and D. R. Noguera | Anaerobic Degradation of Syringic Acid by an Adapted Strain of Rhodopseudomonas palustris | Applied and Environmental Microbiology | 86(3) |
| 2020 | 10.1038/s41396-020-0590-x | Leu, A. O., C. Cai, S. J. McIlroy, G. Southam, V. J. Orphan, Z. Yuan, S. Hu and G. W. Tyson | Anaerobic methane oxidation coupled to manganese reduction by members of the Methanoperedenaceae | The ISME Journal | 14(4) 1030–41 |
| 2020 | 10.3389/fmars.2020.00718 | Steen, A. D., S. Kusch, H. A. Abdulla, N. Cakić, S. Coffinet, et al. | Analytical and Computational Advances, Opportunities, and Challenges in Marine Organic Biogeochemistry in an Era of “Omics” | Frontiers in Marine Science | 7 |
| 2020 | 10.1111/pce.13887 | Folk, R. A., C. M. Siniscalchi and D. E. Soltis | Angiosperms at the edge: Extremity, diversity, and phylogeny | Plant, Cell & Environment | 43(12) 2871–93 |
| 2020 | 10.1016/j.agee.2019.106780 | Helms, J. A., S. E. Ijelu, B. D. Wills, D. A. Landis and N. M. Haddad | Ant biodiversity and ecosystem services in bioenergy landscapes | Agriculture, Ecosystems & Environment | 290 |
| 2020 | 10.3390/genes11060625 | Nikolaou, E., A. T. M. Hubbard, J. Botelho, T. A. M. Marschall, D. M. Ferreira and A. P. Roberts | Antibiotic Resistance Is Associated with Integrative and Conjugative Elements and Genomic Islands in Naturally Circulating Streptococcus pneumoniae Isolates from Adults in Liverpool, UK | Genes | 11(6) |
| 2020 | 10.3390/pr8080951 | He, Q. P. and J. Wang | Application of Systems Engineering Principles and Techniques in Biological Big Data Analytics: A Review | Processes | 8(8) |
| 2020 | 10.1002/wsbm.1472 | Babele, P. K. and J. D. Young | Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 12(3) e1472 |
| 2020 | 10.1073/pnas.1914422117 | Gallego-Giraldo, L., C. Liu, S. Pose-Albacete, S. Pattathil, A. G. Peralta, J. Young, J. Westpheling, M. G. Hahn, X. Rao, J. P. Knox, B. De Meester, W. Boerjan and R. A. Dixon | Arabidopsis Dehiscence Zone Polygalacturonase 1 (ADPG1) releases latent defense signals in stems with reduced lignin content | Proceedings of the National Academy of Sciences of the United States of America | 117(6) 3281–90 |
| 2020 | 10.1111/tpj.14897 | Kim, S. Y., D. J. Stessman, D. A. Wright, M. H. Spalding, S. C. Huber and D. R. Ort | Arabidopsis plants expressing only the redox-regulated Rca-α isoform have constrained photosynthesis and plant growth | The Plant Journal | 103(6) 2250–62 |
| 2020 | 10.1016/j.tibs.2020.02.010 | Goodsell, D. S., A. J. Olson and S. Forli | Art and Science of the Cellular Mesoscale | Trends in Biochemical Sciences | 45(6) 472–83 |
| 2020 | 10.1007/s12155-020-10149-0 | Khanna, M., W. W. Wang and M. C. Wang | Assessing the Additional Carbon Savings with Biofuel | BioEnergy Research | 13(4) 1082–94 |
| 2020 | 10.1002/cssc.201903345 | Karlen, S. D., P. Fasahati, M. Mazaheri, J. Serate, R. A. Smith, et al. | Assessing the Viability of Recovery of Hydroxycinnamic Acids from Lignocellulosic Biorefinery Alkaline Pretreatment Waste Streams | ChemSusChem | 13(8) 2012–24 |
| 2020 | 10.1111/gcb.14925 | Monteiro, L. A., A. M. Allee, E. E. Campbell, L. R. Lynd, J. R. Soares, et al. | Assessment of yield gaps on global grazed-only permanent pasture using climate binning | Global Change Biology | 26(3) 1820–32 |
| 2020 | 10.1107/S2052252520004030 | Gallagher-Jones, M., K. C. Bustillo, C. Ophus, L. S. Richards, J. Ciston, S. Lee, A. M. Minord and J. A. Rodriguez | Atomic structures determined from digitally defined nanocrystalline regions | IUCrJ | 7 490-499 |
| 2020 | 10.1038/s41477-020-0591-9 | Amstutz, C. L., R. Fristedt, A. Schultink, S. S. Merchant, K. K. Niyogi and A. Malnoë | An atypical short-chain dehydrogenase–reductase functions in the relaxation of photoprotective qH in Arabidopsis | Nature Plants | 6(2) 154-166 |
| 2020 | 10.1038/s41587-020-0584-2 | Hossain, A., E. Lopez, S. M. Halper, D. P. Cetnar, A. C. Reis, D. Strickland, E. Klavins and H. M. Salis | Automated design of thousands of nonrepetitive parts for engineering stable genetic systems | Nature Biotechnology | 38(12) 1466–75 |
| 2020 | 10.1021/acssynbio.0c00394 | Reis, A. C. and H. M. Salis | An Automated Model Test System for Systematic Development and Improvement of Gene Expression Models | ACS Synthetic Biology | 9(11) 3145–56 |
| 2020 | 10.3389/ffgc.2020.00097 | Policelli, N., T. R. Horton, A. T. Hudon, T. R. Patterson and J. M. Bhatnagar | Back to Roots: The Role of Ectomycorrhizal Fungi in Boreal and Temperate Forest Restoration | Frontiers in Forests and Global Change | 3 |
| 2020 | 10.1128/mBio.02146-20 | Francoeur, C. B., L. Khadempour, R. D. Moreira-Soto, K. Gotting, A. J. Book, A. A. Pinto-Tomás, K. Keefover-Ring and C. R. Currie | Bacteria contribute to plant secondary compound degradation in a generalist herbivore system | mBio | 11(5) 45309 |
| 2020 | 10.1074/jbc.RA120.013697 | Lemke, R. A. S., S. M. Olson, K. Morse, S. D. Karlen, A. Higbee, E. T. Beebe, J. Ralph, J. J. Coon, B. G. Fox and T. J. Donohue | A bacterial biosynthetic pathway for methylated furan fatty acids | Journal of Biological Chemistry | 295(29) 9786–801 |
| 2020 | 10.1038/s41586-020-2468-5 | Yu, H. and J. R. Leadbetter | Bacterial chemolithoautotrophy via manganese oxidation | Nature | 583(7816) 453–8 |
| 2020 | 10.1038/s41564-020-0694-0 | Bittinger, K., C. Zhao, Y. Li, E. Ford, E. S. Friedman, et al. | Bacterial colonization reprograms the neonatal gut metabolome | Nature Microbiology | 5(6) 838–47 |
| 2020 | 10.1094/pbiomes-02-20-0019-r | Eckshtain-Levi, N., S. L. Harris, R. Q. Roscios and E. A. Shank | Bacterial Community Members Increase Bacillus subtilis Maintenance on the Roots of Arabidopsis thaliana | Phytobiomes Journal | 4(4) 303–13 |
| 2020 | 10.1007/978-1-0716-0195-2_8 | Utturkar, S., A. Dassanayake, S. Nagaraju and S. D. Brown | Bacterial Differential Expression Analysis Methods | Methods in Molecular Biology | 2096 89–112 |
| 2020 | 10.1038/s41467-020-16687-7 | Reis, F., R. Kirsch, Y. Pauchet, E. Bauer, L. C. Bilz, K. Fukumori, T. Fukatsu, G. Kölsch and M. Kaltenpoth | Bacterial symbionts support larval sap feeding and adult folivory in (semi-)aquatic reed beetles | Nature Communications | 11(1) 2964 |
| 2020 | 10.5194/hess-24-1251-2020 | Jiang, C., K. Guan, M. Pan, Y. Ryu, B. Peng and S. Wang | BESS-STAIR: a framework to estimate daily, 30 m, and all-weather crop evapotranspiration using multi-source satellite data for the US Corn Belt | Hydrology and Earth System Sciences | 24(3) 1251–73 |
| 2020 | 10.1038/s41396-020-00738-4 | Stuart, R. K., E. R. A. Pederson, P. D. Weyman, P. K. Weber, U. Rassmussen and C. L. Dupont | Bidirectional C and N transfer and a potential role for sulfur in an epiphytic diazotrophic mutualism | The ISME Journal | 14(12) 3068–78 |
| 2020 | 10.1111/mmi.14459 | North, J. A., J. A. Wildenthal, T. J. Erb, B. S. Evans, K. M. Byerly, J. A. Gerlt and F. R. Tabita | A bifunctional salvage pathway for two distinct S-adenosylmethionine by-products that is widespread in bacteria, including pathogenic Escherichia coli | Molecular Microbiology | 113(5) 923–37 |
| 2020 | 10.1038/s41589-020-0631-9 | Valliere, M. A., T. P. Korman, M. A. Arbing and J. U. Bowie | A bio-inspired cell-free system for cannabinoid production from inexpensive inputs | Nature Chemical Biology | 16(12) 1427-1433 |
| 2020 | 10.1021/acssuschemeng.0c02351 | Fang, Z., S. Nikafshar, E. L. Hegg and M. Nejad | Biobased Divanillin As a Precursor for Formulating Biobased Epoxy Resin | ACS Sustainable Chemistry & Engineering | 8(24) 9095–103 |
| 2020 | 10.1016/j.copbio.2019.08.013 | Chatterjee, A., D. M. DeLorenzo, R. Carr and T. S. Moon | Bioconversion of renewable feedstocks by Rhodococcus opacus | Current Opinion in Biotechnology | 64 10–6 |
| 2020 | 10.1016/j.apenergy.2020.115933 | Arora, A. and V. Singh | Biodiesel production from engineered sugarcane lipids under uncertain feedstock compositions: Process design and techno-economic analysis | Applied Energy | 280 |
| 2020 | 10.1007/s00792-019-01116-5 | Lee, L. L., J. R. Crosby, G. M. Rubinstein, T. Laemthong, R. G. Bing, C. T. Straub, M. W. W. Adams and R. M. Kelly | The biology and biotechnology of the genus Caldicellulosiruptor: recent developments in ‘Caldi World’ | Extremophiles | 24(1) |
| 2020 | 10.1039/d0gc00661k | Meng, X. Z., Y. Q. Pu, M. Li and A. J. Ragauskas | A biomass pretreatment using cellulose-derived solvent Cyrene | Green Chemistry | 22(9) 2862–72 |
| 2020 | 10.1038/s41467-020-19566-3 | Li, H., C. Y. Sun, Y. Fang, C. M. Carlson, H. Xu, A. Ješovnik, J. Sosa-Calvo, R. Zarnowski, H. A. Bechtel, J. H. Fournelle, D. R. Andes, T. R. Schultz, P. U. P. A. Gilbert and C. R. Currie | Biomineral armor in leaf-cutter ants | Nature Communications | 11(1) |
| 2020 | 10.1021/acssuschemeng.0c05998 | Shi, R. and J. S. Guest | BioSTEAM-LCA: An Integrated Modeling Framework for Agile Life Cycle Assessment of Biorefineries under Uncertainty | ACS Sustainable Chemistry & Engineering | 8(51) 18903–14 |
| 2020 | 10.1021/acssuschemeng.9b07040 | Cortes-Peña, Y., D. Kumar, V. Singh and J. S. Guest | BioSTEAM: A Fast and Flexible Platform for the Design, Simulation, and Techno-Economic Analysis of Biorefineries under Uncertainty | ACS Sustainable Chemistry and Engineering | 8(8) 3302-3310 |
| 2020 | 10.1111/tpj.14957 | Miller, G. P., W. W. Bhat, E. R. Lanier, S. R. Johnson, D. T. Mathieu and B. Hamberger | The biosynthesis of the anti-microbial diterpenoid leubethanol in Leucophyllum frutescens proceeds via an all-cis prenyl intermediate | The Plant Journal | 104(3) 693–705 |
| 2020 | 10.1021/acssynbio.0c00129 | Volk, M. J., I. Lourentzou, S. Mishra, L. T. Vo, C. Zhai and H. Zhao | Biosystems Design by Machine Learning | ACS Synthetic Biology | 9(7) 1514–33 |
| 2020 | 10.34133/2020/3686791 | Yuan, G., M. Hassan, D. Liu, S. D. Lim, W. C. Yim, J. C. Cushman, K. Markel, P. M. Shih, H. Lu, D. J. Weston, J. G. Chen, T. J. Tschaplinski, G. A. Tuskan and X. Yang | Biosystems Design to Accelerate C3-to-CAM Progression | BioDesign Research | 2020 |
| 2020 | 10.3389/fmicb.2020.00796 | Hough, M., A. McClure, B. Bolduc, E. Dorrepaal, S. Saleska, V. Klepac-Ceraj and V. Rich | Biotic and Environmental Drivers of Plant Microbiomes Across a Permafrost Thaw Gradient | Frontiers in Microbiology | 11 796 |
| 2020 | 10.7554/eLife.52786 | Khakhar, A., C. G. Starker, J. C. Chamness, N. Lee, S. Stokke, C. Wang, R. Swanson, F. Rizvi, T. Imaizumi and D. F. Voytas | Building customizable auto-luminescent luciferase-based reporters in plants | eLife | 9 |
| 2020 | 10.1093/database/baaa075 | Gomez-Cano, F., L. Carey, K. Lucas, T. García Navarrete, E. Mukundi, S. Lundback, D. Schnell and E. Grotewold | CamRegBase: A gene regulation database for the biofuel crop, Camelina sativa | Database | 2020 |
| 2020 | 10.1016/j.copbio.2020.01.010 | Streich, J., J. Romero, J. Gazolla, D. Kainer, A. Cliff, E. T. Prates, J. B. Brown, S. Khoury, G. A. Tuskan, M. Garvin, D. Jacobson and A. L. Harfouche | Can exascale computing and explainable artificial intelligence applied to plant biology deliver on the United Nations sustainable development goals? | Current Opinion in Biotechnology | 61 217–25 |
| 2020 | 10.1111/gcbb.12777 | Kasanke, C. P., Q. Zhao, S. Bell, A. M. Thompson and K. S. Hofmockel | Can switchgrass increase carbon accrual in marginal soils? The importance of site selection | GCB Bioenergy | 13(2) 320–35 |
| 2020 | 10.1111/gcbb.12743 | Moore, C. E., D. M. Berardi, E. Blanc-Betes, E. C. Dracup, S. Egenriether, et al. | The carbon and nitrogen cycle impacts of reverting perennial bioenergy switchgrass to an annual maize crop rotation | GCB Bioenergy | 12(11) 941–54 |
| 2020 | 10.1007/s10533-020-00697-0 | Alster, C. J., S. D. Allison and K. K. Treseder | Carbon budgets for soil and plants respond to long-term warming in an Alaskan boreal forest | Biogeochemistry | 150(3) 345-353 |
| 2020 | 10.1128/mBio.02293-19 | Pold, G., L. A. Domeignoz-Horta, E. W. Morrison, S. D. Frey, S. A. Sistla and K. M. DeAngelis | Carbon Use Efficiency and Its Temperature Sensitivity Covary in Soil Bacteria | mBio | 11(1) |
| 2020 | 10.1021/acs.est.0c01097 | Kim, S., X. Zhang, A. D. Reddy, B. E. Dale, K. D. Thelen, C. D. Jones, R. C. Izaurralde, T. Runge and C. Maravelias | Carbon-Negative Biofuel Production | Environmental Science & Technology | 54(17) 10797–807 |
| 2020 | 10.1038/s41598-020-71672-w | Vijaya Kumar, S., P. E. Abraham, G. B. Hurst, K. Chourey, A. N. Bible, R. L. Hettich, M. J. Doktycz and J. L. Morrell-Falvey | A carotenoid-deficient mutant of the plant-associated microbe Pantoea sp. YR343 displays an altered membrane proteome | Scientific Reports | 10(1) 14985 |
| 2020 | 10.1039/d0gc01576h | Chang, H., I. Bajaj, G. W. Huber, C. T. Maravelias and J. A. Dumesic | Catalytic strategy for conversion of fructose to organic dyes, polymers, and liquid fuels | Green Chemistry | 22(16) 5285–95 |
| 2020 | 10.1038/s41576-019-0186-3 | Silverman, A. D., A. S. Karim and M. C. Jewett | Cell-free gene expression: an expanded repertoire of applications | Nature Reviews Genetics | 21(3) 151-170 |
| 2020 | 10.1002/bit.27541 | Liu, W. Q., C. Wu, M. C. Jewett and J. Li | Cell-free protein synthesis enables one-pot cascade biotransformation in an aqueous-organic biphasic system | Biotechnology and Bioengineering | 117(12) 4001–8 |
| 2020 | 10.1016/j.ymben.2020.05.009 | Grubbe, W. S., B. J. Rasor, A. Krüger, M. C. Jewett and A. S. Karim | Cell-free styrene biosynthesis at high titers | Metabolic Engineering | 61 89-95 |
| 2020 | 10.1016/j.mec.2019.e00114 | Kay, J. E. and M. C. Jewett | A cell-free system for production of 2,3-butanediol is robust to growth-toxic compounds | Metabolic Engineering Communications | 10 e00114 |
| 2020 | 10.1104/pp.19.01467 | Yamamoto, M., H. Tomiyama, A. Koyama, H. Okuizumi, S. Liu, et al. | A Century-Old Mystery Unveiled: Sekizaisou is a Natural Lignin Mutant | Plant Physiology | 182(4) 1821–8 |
| 2020 | 10.1002/aic.16235 | Suthers, P. F. and C. D. Maranas | Challenges of cultivated meat production and applications of genome-scale metabolic modeling | Vaccine | 66(6) |
| 2020 | 10.3390/land9100398 | Dahlin, K. M., D. Akanga, D. L. Lombardozzi, D. E. Reed, G. Shirkey, C. Lei, M. Abraha and J. Chen | Challenging a Global Land Surface Model in a Local Socio-Environmental System | Land | 9(10) 398 |
| 2020 | 10.1111/nph.16507 | MacKinnon, K. J. M., B. J. Cole, C. Yu, J. H. Coomey, N. T. Hartwick, M. S. Remigereau, T. Duffy, T. P. Michael, S. A. Kay and S. P. Hazen | Changes in ambient temperature are the prevailing cue in determining Brachypodium distachyon diurnal gene regulation | New Phytologist | 227(6) 1709-1724 |
| 2020 | 10.1042/BST20190119 | Hidalgo-Cantabrana, C. and R. Barrangou | Characterization and applications of Type I CRISPR-Cas systems | Biochemical Society Transactions | 48(1) 15–23 |
| 2020 | 10.3389/fmicb.2020.587127 | Ge, X., M. P. Thorgersen, F. L. Poole, 2nd, A. M. Deutschbauer, J. M. Chandonia, P. S. Novichkov, S. Gushgari-Doyle, L. M. Lui, T. Nielsen, R. Chakraborty, P. D. Adams, A. P. Arkin, T. C. Hazen and M. W. W. Adams | Characterization of a Metal-Resistant Bacillus Strain With a High Molybdate Affinity ModA From Contaminated Sediments at the Oak Ridge Reservation | Frontiers in Microbiology | 11 587127 |
| 2020 | 10.1016/j.chemosphere.2020.126951 | Moon, J. W., C. J. Paradis, D. C. Joyner, F. von Netzer, E. L. Majumder, et al. | Characterization of subsurface media from locations up- and down-gradient of a uranium-contaminated aquifer | Chemosphere | 255 126951 |
| 2020 | 10.1007/s12010-019-03130-x | Crigler, J., M. A. Eiteman and E. Altman | Characterization of the Furfural and 5-Hydroxymethylfurfural (HMF) Metabolic Pathway in the Novel Isolate Pseudomonas putida ALS1267 | Applied Biochemistry and Biotechnology | 190(3) 918–30 |
| 2020 | 10.3390/en13215805 | Juneja, A., D. Kumar, V. K. Singh, Yadvika and V. Singh | Chemical Free Two-Step Hydrothermal Pretreatment to Improve Sugar Yields from Energy Cane | Energies | 13(21) |
| 2020 | 10.1002/cssc.202001471 | Chang, H., G. W. Huber and J. A. Dumesic | Chemical-Switching Strategy for Synthesis and Controlled Release of Norcantharimides from a Biomass-Derived Chemical | ChemSusChem | 13(19) 5213–9 |
| 2020 | 10.1105/tpc.19.00628 | Takeuchi, T., B. B. Sears, C. Lindeboom, Y. T. Lin, N. Fekaris, K. Zienkiewicz, A. Zienkiewicz, E. Poliner and C. Benning | Chlamydomonas CHT7 Is Required for an Effective Quiescent State by Regulating Nutrient-Responsive Cell Cycle Gene Expression | The Plant Cell | 32(4) 1240–69 |
| 2020 | 10.1093/nargab/lqaa049 | Azodi, C. B., J. P. Lloyd and S. H. Shiu | The cis-regulatory codes of response to combined heat and drought stress in Arabidopsis thaliana | NAR Genomics and Bioinformatics | 2(3) lqaa049 |
| 2020 | 10.1002/cbic.201900611 | Stadlmeier, M., L. S. Runtsch, F. Streshnev, M. Wuhr and T. Carell | A Click-Chemistry-Based Enrichable Crosslinker for Structural and Protein Interaction Analysis by Mass Spectrometry | ChemBioChem | 21(1–2) 103–7 |
| 2020 | 10.1073/pnas.2014294117 | Ramundo, S., Y. Asakura, P. A. Salomé, D. Strenkert, M. Boone, et al. | Coexpressed subunits of dual genetic origin define a conserved supercomplex mediating essential protein import into chloroplasts | Proceedings of the National Academy of Sciences of the United States of America | 117(51) 32739-32749 |
| 2020 | 10.1038/s41598-020-73715-8 | Horák, A., A. E. Allen and M. Oborník | Common origin of ornithine–urea cycle in opisthokonts and stramenopiles | Scientific Reports | 10(1) |
| 2020 | 10.1128/AEM.00880-20 | Dirks, A. C. and R. D. Jackson | Community Structure of Arbuscular Mycorrhizal Fungi in Soils of Switchgrass Harvested for Bioenergy | Applied and Environmental Microbiology | 86(19) |
| 2020 | 10.1099/mgen.0.000399 | Hillman, E. T., A. J. Kozik, C. A. Hooker, J. L. Burnett, Y. Heo, V. A. Kiesel, C. J. Nevins, J. Oshiro, M. M. Robins, R. D. Thakkar, S. T. Wu and S. R. Lindemann | Comparative genomics of the genus Roseburia reveals divergent biosynthetic pathways that may influence colonic competition among species | Microbial Genomics | 6(7) |
| 2020 | 10.1016/j.bej.2020.107707 | Stone, K., M. Hilliard, K. Badr, A. Bradford, Q. P. He and J. Wang | Comparative study of oxygen-limited and methane-limited growth phenotypes of Methylomicrobium buryatense 5GB1 | Biochemical Engineering Journal | 161 |
| 2020 | 10.1104/pp.19.01550 | Tsai, C. J., P. Xu, L. J. Xue, H. Hu, B. Nyamdari, et al. | Compensatory Guaiacyl Lignin Biosynthesis at the Expense of Syringyl Lignin in 4CL1-Knockout Poplar | Plant Physiology | 183(1) 123–36 |
| 2020 | 10.1128/MRA.00644-20 | Podar, M., J. Turner, L. H. Burdick and D. A. Pelletier | Complete Genome Sequence of Starkeya sp. Strain ORNL1, a Soil Alphaproteobacterium Isolated from the Rhizosphere of Populus deltoides | Microbiology Resource Announcements | 9(27) |
| 2020 | 10.1128/MRA.00617-20 | Podar, M., J. Turner, L. H. Burdick and D. A. Pelletier | Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere | Microbiology Resource Announcements | 9(27) |
| 2020 | 10.1016/j.csbj.2020.09.019 | Chowdhury, R., V. S. Boorla and C. D. Maranas | Computational biophysical characterization of the SARS-CoV-2 spike protein binding with the ACE2 receptor and implications for infectivity | Computational and Structural Biotechnology Journal | 18 2573–82 |
| 2020 | 10.1002/pro.3974 | Mulligan, V. K., C. S. Kang, M. R. Sawaya, S. Rettie, X. Li, I. Antselovich, T. W. Craven, A. M. Watkins, J. W. Labonte, F. DiMaio, T. O. Yeates and D. Baker | Computational design of mixed chirality peptide macrocycles with internal symmetry | Protein Science | 29(12) 2433-2445 |
| 2020 | 10.1016/j.isci.2019.100795 | Ren, H., C. Shi and H. Zhao | Computational Tools for Discovering and Engineering Natural Product Biosynthetic Pathways | iScience | 23(1) 100795 |
| 2020 | 10.1016/j.compchemeng.2020.107072 | Ryu, J. and C. T. Maravelias | Computationally efficient optimization models for preliminary distillation column design and separation energy targeting | Computers & Chemical Engineering | 143 |
| 2020 | 10.1186/s12870-020-2275-z | Zhang, X., S. B. Fernandes, C. Kaiser, P. Adhikari, P. J. Brown, S. X. Mideros and T. M. Jamann | Conserved defense responses between maize and sorghum to Exserohilum turcicum | BMC Plant Biology | 20(1) 67 |
| 2020 | 10.1074/jbc.RA120.014258 | Cai, Y., X. H. Yu, J. Chai, C. J. Liu and J. Shanklin | A conserved evolutionary mechanism permits Δ9 desaturation of very-long-chain fatty acyl lipids | Journal of Biological Chemistry | 295(32) 11337–45 |
| 2020 | 10.1021/acs.iecr.9b06049 | Lee, J., J. Flores-Cerrillo, J. Wang and Q. P. He | Consistency-Enhanced Evolution for Variable Selection Can Identify Key Chemical Information from Spectroscopic Data | Industrial & Engineering Chemistry Research | 59(8) 3446–57 |
| 2020 | 10.1104/pp.20.00997 | Müller, L. M., L. Campos-Soriano, V. Levesque-Tremblay, A. Bravo, D. A. Daniels, S. Pathak, H. J. Park and M. J. Harrison | Constitutive overexpression of RAM1 leads to an increase in arbuscule density in brachypodium distachyon | Plant Physiology | 184(3) 1263-1272 |
| 2020 | 10.1128/MRA.00587-20 | Myers, K. S., M. Place, D. R. Noguera and T. J. Donohue | COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database | Microbiology Resource Announcements | 9(25) |
| 2020 | 10.1111/jpy.12920 | Wilken, S., C. J. Choi and A. Z. Worden | Contrasting Mixotrophic Lifestyles Reveal Different Ecological Niches in Two Closely Related Marine Protists | Journal of Phycology | 56(1) 52–67 |
| 2020 | 10.1016/j.geoderma.2020.114506 | Kim, K., A. Guber, M. Rivers and A. Kravchenko | Contribution of decomposing plant roots to N2O emissions by water absorption | Geoderma | 375 |
| 2020 | 10.3389/feart.2020.557961 | AminiTabrizi, R., R. M. Wilson, J. D. Fudyma, S. B. Hodgkins, H. M. Heyman, V. I. Rich, S. R. Saleska, J. P. Chanton and M. M. Tfaily | Controls on Soil Organic Matter Degradation and Subsequent Greenhouse Gas Emissions Across a Permafrost Thaw Gradient in Northern Sweden | Frontiers in Earth Science | 8 |
| 2020 | 10.1016/j.mec.2020.e00122 | Cui, J., M. I. Maloney, D. G. Olson and L. R. Lynd | Conversion of phosphoenolpyruvate to pyruvate in Thermoanaerobacterium saccharolyticum | Metabolic Engineering Communications | 10 e00122 |
| 2020 | 10.1038/s41598-020-61081-4 | Toubiana, D., N. Sade, L. Liu, M. M. Rubio Wilhelmi, Y. Brotman, U. Luzarowska, J. P. Vogel and E. Blumwald | Correlation-based network analysis combined with machine learning techniques highlight the role of the GABA shunt in Brachypodium sylvaticum freezing tolerance | Scientific Reports | 10(1) |
| 2020 | 10.1073/pnas.1918539117 | Bao, Y., W. M. Song, P. Wang, X. Yu, B. Li, C. Jiang, S. H. Shiu, H. Zhang and D. C. Bassham | COST1 regulates autophagy to control plant drought tolerance | Proceedings of the National Academy of Sciences of the United States of America | 117(13) 7482–93 |
| 2020 | 10.1021/acssuschemeng.0c02880 | Elder, T., J. C. Del Río, J. Ralph, J. Rencoret, H. Kim, G. T. Beckham and M. F. Crowley | Coupling and Reactions of Lignols and New Lignin Monomers: A Density Functional Theory Study | ACS Sustainable Chemistry and Engineering | 8(30) 11033-11045 |
| 2020 | 10.1016/j.algal.2019.101755 | Li, T. T., L. Q. Jiang, Y. F. Hu, J. T. Paul, C. Zuniga, K. Zengler and M. J. Betenbaugh | Creating a synthetic lichen: Mutualistic co-culture of fungi and extracellular polysaccharide-secreting cyanobacterium Nostoc PCC 7413 | Algal Research | 45 |
| 2020 | 10.15252/msb.20199265 | Choudhury, A., J. A. Fenster, R. G. Fankhauser, J. L. Kaar, O. Tenaillon and R. T. Gill | CRISPR/Cas9 recombineering-mediated deep mutational scanning of essential genes in Escherichia coli | Molecular Systems Biology | 16(3) e9265 |
| 2020 | 10.1534/g3.120.401498 | Stoneman, H. R., R. L. Wrobel, M. Place, M. Graham, D. J. Krause, M. De Chiara, G. Liti, J. Schacherer, R. Landick, A. P. Gasch, T. K. Sato and C. T. Hittinger | CRISpy-Pop: A Web Tool for Designing CRISPR/Cas9-Driven Genetic Modifications in Diverse Populations | G3 Genes|Genomes|Genetics | 10(11) 4287–94 |
| 2020 | 10.1016/j.biortech.2020.122784 | Yoo, C. G., X. Meng, Y. Pu and A. J. Ragauskas | The critical role of lignin in lignocellulosic biomass conversion and recent pretreatment strategies: A comprehensive review | Bioresource Technology | 301 122784 |
| 2020 | 10.1038/s41467-020-18045-z | Lark, T. J., S. A. Spawn, M. Bougie and H. K. Gibbs | Cropland expansion in the United States produces marginal yields at high costs to wildlife | Nature Communications | 11(1) 4295 |
| 2020 | 10.1038/s41594-020-0435-3 | Cao, Q., D. R. Boyer, M. R. Sawaya, P. Ge and D. S. Eisenberg | Cryo-EM structure and inhibitor design of human IAPP (amylin) fibrils | Nature Structural and Molecular Biology | 27(7) 653-659 |
| 2020 | 10.1038/s41594-020-0403-y | Glynn, C., M. R. Sawaya, P. Ge, M. Gallagher-Jones, C. W. Short, R. Bowman, M. Apostol, Z. H. Zhou, D. S. Eisenberg and J. A. Rodriguez | Cryo-EM structure of a human prion fibril with a hydrophobic, protease-resistant core | Nature Structural and Molecular Biology | 27(5) 417-423 |
| 2020 | 10.1021/acssuschemeng.9b07073 | Cao, H., J. D. Walton, P. Brumm and G. N. Phillips | Crystal Structure of α-Xylosidase from Aspergillus niger in Complex with a Hydrolyzed Xyloglucan Product and New Insights in Accurately Predicting Substrate Specificities of GH31 Family Glycosidases | ACS Sustainable Chemistry and Engineering | 8(6) 2540-2547 |
| 2020 | 10.3390/plants9010097 | Mahmud, K., S. Makaju, R. Ibrahim and A. Missaoui | Current Progress in Nitrogen Fixing Plants and Microbiome Research | Plants | 9(1) |
| 2020 | 10.3390/plants9101383 | Sade, N., F. Weng, H. Tajima, Y. Zeron, L. Zhang, M. M. R. Wilhelmi, G. Day, Z. Peleg and E. Blumwald | A cytoplasmic receptor-like kinase contributes to salinity tolerance | Plants | 9(10) 45303 |
| 2020 | 10.1007/s10822-020-00289-y | Parks, C. D., Z. Gaieb, M. Chiu, H. Yang, C. Shao, et al. | D3R grand challenge 4: blind prediction of protein–ligand poses, affinity rankings, and relative binding free energies | Journal of Computer-Aided Molecular Design | 34(2) 99-119 |
| 2020 | 10.1007/978-3-030-30659-5_4 | Ispas, C. | Decision-making training of teachers for inclusive school | Studies in Systems, Decision and Control | 247 79-89 |
| 2020 | 10.1042/BST20190492 | Reddy, A. S. N., J. Huang, N. H. Syed, A. Ben-Hur, S. Dong and L. Gu | Decoding co-/post-transcriptional complexities of plant transcriptomes and epitranscriptome using next-generation sequencing technologies | Biochemical Society Transactions | 48(6) 2399-2414 |
| 2020 | 10.1128/mBio.01349-20 | Naylor, D., S. Fansler, C. Brislawn, W. C. Nelson, K. S. Hofmockel, J. K. Jansson and R. McClure | Deconstructing the Soil Microbiome into Reduced-Complexity Functional Modules | mBio | 11(4) |
| 2020 | 10.1038/s41467-020-18677-1 | Angenent-Mari, N. M., A. S. Garruss, L. R. Soenksen, G. Church and J. J. Collins | A deep learning approach to programmable RNA switches | Nature Communications | 11(1) 5057 |
| 2020 | 10.1016/j.csbj.2020.05.023 | Lee, J. Y., N. C. Sadler, R. G. Egbert, C. R. Anderton, K. S. Hofmockel, J. K. Jansson and H. S. Song | Deep learning predicts microbial interactions from self-organized spatiotemporal patterns | Computational and Structural Biotechnology Journal | 18 1259–69 |
| 2020 | 10.3389/fmicb.2020.00076 | Bratburd, J. R., R. A. Arango and H. A. Horn | Defensive Symbioses in Social Insects Can Inform Human Health and Agriculture | Frontiers in Microbiology | 11 76 |
| 2020 | 10.1016/j.copbio.2019.11.014 | Markel, K., M. S. Belcher and P. M. Shih | Defining and engineering bioenergy plant feedstock ideotypes | Current Opinion in Biotechnology | 62 196–201 |
| 2020 | 10.1038/s41396-019-0510-0 | Malik, A. A., J. B. H. Martiny, E. L. Brodie, A. C. Martiny, K. K. Treseder and S. D. Allison | Defining trait-based microbial strategies with consequences for soil carbon cycling under climate change | The ISME Journal | 14(1) 1–9 |
| 2020 | 10.1002/pld3.268 | Harding, S. A., C. J. Frost and C. J. Tsai | Defoliation-induced compensatory transpiration is compromised in SUT4-RNAi Populus | Plant Direct | 4(9) e00268 |
| 2020 | 10.1128/AEM.00909-20 | Russell, J. F., M. L. Russo, X. Wang, N. Hengge, D. Chung, L. Wells, Y. J. Bomble and J. Westpheling | Deletion of a Peptidylprolyl Isomerase Gene Results in the Inability of Caldicellulosiruptor bescii To Grow on Crystalline Cellulose without Affecting Protein Glycosylation or Growth on Soluble Substrates | Applied and Environmental Microbiology | 86(20) |
| 2020 | 10.1017/s143192762002190x | Parrell, D., K. Lemmer, T. Donohue and E. Wright | Deletion of the ntrYX Two Component System in Rhodobacter sphaeroides Causes the Generation of Diverse Extracellular Membrane Structures | Microscopy and Microanalysis | 26(S2) 2522–3 |
| 2020 | 10.1371/journal.pcbi.1007673 | Lugagne, J. B., H. Lin and M. J. Dunlop | DeLTA: Automated cell segmentation, tracking, and lineage reconstruction using deep learning | PLoS Computational Biology | 16(4) e1007673 |
| 2020 | 10.1021/acssynbio.9b00392 | Cannon, K. A., V. N. Nguyen, C. Morgan and T. O. Yeates | Design and Characterization of an Icosahedral Protein Cage Formed by a Double-Fusion Protein Containing Three Distinct Symmetry Elements | ACS Synthetic Biology | 9(3) 517-524 |
| 2020 | 10.1021/acssynbio.0c00305 | Zhao, E. M., M. A. Lalwani, R. J. Lovelett, S. A. Garciá-Echauri, S. M. Hoffman, C. L. Gonzalez, J. E. Toettcher, I. G. Kevrekidis and J. L. Avalos | Design and Characterization of Rapid Optogenetic Circuits for Dynamic Control in Yeast Metabolic Engineering | ACS Synthetic Biology | 9(12) 3254-3266 |
| 2020 | 10.1002/pro.3802 | Cannon, K. A., R. U. Park, S. E. Boyken, U. Nattermann, S. Yi, D. Baker, N. P. King and T. O. Yeates | Design and structure of two new protein cages illustrate successes and ongoing challenges in protein engineering | Protein Science | 29(4) 919–29 |
| 2020 | 10.1021/acssynbio.9b00407 | McConnell, S. A., K. A. Cannon, C. Morgan, R. McAllister, B. R. Amer, R. T. Clubb and T. O. Yeates | Designed Protein Cages as Scaffolds for Building Multienzyme Materials | ACS Synthetic Biology | 9(2) 381–91 |
| 2020 | 10.1016/j.synbio.2020.01.003 | Gilmore, S. P., S. P. Lillington, C. H. Haitjema, R. de Groot and M. A. O'Malley | Designing chimeric enzymes inspired by fungal cellulosomes | Synthetic and Systems Biotechnology | 5(1) 23–32 |
| 2020 | 10.1021/acssynbio.9b00440 | Choudhury, A., R. G. Fankhauser, E. F. Freed, E. J. Oh, A. B. Morgenthaler, M. C. Bassalo, S. D. Copley, J. L. Kaar and R. T. Gill | Determinants for Efficient Editing with Cas9-Mediated Recombineering in Escherichia coli | ACS Synthetic Biology | 9(5) 1083–99 |
| 2020 | 10.1016/j.mec.2020.e00145 | Lang, X., P. B. Besada-Lombana, M. Li, N. A. Da Silva and I. Wheeldon | Developing a broad-range promoter set for metabolic engineering in the thermotolerant yeast Kluyveromyces marxianus | Metabolic Engineering Communications | 11 e00145 |
| 2020 | 10.3389/fenrg.2020.00072 | Cui, J. X., D. Stevenson, T. Korosh, D. Amador-Noguez, D. G. Olson and L. R. Lynd | Developing a Cell-Free Extract Reaction (CFER) System in Clostridium thermocellum to Identify Metabolic Limitations to Ethanol Production | Frontiers in Energy Research | 8 |
| 2020 | 10.3389/fmicb.2020.01987 | McClure, R., D. Naylor, Y. Farris, M. Davison, S. J. Fansler, K. S. Hofmockel and J. K. Jansson | Development and Analysis of a Stable, Reduced Complexity Model Soil Microbiome | Frontiers in Microbiology | 11 1987 |
| 2020 | 10.1016/j.ymben.2020.06.004 | Krüger, A., A. P. Mueller, G. A. Rybnicky, N. L. Engle, Z. K. Yang, T. J. Tschaplinski, S. D. Simpson, M. Köpke and M. C. Jewett | Development of a clostridia-based cell-free system for prototyping genetic parts and metabolic pathways | Metabolic Engineering | 62 95-105 |
| 2020 | 10.3389/fbioe.2020.00772 | Garcia, S., R. A. Thompson, R. J. Giannone, S. Dash, C. D. Maranas and C. T. Trinh | Development of a Genome-Scale Metabolic Model of Clostridium thermocellum and Its Applications for Integration of Multi-Omics Datasets and Computational Strain Design | Frontiers in Bioengineering and Biotechnology | 8 772 |
| 2020 | 10.1038/s41467-020-17837-7 | Carrasco-López, C., E. M. Zhao, A. A. Gil, N. Alam, J. E. Toettcher and J. L. Avalos | Development of light-responsive protein binding in the monobody non-immunoglobulin scaffold | Nature Communications | 11(1) |
| 2020 | 10.1128/AEM.01271-20 | Charubin, K., H. Streett and E. T. Papoutsakis | Development of Strong Anaerobic Fluorescent Reporters for Clostridium acetobutylicum and Clostridium ljungdahlii Using HaloTag and SNAP-tag Proteins | Applied and Environmental Microbiology | 86(20) |
| 2020 | 10.1128/mSystems.00755-20 | Scarborough, M. J., J. J. Hamilton, E. A. Erb, T. J. Donohue and D. R. Noguera | Diagnosing and Predicting Mixed-Culture Fermentations with Unicellular and Guild-Based Metabolic Models | mSystems | 5(5) |
| 2020 | 10.1038/s41893-020-0510-0 | Basso, B. and J. Antle | Digital agriculture to design sustainable agricultural systems | Nature Sustainability | 3(4) 254-256 |
| 2020 | 10.3389/fpls.2020.00479 | Song, B., S. Zhao, W. Shen, C. Collings and S. Y. Ding | Direct Measurement of Plant Cellulose Microfibril and Bundles in Native Cell Walls | Frontiers in Plant Science | 11 479 |
| 2020 | 10.1007/s00216-020-02544-5 | Strobbia, P., R. A. Odion, M. Maiwald, B. Sumpf and T. Vo-Dinh | Direct SERDS sensing of molecular biomarkers in plants under field conditions | Analytical and Bioanalytical Chemistry | 412(14) 3457–66 |
| 2020 | 10.1073/pnas.1905641117 | Albert, S., W. Wietrzynski, C. W. Lee, M. Schaffer, F. Beck, J. M. Schuller, P. A. Salomé, J. M. Plitzko, W. Baumeister and B. D. Engel | Direct visualization of degradation microcompartments at the ER membrane | Proceedings of the National Academy of Sciences of the United States of America | 117(2) 1069-1080 |
| 2020 | 10.7717/peerj.8534 | Carper, D. L., T. J. Lawrence, A. A. Carrell, D. A. Pelletier and D. J. Weston | DISCo-microbe: design of an identifiable synthetic community of microbes | PeerJ | 8 e8534 |
| 2020 | 10.1128/mSphere.00898-20 | Urtecho, G., D. E. Campbell, D. M. Hershey, F. A. Hussain, R. J. Whitaker and G. A. O'Toole | Discovering the Molecular Determinants of Phaeobacter inhibens Susceptibility to Phaeobacter Phage MD18 | mSphere | 5(6) 45304 |
| 2020 | 10.1016/j.cels.2020.05.011 | Davis, J. E., K. D. Insigne, E. M. Jones, Q. A. Hastings, W. C. Boldridge and S. Kosuri | Dissection of c-AMP Response Element Architecture by Using Genomic and Episomal Massively Parallel Reporter Assays | Cell Systems | 11(1) 75-85.e7 |
| 2020 | 10.3390/ijms21249706 | Ogden, A. J., S. Abdali, K. M. Engbrecht, M. Zhou and P. P. Handakumbura | Distinct Preflowering Drought Tolerance Strategies of Sorghum bicolor Genotype RTx430 Revealed by Subcellular Protein Profiling | International Journal of Molecular Sciences | 21(24) |
| 2020 | 10.1016/j.jpdc.2019.07.008 | Young, M. T., J. D. Hinkle, R. Kannan and A. Ramanathan | Distributed Bayesian optimization of deep reinforcement learning algorithms | Journal of Parallel and Distributed Computing | 139 43–52 |
| 2020 | 10.1088/1361-6420/ab6e78 | Borges, C. and G. Biros | A Domain Decomposition Preconditioning for an Inverse Volume Scattering Problem | Inverse Problems | 36(3) |
| 2020 | 10.1128/MRA.01356-19 | Walker, C., S. Ryu, S. Haridas, H. Na, M. Zane, K. LaButti, K. Barry, I. V. Grigoriev and C. T. Trinh | Draft Genome Assemblies of Ionic Liquid-Resistant Yarrowia lipolytica PO1f and Its Superior Evolved Strain, YlCW001 | Microbiology Resource Announcements | 9(9) |
| 2020 | 10.1128/MRA.01149-20 | Ge, X., M. P. Thorgersen, F. L. Poole, 2nd, A. M. Deutschbauer, J. M. Chandonia, P. S. Novichkov, P. D. Adams, A. P. Arkin, T. C. Hazen and M. W. W. Adams | Draft Genome Sequence of Bacillus sp. Strain EB106-08-02-XG196, Isolated from High-Nitrate-Contaminated Sediment | Microbiology Resource Announcements | 9(44) |
| 2020 | 10.1128/MRA.00159-20 | Pelletier, D. A., L. H. Burdick, M. Podar, C. W. Schadt and U. C. Kalluri | Draft Genome Sequence of Larkinella sp. Strain BK230, Isolated from Populus deltoides Roots | Microbiology Resource Announcements | 9(12) |
| 2020 | 10.1128/MRA.00351-20 | Carper, D. L., C. W. Schadt, L. H. Burdick, U. C. Kalluri and D. A. Pelletier | Draft Genome Sequence of Tumebacillus sp. Strain BK434, Isolated from the Roots of Eastern Cottonwood | Microbiology Resource Announcements | 9(22) |
| 2020 | 10.1128/MRA.00956-20 | Morrow, M. A., G. Pold and K. M. DeAngelis | Draft Genome Sequence of a Terrestrial Planctomycete, Singulisphaera sp. Strain GP187, Isolated from Forest Soil | Microbiology Resource Announcements | 9(50) |
| 2020 | 10.1128/MRA.00676-20 | Hovorukha, V., A. Bhattacharyya, O. Iungin, H. Tashyreva, V. Romanovska, et al. | Draft Genome Sequences of Six Strains Isolated from the Rhizosphere of Wheat Grown in Cadmium-Contaminated Soil | Microbiology Resource Announcements | 9(34) |
| 2020 | 10.1093/nar/gkaa621 | Shaffer, M., M. A. Borton, B. B. McGivern, A. A. Zayed, S. L. La Rosa, et al. | DRAM for distilling microbial metabolism to automate the curation of microbiome function | Nucleic Acids Research | 48(16) 8883-8900 |
| 2020 | 10.1093/nar/gkaa600 | Sidore, A. M., C. Plesa, J. A. Samson, N. B. Lubock and S. Kosuri | DropSynth 2.0: High-fidelity multiplexed gene synthesis in emulsions | Nucleic Acids Research | 48(16) E95 |
| 2020 | 10.1038/s41396-020-0683-6 | Malik, A. A., T. Swenson, C. Weihe, E. W. Morrison, J. B. H. Martiny, E. L. Brodie, T. R. Northen and S. D. Allison | Drought and plant litter chemistry alter microbial gene expression and metabolite production | ISME Journal | 14(9) 2236-2247 |
| 2020 | 10.3389/fpls.2020.00599 | Simmons, T., A. B. Styer, G. Pierroz, A. P. Gonçalves, R. Pasricha, A. B. Hazra, P. Bubner and D. Coleman-Derr | Drought Drives Spatial Variation in the Millet Root Microbiome | Frontiers in Plant Science | 11 |
| 2020 | 10.1371/journal.pone.0228560 | Acosta, K., J. Xu, S. Gilbert, E. Denison, T. Brinkman, S. Lebeis and E. Lam | Duckweed hosts a taxonomically similar bacterial assemblage as the terrestrial leaf microbiome | PLoS One | 15(2) e0228560 |
| 2020 | 10.1029/2019WR026058 | Fisher, J. B., B. Lee, A. J. Purdy, G. H. Halverson, M. B. Dohlen, et al. | ECOSTRESS: NASA's Next Generation Mission to Measure Evapotranspiration From the International Space Station | Water Resources Research | 56(4) |
| 2020 | 10.1007/s11104-020-04616-y | Nash, J., R. Laushman and C. Schadt | Ectomycorrhizal fungal diversity interacts with soil nutrients to predict plant growth despite weak plant-soil feedbacks | Plant and Soil | 453(45293) 445–58 |
| 2020 | 10.1111/pce.13702 | Basso, V., A. Kohler, S. Miyauchi, V. Singan, F. Guinet, et al. | An ectomycorrhizal fungus alters sensitivity to jasmonate, salicylate, gibberellin, and ethylene in host roots | Plant Cell & Environment | 43(4) 1047–68 |
| 2020 | 10.3389/fpls.2020.00394 | Yang, X., J. C. Cushman, A. M. Borland and Q. Liu | Editorial: Systems Biology and Synthetic Biology in Relation to Drought Tolerance or Avoidance in Plants | Frontiers in Plant Science | 11 |
| 2020 | 10.1021/acscatal.9b03460 | Chew, A. K., T. W. Walker, Z. Z. Shen, B. Demir, L. Witteman, J. Euclide, G. W. Huber, J. A. Dumesic and R. C. Van Lehn | Effect of Mixed-Solvent Environments on the Selectivity of Acid-Catalyzed Dehydration Reactions | ACS Catalysis | 10(3) 1679–91 |
| 2020 | 10.1111/ele.13576 | Albrecht, M., D. Kleijn, N. M. Williams, M. Tschumi, B. R. Blaauw, et al. | The effectiveness of flower strips and hedgerows on pest control, pollination services and crop yield: a quantitative synthesis | Ecology Letters | 23(10) 1488-1498 |
| 2020 | 10.3389/fenrg.2020.00149 | Wang, Y. Y., P. Sengupta, B. Scheidemantle, Y. Q. Pu, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Effects of CELF Pretreatment Severity on Lignin Structure and the Lignin-Based Polyurethane Properties | Frontiers in Energy Research | 8 |
| 2020 | 10.1128/mBio.00569-20 | Kempher, M. L., X. Tao, R. Song, B. Wu, D. A. Stahl, J. D. Wall, A. P. Arkin, A. Zhou and J. Zhou | Effects of Genetic and Physiological Divergence on the Evolution of a Sulfate-Reducing Bacterium under Conditions of Elevated Temperature | mBio | 11(4) |
| 2020 | 10.1080/09670262.2020.1817569 | Gao, Y., J. Feng, J. Lv, Q. Liu, F. Nan, X. Liu, C.-J. Liu and S. Xie | Effects of nitrogen deficiency on the transcriptome of the oleaginous alga Parachlorella kessleri TY | European Journal of Phycology | 56(2) 203–15 |
| 2020 | 10.1016/j.chemphyslip.2020.104980 | Smith, M. D. and J. C. Smith | Effects of sodium and calcium chloride ionic stresses on model yeast membranes revealed by molecular dynamics simulation | Chemistry and Physics of Lipids | 233 104980 |
| 2020 | 10.1002/aic.16994 | Ryu, J. and C. T. Maravelias | Efficient generalized shortcut distillation model with improved accuracy for superstructure-based process synthesis | AIChE Journal | 66(11) |
| 2020 | 10.1039/c9se00912d | Garedew, M., D. Young-Farhat, S. Bhatia, P. Hao, J. E. Jackson and C. M. Saffron | Electrocatalytic cleavage of lignin model dimers using ruthenium supported on activated carbon cloth | Sustainable Energy and Fuels | 4(3) 1340-1350 |
| 2020 | 10.1021/acscatal.0c01498 | Han, X. T., H. Y. Sheng, C. Yu, T. W. Walker, G. W. Huber, J. S. Qiu and S. Jin | Electrocatalytic Oxidation of Glycerol to Formic Acid by CuCo2O4 Spinel Oxide Nanostructure Catalysts | ACS Catalysis | 10(12) 6741–52 |
| 2020 | 10.1021/acs.accounts.9b00544 | Wang, F. and S. S. Stahl | Electrochemical Oxidation of Organic Molecules at Lower Overpotential: Accessing Broader Functional Group Compatibility with Electron-Proton Transfer Mediators | Accounts of Chemical Research | 53(3) 561–74 |
| 2020 | 10.1094/PHYTO-04-20-0132-RVW | Stutts, L. R. and W. Vermerris | Elucidating anthracnose resistance mechanisms in sorghum-a review | Phytopathology | 110(12) 1863-1876 |
| 2020 | 10.1099/ijsem.0.003798 | Hirose, S., M. Tank, E. Hara, H. Tamaki, K. Mori, S. Takaichi, S. Haruta and S. Hanada | Aquabacterium pictum sp. nov., the first aerobic bacteriochlorophyll a-containing fresh water bacterium in the genus Aquabacterium of the class Betaproteobacteria | International Journal of Systematic and Evolutionary Microbiology | 70(1) 596–603 |
| 2020 | 10.1099/ijsem.0.004465 | Saini, M. K., W. ChihChe, N. Soulier, A. Sebastian, I. Albert, V. Thiel, D. A. Bryant, S. Hanada and M. Tank | Caldichromatium japonicum gen. nov., sp. nov., a novel thermophilic phototrophic purple sulphur bacterium of the Chromatiaceae isolated from Nakabusa hot springs, Japan | International Journal of Systematic and Evolutionary Microbiology | 70(11) 5701–10 |
| 2020 | 10.1094/MPMI-06-19-0154-R | Tuleski, T. R., J. Kimball, F. P. do Amaral, T. P. Pereira, M. Z. Tadra-Sfeir, F. de Oliveira Pedrosa, E. Maltempi de Souza, P. Balint-Kurti, R. A. Monteiro and G. Stacey | Herbaspirillum rubrisubalbicans as a Phytopathogenic Model to Study the Immune System of Sorghum bicolor | Molecular Plant-Microbe Interactions | 33(2) 235–46 |
| 2020 | 10.1128/mSystems.00736-19 | Jacobson, T. B., T. K. Korosh, D. M. Stevenson, C. Foster, C. Maranas, D. G. Olson, L. R. Lynd and D. Amador-Noguez | In Vivo Thermodynamic Analysis of Glycolysis in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum Using 13C and 2H Tracers | mSystems | 5(2) |
| 2020 | 10.1099/ijsem.0.004029 | Wilhelm, R. C., S. J. L. Murphy, N. M. Feriancek, D. C. Karasz, C. M. DeRito, J. D. Newman and D. H. Buckley | Paraburkholderia madseniana sp. nov., a phenolic acid-degrading bacterium isolated from acidic forest soil | International Journal of Systematic and Evolutionary Microbiology | 70(3) 2137–46 |
| 2020 | 10.1099/ijsem.0.004387 | Wilhelm, R. C., K. T. Cyle, C. E. Martinez, D. C. Karasz, J. D. Newman and D. H. Buckley | Paraburkholderia solitsugae sp. nov. and Paraburkholderia elongata sp. nov., phenolic acid-degrading bacteria isolated from forest soil and emended description of Paraburkholderia madseniana | International Journal of Systematic and Evolutionary Microbiology | 70(9) 5093–105 |
| 2020 | 10.1099/ijsem.0.004316 | Buhl, M. and M. Marschal | Prevotella vespertina sp. nov., isolated from an abscess of a hospital patient | International Journal of Systematic and Evolutionary Microbiology | 70(8) 4576–82 |
| 2020 | 10.1099/ijsem.0.004360 | Muramatsu, S., M. Kanamuro, Y. Sato-Takabe, S. Hirose, Y. Muramatsu, S. Takaichi and S. Hanada | Roseobacter cerasinus sp. nov., isolated from a fish farm | International Journal of Systematic and Evolutionary Microbiology | 70(9) 4920–6 |
| 2020 | 10.1111/gcb.15053 | Alster, C. J., J. C. von Fischer, S. D. Allison and K. K. Treseder | Embracing a new paradigm for temperature sensitivity of soil microbes | Global Change Biology | 26(6) 3221–9 |
| 2020 | 10.1002/cssc.202001401 | Zhao, Z. M., Z. H. Liu, Y. Pu, X. Meng, J. Xu, J. S. Yuan and A. J. Ragauskas | Emerging Strategies for Modifying Lignin Chemistry to Enhance Biological Lignin Valorization | ChemSusChem | 13(20) 5423–32 |
| 2020 | 10.1021/acs.est.9b07019 | Gelfand, I., S. K. Hamilton, A. N. Kravchenko, R. D. Jackson, K. D. Thelen and G. P. Robertson | Empirical Evidence for the Potential Climate Benefits of Decarbonizing Light Vehicle Transport in the U.S. with Bioenergy from Purpose-Grown Biomass with and without BECCS | Environmental Science & Technology | 54(5) 2961–74 |
| 2020 | 10.1002/bit.27360 | Seo, H., P. N. Nicely and C. T. Trinh | Endogenous carbohydrate esterases of Clostridium thermocellum are identified and disrupted for enhanced isobutyl acetate production from cellulose | Biotechnology and Bioengineering | 117(7) 2223–36 |
| 2020 | 10.1039/c9np00071b | Galanie, S., D. Entwistle and J. Lalonde | Engineering biosynthetic enzymes for industrial natural product synthesis | Natural Product Reports | 37(8) 1122–43 |
| 2020 | 10.1093/femsyr/foz089 | Oh, E. J. and Y. S. Jin | Engineering of Saccharomyces cerevisiae for efficient fermentation of cellulose | FEMS Yeast Research | 20(1) |
| 2020 | 10.3389/fpls.2020.00282 | Brandon, A. G. and H. V. Scheller | Engineering of Bioenergy Crops: Dominant Genetic Approaches to Improve Polysaccharide Properties and Composition in Biomass | Frontiers in Plant Science | 11 282 |
| 2020 | 10.1038/s41467-020-17721-4 | Liu, R., L. Liang, E. F. Freed, A. Choudhury, C. A. Eckert and R. T. Gill | Engineering regulatory networks for complex phenotypes in E. coli | Nature Communications | 11(1) 4050 |
| 2020 | 10.1007/s10295-020-02299-z | Rubinstein, G. M., G. L. Lipscomb, A. M. Williams-Rhaesa, G. J. Schut, R. M. Kelly and M. W. W. Adams | Engineering the cellulolytic extreme thermophile Caldicellulosiruptor bescii to reduce carboxylic acids to alcohols using plant biomass as the energy source | Journal of Industrial Microbiology and Biotechnology | 47(8) 585–97 |
| 2020 | 10.1016/j.ymben.2020.10.003 | Lee, J. W., S. Kwak, J. J. Liu, S. Yu, E. J. Yun, D. H. Kim, C. Liu, K. H. Kim and Y. S. Jin | Enhanced 2'-Fucosyllactose production by engineered Saccharomyces cerevisiae using xylose as a co-substrate | Metabolic Engineering | 62 322–9 |
| 2020 | 10.1021/acssuschemeng.9b06556 | Nandiwale, K. Y., A. M. Danby, A. Ramanathan, R. V. Chaudhari, A. H. Motagamwala, J. A. Dumesic and B. Subramaniam | Enhanced Acid-Catalyzed Lignin Depolymerization in a Continuous Reactor with Stable Activity | ACS Sustainable Chemistry & Engineering | 8(10) 4096–106 |
| 2020 | 10.1038/s41396-020-00737-5 | Fritts, R. K., J. T. Bird, M. G. Behringer, A. Lipzen, J. Martin, M. Lynch and J. B. McKinlay | Enhanced nutrient uptake is sufficient to drive emergent cross-feeding between bacteria in a synthetic community | ISME Journal | 14(11) 2816-2828 |
| 2020 | 10.1038/s41598-019-57319-5 | Lin, P. C., F. Zhang and H. B. Pakrasi | Enhanced production of sucrose in the fast-growing cyanobacterium Synechococcus elongatus UTEX 2973 | Scientific Reports | 10(1) |
| 2020 | 10.1021/acs.iecr.9b05873 | Hossain, A., M. S. Rahaman, D. Lee, T. K. Phung, C. G. Canlas, B. A. Simmons, S. Renneckar, W. Reynolds, A. George, S. Tulaphol and N. Sathitsuksanoh | Enhanced Softwood Cellulose Accessibility by H3PO4 Pretreatment: High Sugar Yield without Compromising Lignin Integrity | Industrial & Engineering Chemistry Research | 59(2) 1010–24 |
| 2020 | 10.1021/acssuschemeng.9b07226 | Wu, J., R. P. Chandra, K. H. Kim, C. S. Kim, Y. Q. Pu, A. J. Ragauskas and J. N. Saddler | Enhancing Enzyme-Mediated Hydrolysis of Mechanical Pulps by Deacetylation and Delignification | ACS Sustainable Chemistry & Engineering | 8(15) 5847–55 |
| 2020 | 10.1016/j.ymben.2020.07.010 | Luo, Z., N. Liu, Z. Lazar, A. Chatzivasileiou, V. Ward, J. Chen, J. Zhou and G. Stephanopoulos | Enhancing isoprenoid synthesis in Yarrowia lipolytica by expressing the isopentenol utilization pathway and modulating intracellular hydrophobicity | Metabolic Engineering | 61 344–51 |
| 2020 | 10.3389/fenrg.2020.00093 | Comer, A. D., J. P. Abraham, A. J. Steiner, T. C. Korosh, A. L. Markley and B. F. Pfleger | Enhancing photosynthetic production of glycogen-rich biomass for use as a fermentation feedstock | Frontiers in Energy Research | 8 |
| 2020 | 10.3390/genes11010102 | Barthel, S., S. Palluk, N. J. Hillson, J. D. Keasling and D. H. Arlow | Enhancing Terminal Deoxynucleotidyl Transferase Activity on Substrates with 3' Terminal Structures for Enzymatic De Novo DNA Synthesis | Genes | 11(1) |
| 2020 | 10.1007/s00122-020-03659-0 | Bragg, J., P. Tomasi, L. Zhang, T. Williams, D. Wood, J. T. Lovell, A. Healey, J. Schmutz, J. E. Bonnette, P. Cheng, L. Chanbusarakum, T. Juenger and C. M. Tobias | Environmentally responsive QTL controlling surface wax load in switchgrass | Theoretical and Applied Genetics | 133(11) 3119–37 |
| 2020 | 10.1021/acssuschemeng.0c03622 | Smith, P. J., M. E. Ortiz-Soto, C. Roth, W. J. Barnes, J. Seibel, B. R. Urbanowicz and F. Pfrengle | Enzymatic Synthesis of Artificial Polysaccharides | ACS Sustainable Chemistry & Engineering | 8(32) 11853–71 |
| 2020 | 10.1038/s41467-020-19983-4 | Neupert, J., S. D. Gallaher, Y. Lu, D. Strenkert, N. Segal, R. Barahimipour, S. T. Fitz-Gibbon, M. Schroda, S. S. Merchant and R. Bock | An epigenetic gene silencing pathway selectively acting on transgenic DNA in the green alga Chlamydomonas | Nature Communications | 11(1) |
| 2020 | 10.1002/ajb2.1479 | Sun, M., R. A. Folk, M. A. Gitzendanner, P. S. Soltis, Z. Chen, D. E. Soltis and R. P. Guralnick | Estimating rates and patterns of diversification with incomplete sampling: a case study in the rosids | American Journal of Botany | 107(6) 895–909 |
| 2020 | 10.1021/acs.energyfuels.0c03131 | Landucci, L., R. A. Smith, S. Liu, S. D. Karlen and J. Ralph | Eudicot Nutshells: Cell-Wall Composition and Biofuel Feedstock Potential | Energy & Fuels | 34(12) 16274–83 |
| 2020 | 10.1021/acssuschemeng.9b04451 | Rigual, V., G. Papa, A. Rodriguez, M. Wehrs, K. H. Kim, M. Oliet, M. V. Alonso, J. M. Gladden, A. Mukhopadhyay, B. A. Simmons and S. Singh | Evaluating Protic Ionic Liquid for Woody Biomass One-Pot Pretreatment + Saccharification, Followed by Rhodosporidium toruloides Cultivation | ACS Sustainable Chemistry & Engineering | 8(2) 782–91 |
| 2020 | 10.1186/s12864-020-6489-0 | Cuevas, H. E. and L. K. Prom | Evaluation of genetic diversity, agronomic traits, and anthracnose resistance in the NPGS Sudan Sorghum Core collection | BMC Genomics | 21(1) 88 |
| 2020 | 10.1007/s00253-020-10663-3 | Jiang, L., T. Li, J. Jenkins, Y. Hu, C. L. Brueck, H. Pei and M. J. Betenbaugh | Evidence for a mutualistic relationship between the cyanobacteria Nostoc and fungi Aspergilli in different environments | Applied Microbiology and Biotechnology | 104(14) 6413–26 |
| 2020 | 10.7554/eLife.56717 | Fan, P., P. Wang, Y. R. Lou, B. J. Leong, B. M. Moore, C. A. Schenck, R. Combs, P. Cao, F. Brandizzi, S. H. Shiu and R. L. Last | Evolution of a plant gene cluster in Solanaceae and emergence of metabolic diversity | eLife | 9 |
| 2020 | 10.1111/nph.16089 | Sheehan, H., T. Feng, N. Walker-Hale, S. Lopez-Nieves, B. Pucker, et al. | Evolution of l-DOPA 4,5-dioxygenase activity allows for recurrent specialisation to betalain pigmentation in Caryophyllales | New Phytologist | 227(3) 914–29 |
| 2020 | 10.1038/s41467-020-14724-z | VanBuren, R., C. Man Wai, X. Wang, J. Pardo, A. E. Yocca, et al. | Exceptional subgenome stability and functional divergence in the allotetraploid Ethiopian cereal teff | Nature Communications | 11(1) 884 |
| 2020 | 10.1016/j.compchemeng.2019.106650 | Kong, L. and C. T. Maravelias | Expanding the scope of distillation network synthesis using superstructure-based methods | Computers and Chemical Engineering | 133 |
| 2020 | 10.1038/s41396-020-00753-5 | Wu, B., F. Liu, A. Zhou, J. Li, L. Shu, et al. | Experimental evolution reveals nitrate tolerance mechanisms in Desulfovibrio vulgaris | The ISME Journal | 14(11) 2862–76 |
| 2020 | 10.1111/1462-2920.15192 | Aigle, A., C. Gubry-Rangin, C. Thion, K. Y. Estera-Molina, H. Richmond, J. Pett-Ridge, M. K. Firestone, G. W. Nicol and J. I. Prosser | Experimental testing of hypotheses for temperature- and pH-based niche specialization of ammonia oxidizing archaea and bacteria | Environmental Microbiology | 22(9) 4032–45 |
| 2020 | 10.1016/j.biombioe.2020.105473 | Xiao, Y., C. Poovaiah, F. Unda, L. Ritchie, M. Dombrov, C. Phalen, A. Argyros and H. Coleman | Expression of the Trichoderma reesei expansin-like protein, swollenin, in poplar results in biomass with improved sugar release by enzymatic hydrolysis | Biomass and Bioenergy | 134 |
| 2020 | 10.1038/s41598-020-77375-6 | Fatima, M., X. Zhang, J. Lin, P. Zhou, D. Zhou and R. Ming | Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum | Scientific Reports | 10(1) |
| 2020 | 10.1038/s41598-020-63372-2 | Lu, H., M. I. Gordon, V. Amarasinghe and S. H. Strauss | Extensive transcriptome changes during seasonal leaf senescence in field-grown black cottonwood (Populus trichocarpa Nisqually-1) | Scientific Reports | 10(1) 6581 |
| 2020 | 10.1007/s11240-020-01897-0 | Berim, A. and D. R. Gang | Extractability, stability, and accumulation of nepetoidins in Ocimum basilicum L. leaves and cell cultures | Plant Cell, Tissue and Organ Culture | 143(1) 75-85 |
| 2020 | 10.1039/d0sc03261a | Chew, A. K., S. Jiang, W. Zhang, V. M. Zavala and R. C. Van Lehn | Fast predictions of liquid-phase acid-catalyzed reaction rates using molecular dynamics simulations and convolutional neural networks | Chemical Science | 11(46) 12464–76 |
| 2020 | 10.1002/saj2.20010 | Thies, S., D. R. Joshi, S. A. Bruggeman, S. A. Clay, U. Mishra, J. Morile-Miller and D. E. Clay | Fertilizer timing affects nitrous oxide, carbon dioxide, and ammonia emissions from soil | Soil Science Society of America Journal | 84(1) 115–30 |
| 2020 | 10.1117/12.2552993 | Cupil-Garcia, V., P. Strobbia, Y. Ran, B. M. Crawford, H. N. Wang, R. Zentella, T. P. Sun and T. Vo-Dinh | Fiberoptics SERS sensors using plasmonic nanostar probes for detection of molecular biotargets | Progress in Biomedical Optics and Imaging - Proceedings of SPIE | |
| 2020 | 10.1007/s12155-019-10066-x | Kar, S., T. Y. Weng, T. Nakashima, A. Villanueva-Morales, J. R. Stewart, E. J. Sacks, Y. Terajima and T. Yamada | Field Performance of Saccharum x Miscanthus Intergeneric Hybrids (Miscanes) Under Cool Climatic Conditions of Northern Japan | BioEnergy Research | 13(1) 132–46 |
| 2020 | 10.1021/jacs.0c07657 | Li, Y. L., C. T. Zee, J. B. Lin, V. M. Basile, M. Muni, M. D. Flores, J. Munárriz, R. B. Kaner, A. N. Alexandrova, K. N. Houk, S. H. Tolbert and Y. Rubin | Fjord-Edge Graphene Nanoribbons with Site-Specific Nitrogen Substitution | Journal of the American Chemical Society | 142(42) 18093-18102 |
| 2020 | 10.1371/journal.pone.0238327 | Gao, D., P. R. Barber, J. V. Chacko, M. A. Kader Sagar, C. T. Rueden, A. R. Grislis, M. C. Hiner and K. W. Eliceiri | FLIMJ: An open-source ImageJ toolkit for fluorescence lifetime image data analysis | PLoS One | 15(12) e0238327 |
| 2020 | 10.1107/S2059798320008049 | Richards, L. S., C. Millan, J. Miao, M. W. Martynowycz, M. R. Sawaya, T. Gonen, R. J. Borges, I. Usonb and J. A. Rodriguez | Fragment-based determination of a proteinase K structure from MicroED data using ARCiMBOLDO_SHREDDER | Acta Crystallographica Section D: Structural Biology | 76 703–12 |
| 2020 | 10.1080/07060661.2019.1626910 | Kerio, S., H. A. Daniels, M. Gomez-Gallego, J. F. Tabima, R. R. Lenz, K. L. Sondreli, N. J. Grunwald, N. Williams, R. Mcdougal and J. M. LeBoldus | From genomes to forest management - tackling invasive Phytophthora species in the era of genomics | Canadian Journal of Plant Pathology | 42(1) 1–29 |
| 2020 | 10.1111/gcb.15365 | Waring, B. G., B. N. Sulman, S. Reed, A. P. Smith, C. Averill, et al. | From pools to flow: The PROMISE framework for new insights on soil carbon cycling in a changing world | Global Change Biology | 26(12) 6631–43 |
| 2020 | 10.1038/s41396-019-0557-y | Doud, D. F. R., R. M. Bowers, F. Schulz, M. De Raad, K. Deng, et al. | Function-driven single-cell genomics uncovers cellulose-degrading bacteria from the rare biosphere | The ISME Journal | 14(3) 659–75 |
| 2020 | 10.3389/fmicb.2020.01646 | Presley, G. N., J. Zhang, S. O. Purvine and J. S. Schilling | Functional Genomics, Transcriptomics, and Proteomics Reveal Distinct Combat Strategies Between Lineages of Wood-Degrading Fungi With Redundant Wood Decay Mechanisms | Frontiers in Microbiology | 11 |
| 2020 | 10.1038/s41467-019-13913-9 | Gao, C., L. Montoya, L. Xu, M. Madera, J. Hollingsworth, E. Purdom, V. Singan, J. Vogel, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Fungal community assembly in drought-stressed sorghum shows stochasticity, selection, and universal ecological dynamics | Nature Communications | 11(1) 34 |
| 2020 | 10.1128/mSystems.00291-20 | Price, M. N., A. M. Deutschbauer and A. P. Arkin | GapMind: Automated Annotation of Amino Acid Biosynthesis | mSystems | 5(3) |
| 2020 | 10.1186/s13068-020-01690-3 | Sander, K. B., D. Chung, D. M. Klingeman, R. J. Giannone, M. Rodriguez, Jr., J. Whitham, R. L. Hettich, B. H. Davison, J. Westpheling and S. D. Brown | Gene targets for engineering osmotolerance in Caldicellulosiruptor bescii | Biotechnology for Biofuels | 13 50 |
| 2020 | 10.1038/s41467-020-18706-z | Guo, X., Q. Gao, M. Yuan, G. Wang, X. Zhou, et al. | Gene-informed decomposition model predicts lower soil carbon loss due to persistent microbial adaptation to warming | Nature Communications | 11(1) |
| 2020 | 10.1016/j.compchemeng.2019.106653 | Ryu, J., L. X. Kong, A. E. P. de Lima and C. T. Maravelias | A generalized superstructure-based framework for process synthesis | Computers & Chemical Engineering | 133 |
| 2020 | 10.1093/gigascience/giaa093 | Hamilton, J. P., G. T. Godden, E. Lanier, W. W. Bhat, T. J. Kinser, B. Vaillancourt, H. Wang, J. C. Wood, J. Jiang, P. S. Soltis, D. E. Soltis, B. Hamberger and C. R. Buell | Generation of a chromosome-scale genome assembly of the insect-repellent terpenoid-producing Lamiaceae species, Callicarpa americana | GigaScience | 9(9) |
| 2020 | 10.1002/csc2.20049 | Gomez, F. E., J. E. Mullet, A. H. Muliana, K. J. Niklas and W. L. Rooney | The genetic architecture of biomechanical traits in sorghum | Crop Science | 60(1) 82–99 |
| 2020 | 10.7554/eLife.52063 | Hose, J., L. E. Escalante, K. J. Clowers, H. A. Dutcher, D. Robinson, V. Bouriakov, J. J. Coon, E. Shishkova and A. P. Gasch | The genetic basis of aneuploidy tolerance in wild yeast | eLife | 9 |
| 2020 | 10.1038/s41467-020-18630-2 | Espah Borujeni, A., J. Zhang, H. Doosthosseini, A. A. K. Nielsen and C. A. Voigt | Genetic circuit characterization by inferring RNA polymerase movement and ribosome usage | Nature Communications | 11(1) 5001 |
| 2020 | 10.1038/s41564-020-0757-2 | Chen, Y., S. Zhang, E. M. Young, T. S. Jones, D. Densmore and C. A. Voigt | Genetic circuit design automation for yeast | Nature Microbiology | 5(11) 1349–60 |
| 2020 | 10.1111/tpj.14696 | Ellsworth, P. Z., M. J. Feldman, I. Baxter and A. B. Cousins | A genetic link between leaf carbon isotope composition and whole-plant water use efficiency in the C4 grass Setaria | Plant Journal | 102(6) 1234-1248 |
| 2020 | 10.1016/j.ymben.2020.01.005 | Cao, M., Z. Fatma, X. Song, P. H. Hsieh, V. G. Tran, W. L. Lyon, M. Sayadi, Z. Shao, Y. Yoshikuni and H. Zhao | A genetic toolbox for metabolic engineering of Issatchenkia orientalis | Metabolic Engineering | 59 87–97 |
| 2020 | 10.54203/scil.2020.wvj57 | Tshipamba, M. E., N. Lubanza and M. Mwanza | Genome Analysis of Antimicrobial Resistance Genes and Virulence Factors in Multidrug-Resistant Campylobacter fetus Subspecies Isolated from Sheath Wash | World's Veterinary Journal | 10(4) 465–80 |
| 2020 | 10.1038/s41467-020-18923-6 | Mitros, T., A. M. Session, B. T. James, G. A. Wu, M. B. Belaffif, et al. | Genome biology of the paleotetraploid perennial biomass crop Miscanthus | Nature Communications | 11(1) 5442 |
| 2020 | 10.1016/j.ymben.2019.09.007 | Liang, L., R. Liu, K. E. O. Foster, AlakshChoudhury, S. Cook, J. C. Cameron, W. V. Srubar and R. T. Gill | Genome engineering of E. coli for improved styrene production | Metabolic Engineering | 57 74-84 |
| 2020 | 10.1038/s41587-020-0681-2 | Mamidi, S., A. Healey, P. Huang, J. Grimwood, J. Jenkins, et al. | A genome resource for green millet Setaria viridis enables discovery of agronomically valuable loci | Nature Biotechnology | 38(10) 1203-1210 |
| 2020 | 10.1128/MRA.00854-20 | Tshipamba, M. E., S. A. Akinola, L. Ngoma and M. Mwanza | Genome Sequence of Campylobacter fetus subsp. venerealis NW_ED23, Isolated from Bovine Sheath Wash | Microbiology Resource Announcements | 9(40) |
| 2020 | 10.1128/MRA.00229-20 | Jennings, E. C., M. W. Korthauer and J. B. Benoit | Genome Sequence of a Blattabacterium Strain Isolated from the Viviparous Cockroach, Diploptera punctata | Microbiology Resource Announcements | 9(35) |
| 2020 | 10.1128/MRA.00614-20 | DeAngelis, K. M. and G. Pold | Genome Sequences of Frankineae sp. Strain MT45 and Jatrophihabitans sp. Strain GAS493, Two Actinobacteria Isolated from Forest Soil | Microbiology Resource Announcements | 9(38) |
| 2020 | 10.1128/MRA.00770-20 | Reyes, S. M., E. Bolettieri, D. Allen and A. G. Hay | Genome Sequences of Four Strains of Acinetobacter bereziniae Isolated from Human Milk Pumped with a Personal Breast Pump and Hand-Washed Milk Collection Supplies | Microbiology Resource Announcements | 9(44) |
| 2020 | 10.3390/microorganisms8071002 | Kulyashov, M., S. E. Peltek and I. R. Akberdin | A Genome-Scale Metabolic Model of 2,3-Butanediol Production by Thermophilic Bacteria Geobacillus icigianus | Microorganisms | 8(7) |
| 2020 | 10.3389/fcell.2020.566702 | Sertbas, M. and K. O. Ulgen | Genome-Scale Metabolic Modeling for Unraveling Molecular Mechanisms of High Threat Pathogens | Frontiers in Cell and Developmental Biology | 8 |
| 2020 | 10.1016/j.mec.2020.e00148 | Suthers, P. F., H. V. Dinh, Z. Fatma, Y. Shen, S. H. J. Chan, J. D. Rabinowitz, H. Zhao and C. D. Maranas | Genome-scale metabolic reconstruction of the non-model yeast Issatchenkia orientalis SD108 and its application to organic acids production | Metabolic Engineering Communications | 11 e00148 |
| 2020 | 10.1126/sciadv.abd0079 | Shen, X. X., J. L. Steenwyk, A. L. LaBella, D. A. Opulente, X. Zhou, J. Kominek, Y. Li, M. Groenewald, C. T. Hittinger and A. Rokas | Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota | Science Advances | 6(45) |
| 2020 | 10.1128/mSystems.00250-20 | Vera, J. M., I. N. Ghosh, Y. Zhang, A. S. Hebert, J. J. Coon and R. Landick | Genome-Scale Transcription-Translation Mapping Reveals Features of Zymomonas mobilis Transcription Units and Promoters | mSystems | 5(4) |
| 2020 | 10.1128/mSystems.00224-20 | Gordon, G. C., J. C. Cameron, S. T. P. Gupta, M. D. Engstrom, J. L. Reed and B. F. Pfleger | Genome-Wide Analysis of RNA Decay in the Cyanobacterium Synechococcus sp. Strain PCC 7002 | mSystems | 5(4) |
| 2020 | 10.1038/s41598-020-77684-w | Samira, R., J. A. Kimball, L. F. Samayoa, J. B. Holland, T. M. Jamann, P. J. Brown, G. Stacey and P. J. Balint-Kurti | Genome-wide association analysis of the strength of the MAMP-elicited defense response and resistance to target leaf spot in sorghum | Scientific Reports | 10(1) 20817 |
| 2020 | 10.1002/tpg2.20006 | Yang, X., Z. Luo, J. Todd, S. Sood and J. Wang | Genome-wide association study of multiple yield traits in a diversity panel of polyploid sugarcane (Saccharum spp.) | Plant Genome | 13(1) |
| 2020 | 10.3389/fpls.2020.545748 | Chhetri, H. B., A. Furches, D. Macaya-Sanz, A. R. Walker, D. Kainer, P. Jones, A. E. Harman-Ware, T. J. Tschaplinski, D. Jacobson, G. A. Tuskan and S. P. DiFazio | Genome-Wide Association Study of Wood Anatomical and Morphological Traits in Populus trichocarpa | Frontiers in Plant Science | 11 545748 |
| 2020 | 10.1128/MRA.00880-20 | Myers, K. S., J. M. Vera, K. C. Lemmer, A. M. Linz, R. Landick, D. R. Noguera and T. J. Donohue | Genome-Wide Identification of Transcription Start Sites in Two Alphaproteobacteria, Rhodobacter sphaeroides 2.4.1 and Novosphingobium aromaticivorans DSM 12444 | Microbiology Resource Announcements | 9(36) |
| 2020 | 10.1111/gcbb.12731 | Ali, S., D. D. Serba, D. Walker, J. Jenkins, J. Schmutz, S. Bhamidimarri and M. C. Saha | Genome‐wide quantitative trait loci detection for biofuel traits in switchgrass (Panicum virgatum L.) | GCB Bioenergy | 12(11) 923–40 |
| 2020 | 10.1038/s41598-020-75170-x | Ayangbenro, A. S. and O. O. Babalola | Genomic analysis of Bacillus cereus NWUAB01 and its heavy metal removal from polluted soil | Scientific Reports | 10(1) 19660 |
| 2020 | 10.1534/g3.120.401489 | Robinson, A. J., D. O. Natvig and P. S. G. Chain | Genomic Analysis of Diverse Members of the Fungal Genus Monosporascus Reveals Novel Lineages, Unique Genome Content and a Potential Bacterial Associate | G3 Genes|Genomes|Genetics | 10(8) 2573–83 |
| 2020 | 10.15389/agrobiology.2020.4.816eng | Laptev, G. Y. | Genomic and Phenotypical Potential of Antimicrobial Activity of a Bacillus Strain Bacillus megaterium В-4801 | Sel'skokhozyaistvennaya Biologiya [Agricultural Biology] | 55(4) 816–29 |
| 2020 | 10.1016/j.mec.2019.e00107 | Wilken, S. E., S. Seppälä, T. S. Lankiewicz, M. Saxena, J. K. Henske, A. A. Salamov, I. V. Grigoriev and M. A. O'Malley | Genomic and proteomic biases inform metabolic engineering strategies for anaerobic fungi | Metabolic Engineering Communications | 10 |
| 2020 | 10.1128/mSystems.00651-19 | Liu, Y. F., J. Chen, L. S. Zaramela, L. Y. Wang, S. M. Mbadinga, Z. W. Hou, X. L. Wu, J. D. Gu, K. Zengler and B. Z. Mu | Genomic and Transcriptomic Evidence Supports Methane Metabolism in Archaeoglobi | mSystems | 5(2) |
| 2020 | 10.1534/g3.120.401121 | Cruet-Burgos, C. M., H. E. Cuevas, L. K. Prom, J. E. Knoll, L. R. Stutts and W. Vermerris | Genomic Dissection of Anthracnose Colletotrichum sublineolum Resistance Response in Sorghum Differential Line SC112-14 | G3 Genes|Genomes|Genetics | 10(4) 1403–12 |
| 2020 | 10.1016/j.bej.2020.107496 | Nichols, T. M., N. W. Kennedy and D. Tullman-Ercek | A genomic integration platform for heterologous cargo encapsulation in 1,2-propanediol utilization bacterial microcompartments | Biochemical Engineering Journal | 156 |
| 2020 | 10.1093/synbio/ysaa005 | Tiedge, K., A. Muchlinski and P. Zerbe | Genomics-enabled analysis of specialized metabolism in bioenergy crops: current progress and challenges | Synthetic Biology | 5(1) ysaa005 |
| 2020 | 10.1111/nph.16555 | VanWallendael, A., J. Bonnette, T. E. Juenger, F. B. Fritschi, P. A. Fay, R. B. Mitchell, J. Lloyd-Reilley, F. M. Rouquette, Jr., G. C. Bergstrom and D. B. Lowry | Geographic variation in the genetic basis of resistance to leaf rust between locally adapted ecotypes of the biofuel crop switchgrass (Panicum virgatum) | New Phytologist | 227(6) 1696–708 |
| 2020 | 10.1016/j.agrformet.2020.108188 | Poe, J., D. E. Reed, M. Abraha, J. Q. Chen, K. M. Dahlin and A. R. Desai | Geospatial coherence of surface-atmosphere fluxes in the upper Great Lakes region | Agricultural and Forest Meteorology | 295 |
| 2020 | 10.1002/ecy.2887 | Papp, K., B. A. Hungate and E. Schwartz | Glucose triggers strong taxon-specific responses in microbial growth and activity: insights from DNA and RNA qSIP | Ecology | 101(1) e02887 |
| 2020 | 10.1002/anie.202003105 | Ruprecht, C., M. P. Bartetzko, D. Senf, A. Lakhina, P. J. Smith, et al. | A Glycan Array-Based Assay for the Identification and Characterization of Plant Glycosyltransferases | Angewandte Chemie International Edition | 59(30) 12493–8 |
| 2020 | 10.1016/j.biocon.2020.108492 | Haan, N. L. and D. A. Landis | Grassland disturbance effects on first-instar monarch butterfly survival, floral resources, and flower-visiting insects | Biological Conservation | 243 |
| 2020 | 10.1002/jeq2.20082 | Brown, S., M. Pannu and S. C. Fransen | Greener gas? Impact of biosolids on carbon intensity of switchgrass ethanol | Journal of Environmental Quality | 49(4) 1032-1043 |
| 2020 | 10.1016/j.rser.2019.109513 | Johansson, R., S. Meyer, J. Whistance, W. Thompson and D. Debnath | Greenhouse gas emission reduction and cost from the United States biofuels mandate | Renewable and Sustainable Energy Reviews | 119 |
| 2020 | 10.1021/acssynbio.9b00518 | Garcia, S. and C. T. Trinh | Harnessing Natural Modularity of Metabolism with Goal Attainment Optimization to Design a Modular Chassis Cell for Production of Diverse Chemicals | ACS Synthetic Biology | 9(7) 1665–81 |
| 2020 | 10.1525/elementa.069 | Pold, G., L. A. Domeignoz-Horta and K. M. DeAngelis | Heavy and wet: The consequences of violating assumptions of measuring soil microbial growth efficiency using the 18O water method | Elementa | 8(1) |
| 2020 | 10.1002/cssc.202000002 | Gale, M., C. M. Cai and K. L. Gilliard-Abdul-Aziz | Heterogeneous Catalyst Design Principles for the Conversion of Lignin into High-Value Commodity Fuels and Chemicals | ChemSusChem | 13(8) 1947–66 |
| 2020 | 10.1371/journal.pone.0226235 | Kurumbang, N. P., J. M. Vera, A. S. Hebert, J. J. Coon and R. Landick | Heterologous expression of a glycosyl hydrolase and cellular reprogramming enable Zymomonas mobilis growth on cellobiose | PLoS One | 15(8) e0226235 |
| 2020 | 10.1104/pp.19.00740 | Carey, L. M., T. J. Clark, R. R. Deshpande, J. C. Cocuron, E. K. Rustad and Y. Shachar-Hill | High Flux Through the Oxidative Pentose Phosphate Pathway Lowers Efficiency in Developing Camelina Seeds | Plant Physiology | 182(1) 493–506 |
| 2020 | 10.1021/jasms.0c00030 | Campuzano, I. D. G., M. Nshanian, C. Spahr, C. Lantz, C. Netirojjanakul, H. Li, P. Wongkongkathep, J. J. Wolff and J. A. Loo | High Mass Analysis with a Fourier Transform Ion Cyclotron Resonance Mass Spectrometer: From Inorganic Salt Clusters to Antibody Conjugates and beyond | Journal of the American Society for Mass Spectrometry | 31(5) 1155-1162 |
| 2020 | 10.1016/j.biortech.2020.124051 | Cheng, M. H., H. J. Kadhum, G. S. Murthy, B. S. Dien and V. Singh | High solids loading biorefinery for the production of cellulosic sugars from bioenergy sorghum | Bioresource Technology | 318 124051 |
| 2020 | 10.1128/AEM.01621-20 | Banta, A. B., A. L. Enright, C. Siletti and J. M. Peters | A High-Efficacy CRISPR Interference System for Gene Function Discovery in Zymomonas mobilis | Applied and Environmental Microbiology | 86(23) |
| 2020 | 10.1002/bit.27508 | Sun, L., C. A. Atkinson, Y. G. Lee and Y. S. Jin | High-level β-carotene production from xylose by engineered Saccharomyces cerevisiae without overexpression of a truncated HMG1 (tHMG1) | Biotechnology and Bioengineering | 117(11) 3522–32 |
| 2020 | 10.1371/journal.pbio.3000877 | Mutalik, V. K., B. A. Adler, H. S. Rishi, D. Piya, C. Zhong, B. Koskella, E. M. Kutter, R. Calendar, P. S. Novichkov, M. N. Price, A. M. Deutschbauer and A. P. Arkin | High-throughput mapping of the phage resistance landscape in E. coli | PLoS Biology | 18(10) e3000877 |
| 2020 | 10.1007/s00253-020-10469-3 | Monge, E. C., M. Levi, J. N. Forbin, M. D. Legesse, B. A. Udo, T. N. deCarvalho and J. G. Gardner | High-throughput screening of environmental polysaccharide-degrading bacteria using biomass containment and complex insoluble substrates | Applied Microbiology and Biotechnology | 104(8) 3379–89 |
| 2020 | 10.1039/d0sc04392c | Zhou, M., C. Lantz, K. A. Brown, Y. Ge, L. Paša-Tolić, J. A. Loo and F. Lermyte | Higher-order structural characterisation of native proteins and complexes by top-down mass spectrometry | Chemical Science | 11(48) 12918-12936 |
| 2020 | 10.1016/j.cub.2020.06.011 | Leopold, D. R. and P. E. Busby | Host Genotype and Colonist Arrival Order Jointly Govern Plant Microbiome Composition and Function | Current Biology | 30(16) 3260–6.e5 |
| 2020 | 10.1002/ece3.6266 | Simon, S. J., T. J. Tschaplinski, J. M. LeBoldus, K. Keefover-Ring, M. Azeem, J. G. Chen, D. Macaya-Sanz, W. L. MacDonald, W. Muchero and S. P. DiFazio | Host plant genetic control of associated fungal and insect species in a Populus hybrid cross | Ecology and Evolution | 10(11) 5119–34 |
| 2020 | 10.1007/s11104-020-04568-3 | Huang, W. J., S. Gilbert, A. Poulev, K. Acosta, S. Lebeis, C. L. Long and E. Lam | Host-specific and tissue-dependent orchestration of microbiome community structure in traditional rice paddy ecosystems | Plant and Soil | 452(45293) 379–95 |
| 2020 | 10.1016/j.rhisph.2020.100259 | Bilyera, N., I. Kuzyakova, A. Guber, B. S. Razavi and Y. Kuzyakov | How “hot” are hotspots: Statistically localizing the high-activity areas on soil and rhizosphere images | Rhizosphere | 16 |
| 2020 | 10.1016/j.rser.2020.110265 | Zhao, Q., X. Cai, W. Mischo and L. Ma | How do the research and public communities view biofuel development? | Renewable and Sustainable Energy Reviews | 133 |
| 2020 | 10.5194/bg-17-5849-2020 | Chang, K. Y., W. J. Riley, P. M. Crill, R. F. Grant and S. R. Saleska | Hysteretic temperature sensitivity of wetland CH4 fluxes explained by substrate availability and microbial activity | Biogeosciences | 17(22) 5849–60 |
| 2020 | 10.1558/wap.20355 | Tigchelaar, M. | ‘I do the peer review by myself’: A Chinese international student’s approach to process writing | Writing and Pedagogy | 12(45325) 395-422 |
| 2020 | 10.1002/pld3.178 | Xie, M., J. Zhang, V. R. Singan, M. J. McGranahan, P. R. LaFayette, et al. | Identification of functional single nucleotide polymorphism of Populus trichocarpa PtrEPSP-TF and determination of its transcriptional effect | Plant Direct | 4(1) e00178 |
| 2020 | 10.1021/acssynbio.9b00292 | Thompson, M. G., A. N. Pearson, J. F. Barajas, P. Cruz-Morales, N. Sedaghatian, Z. Costello, M. E. Garber, M. R. Incha, L. E. Valencia, E. E. K. Baidoo, H. G. Martin, A. Mukhopadhyay and J. D. Keasling | Identification, Characterization, and Application of a Highly Sensitive Lactam Biosensor from Pseudomonas putida | ACS Synthetic Biology | 9(1) 53–62 |
| 2020 | 10.1016/j.cell.2020.04.046 | Anava, S., M. Neuhof, H. Gingold, O. Sagy, A. Munters, et al. | Illuminating Genetic Mysteries of the Dead Sea Scrolls | Cell | 181(6) 1218–31.e27 |
| 2020 | 10.5334/DSJ-2020-025 | Feng, Z., N. Verdiguel, L. Di Costanzo, D. S. Goodsell, J. D. Westbrook, S. K. Burley and C. Zardecki | Impact of the protein data bank across scientific disciplines | Data Science Journal | 19(1) 45305 |
| 2020 | 10.1016/j.drudis.2020.02.002 | Westbrook, J. D., R. Soskind, B. P. Hudson and S. K. Burley | Impact of the Protein Data Bank on antineoplastic approvals | Drug Discovery Today | 25(5) 837–50 |
| 2020 | 10.1093/femsec/fiaa208 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Impacts of nitrogen addition on switchgrass root-associated diazotrophic community structure and function | FEMS Microbiology Ecology | 96(12) |
| 2020 | 10.1002/bit.27364 | Whitehead, T. A., S. Banta, W. E. Bentley, M. J. Betenbaugh, C. Chan, et al. | The importance and future of biochemical engineering | Biotechnology and Bioengineering | 117(8) 2305–18 |
| 2020 | 10.3390/biology9070155 | Tan, M. H., S. R. Smith, K. K. Hixson, J. Tan, J. K. McCarthy, A. B. Kustka and A. E. Allen | The importance of protein phosphorylation for signaling and metabolism in response to diel light cycling and nutrient availability in a marine diatom | Biology | 9(7) 45316 |
| 2020 | 10.1186/s13068-020-01841-6 | Eugene, A., C. Lapierre and J. Ralph | Improved analysis of arabinoxylan-bound hydroxycinnamate conjugates in grass cell walls | Biotechnology for Biofuels | 13(1) |
| 2020 | 10.1021/acs.analchem.0c00985 | Lu, W., X. Xing, L. Wang, L. Chen, S. Zhang, M. R. McReynolds and J. D. Rabinowitz | Improved Annotation of Untargeted Metabolomics Data through Buffer Modifications That Shift Adduct Mass and Intensity | Analytical Chemistry | 92(17) 11573–81 |
| 2020 | 10.1073/pnas.2001588117 | Wannier, T. M., A. Nyerges, H. M. Kuchwara, M. Czikkely, D. Balogh, G. T. Filsinger, N. C. Borders, C. J. Gregg, M. J. Lajoie, X. Rios, C. Pál and G. M. Church | Improved bacterial recombineering by parallelized protein discovery | Proceedings of the National Academy of Sciences of the United States of America | 117(24) 13689-13698 |
| 2020 | 10.1186/s12864-020-6554-8 | Panchy, N. L., J. P. Lloyd and S. H. Shiu | Improved recovery of cell-cycle gene expression in Saccharomyces cerevisiae from regulatory interactions in multiple omics data | BMC Genomics | 21(1) 159 |
| 2020 | 10.1016/j.ymben.2020.07.008 | Abdel-Mawgoud, A. M. and G. Stephanopoulos | Improving CRISPR/Cas9-mediated genome editing efficiency in Yarrowia lipolytica using direct tRNA-sgRNA fusions | Metabolic Engineering | 62 106–15 |
| 2020 | 10.1016/j.ifacol.2020.12.542 | Lee, J., J. Wang, J. Flores-Cerrillo and Q. P. He | Improving featured-based soft sensing through feature selection | IFAC-PapersOnLine | 53 11338-11343 |
| 2020 | 10.1038/s41589-020-0559-0 | Karim, A. S., Q. M. Dudley, A. Juminaga, Y. Yuan, S. A. Crowe, et al. | In vitro prototyping and rapid optimization of biosynthetic enzymes for cell design | Nature Chemical Biology | 16(8) 912-919 |
| 2020 | 10.1016/j.ymben.2020.05.006 | Dudley, Q. M., A. S. Karim, C. J. Nash and M. C. Jewett | In vitro prototyping of limonene biosynthesis using cell-free protein synthesis | Metabolic Engineering | 61 251–60 |
| 2020 | 10.1371/journal.pone.0232437 | Wilpiszeski, R. L., C. M. Gionfriddo, A. M. Wymore, J. W. Moon, K. A. Lowe, et al. | In-field bioreactors demonstrate dynamic shifts in microbial communities in response to geochemical perturbations | PLoS One | 15(9) e0232437 |
| 2020 | 10.1111/nph.16729 | Valverde-Barrantes, O. J., H. Maherali, C. Baraloto and C. B. Blackwood | Independent evolutionary changes in fine-root traits among main clades during the diversification of seed plants | New Phytologist | 228(2) 541-553 |
| 2020 | 10.1089/ind.2020.29230.nda | Danielson, N., S. McKay, P. Bloom, J. Dunn, N. Jakel, T. Bauer, J. Hannon, M. C. Jewett and B. Shanks | Industrial Biotechnology - An Industry at an Inflection Point | Industrial Biotechnology | 16(6) 321-332 |
| 2020 | 10.1002/eap.2047 | Jach-Smith, L. C. and R. D. Jackson | Inorganic N addition replaces N supplied to switchgrass (Panicum virgatum) by arbuscular mycorrhizal fungi | Ecological Applications | 30(2) e02047 |
| 2020 | 10.1002/cbic.201900560 | Rodrigues, A. V., D. J. Tantillo, A. Mukhopadhyay, J. D. Keasling and H. R. Beller | Insight into the Mechanism of Phenylacetate Decarboxylase (PhdB), a Toluene-Producing Glycyl Radical Enzyme | ChemBioChem | 21(5) 663–71 |
| 2020 | 10.1093/femsec/fiaa229 | Vishnivetskaya, T. A., A. L. Almatari, E. V. Spirina, X. Wu, D. E. Williams, S. M. Pfiffner and E. M. Rivkina | Insights into community of photosynthetic microorganisms from permafrost | FEMS Microbiology Ecology | 96(12) |
| 2020 | 10.1007/978-3-030-21001-4_4 | Hamberger, B., M. M. S. Yuen, E. Buschiazzo, C. Cullis, A. Yuen, C. Ritland, J. Bohlmann and B. Hamberger | An Intact, But Dormant LTR Retrotransposon Defines a Moderately Sized Family in White Spruce (Picea glauca) | The Spruce Genome | Chapter 4 51–63 |
| 2020 | 10.1146/annurev-bioeng-062117-121105 | Mang, A., S. Bakas, S. Subramanian, C. Davatzikos and G. Biros | Integrated Biophysical Modeling and Image Analysis: Application to Neuro-Oncology | Annual Review of Biomedical Engineering | 22 309–41 |
| 2020 | 10.1038/s41540-019-0122-3 | Mazharul Islam, M., V. C. Thomas, M. Van Beek, J. S. Ahn, A. A. Alqarzaee, C. Zhou, P. D. Fey, K. W. Bayles and R. Saha | An integrated computational and experimental study to investigate Staphylococcus aureus metabolism | npj Systems Biology and Applications | 6(1) 3 |
| 2020 | 10.1038/s41598-020-67878-7 | McClure, R. S., J. Y. Lee, T. R. Chowdhury, E. M. Bottos, R. A. White, 3rd, Y. M. Kim, C. D. Nicora, T. O. Metz, K. S. Hofmockel, J. K. Jansson and H. S. Song | Integrated network modeling approach defines key metabolic responses of soil microbiomes to perturbations | Scientific Reports | 10(1) 10882 |
| 2020 | 10.1016/j.cbpa.2020.02.004 | Huang, X., M. Cao and H. Zhao | Integrating biocatalysis with chemocatalysis for selective transformations | Current Opinion in Chemical Biology | 55 161–70 |
| 2020 | 10.1016/j.compchemeng.2020.107126 | Taifan, G. S. P. and C. T. Maravelias | Integration of graphical approaches into optimization-based design of multistage liquid extraction | Computers & Chemical Engineering | 143 |
| 2020 | 10.1038/s41598-020-64921-5 | Sickle, J. J., C. Ni, D. Shen, Z. Wang, M. Jin and T. Lu | Integrative Circuit-Host Modeling of a Genetic Switch in Varying Environments | Scientific Reports | 10(1) 8383 |
| 2020 | 10.1371/JOURNAL.PBIO.3000815 | Goodsell, D. S., M. Voigt, C. Zardecki and S. K. Burley | Integrative illustration for coronavirus outreach | PLoS Biology | 18(8) |
| 2020 | 10.1038/s41598-020-76730-x | Subedi, N. R., P. S. Jung, E. L. Bredeweg, S. Nemati, S. E. Baker, D. N. Christodoulides and A. E. Vasdekis | Integrative quantitative-phase and airy light-sheet imaging | Inverse Problems | 10(1) 20150 |
| 2020 | 10.1021/acschembio.0c00019 | Xu, J. H., J. Eberhardt, B. Hill-Payne, G. E. González-Paéz, J. O. Castellón, B. F. Cravatt, S. Forli, D. W. Wolan and K. M. Backus | Integrative X-ray Structure and Molecular Modeling for the Rationalization of Procaspase-8 Inhibitor Potency and Selectivity | ACS Chemical Biology | 15(2) 575-586 |
| 2020 | 10.1038/s41467-019-13986-6 | Liu, F., J. Mao, W. Kong, Q. Hua, Y. Feng, R. Bashir and T. Lu | Interaction variability shapes succession of synthetic microbial ecosystems | Nature Communications | 11(1) 309 |
| 2020 | 10.1080/15592294.2019.1666649 | Fu, K., G. Bonora and M. Pellegrini | Interactions between core histone marks and DNA methyltransferases predict DNA methylation patterns observed in human cells and tissues | Epigenetics | 15(3) 272–82 |
| 2020 | 10.1086/706198 | Petipas, R. H., A. W. Bowsher, C. S. Bekkering, C. N. Jack, E. E. McLachlan, R. A. White, B. S. Younginger, L. K. Tiemann, S. E. Evans and M. L. Friesen | Interactive Effects of Microbes and Nitrogen on Panicum virgatum Root Functional Traits and Patterns of Phenotypic Selection | International Journal of Plant Sciences | 181(1) 20–32 |
| 2020 | 10.1021/jasms.0c00160 | Zenaidee, M. A., C. Lantz, T. Perkins, W. Jung, R. R. O. Loo and J. A. Loo | Internal Fragments Generated by Electron Ionization Dissociation Enhance Protein Top-Down Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 31(9) 1896-1902 |
| 2020 | 10.1128/mBio.02030-20 | Charubin, K., S. Modla, J. L. Caplan and E. T. Papoutsakis | Interspecies Microbial Fusion and Large-Scale Exchange of Cytoplasmic Proteins and RNA in a Syntrophic Clostridium Coculture | mBio | 11(5) |
| 2020 | 10.1093/femsyr/foaa008 | Libkind, D., D. Peris, F. A. Cubillos, J. L. Steenwyk, D. A. Opulente, Q. K. Langdon, A. Rokas and C. T. Hittinger | Into the wild: new yeast genomes from natural environments and new tools for their analysis | FEMS Yeast Research | 20(2) |
| 2020 | 10.1038/s41467-020-20005-6 | Shen, X. X., Y. Li, C. T. Hittinger, X. X. Chen and A. Rokas | An investigation of irreproducibility in maximum likelihood phylogenetic inference | Nature Communications | 11(1) 6096 |
| 2020 | 10.1093/treephys/tpz020 | Abbas, M., I. Peszlen, R. Shi, H. Kim, R. Katahira, et al. | Involvement of CesA4, CesA7-A/B and CesA8-A/B in secondary wall formation in Populus trichocarpa wood | Tree Physiology | 40(1) 73–89 |
| 2020 | 10.1007/s12010-020-03293-y | Sitepu, I., L. Enriquez, V. Nguyen, R. Fry, B. Simmons, S. Singer, C. Simmons and K. L. Boundy-Mills | Ionic Liquid Tolerance of Yeasts in Family Dipodascaceae and Genus Wickerhamomyces | Applied Biochemistry and Biotechnology | 191(4) 1580–93 |
| 2020 | 10.1016/j.str.2020.08.003 | Chowdhury, R., M. J. Grisewood, V. S. Boorla, Q. Yan, B. F. Pfleger and C. D. Maranas | IPRO+/-: Computational Protein Design Tool Allowing for Insertions and Deletions | Structure | 28(12) 1344–57.e4 |
| 2020 | 10.1038/s41467-020-18124-1 | Sherkhanov, S., T. P. Korman, S. Chan, S. Faham, H. Liu, M. R. Sawaya, W. T. Hsu, E. Vikram, T. Cheng and J. U. Bowie | Isobutanol production freed from biological limits using synthetic biochemistry | Nature Communications | 11(1) |
| 2020 | 10.3390/microorganisms8081137 | Saint-Vincent, P. M., M. Ridout, N. L. Engle, T. J. Lawrence, M. L. Yeary, T. J. Tschaplinski, G. Newcombe and D. A. Pelletier | Isolation, Characterization, and Pathogenicity of Two Pseudomonas syringae Pathovars from Populus trichocarpa Seeds | Microorganisms | 8(8) |
| 2020 | 10.3390/microorganisms8040608 | Zhao, J., X. Zhao, J. Wang, Q. Gong, X. Zhang and G. Zhang | Isolation, Identification and Characterization of Endophytic Bacterium Rhizobium oryzihabitans sp. nov., from Rice Root with Biotechnological Potential in Agriculture | Microorganisms | 8(4) |
| 2020 | 10.1016/j.ymben.2020.03.001 | Gopalakrishnan, S., S. Dash and C. Maranas | K-FIT: An accelerated kinetic parameterization algorithm using steady-state fluxomic data | Metabolic Engineering | 61 197–205 |
| 2020 | 10.1105/TPC.19.00481 | Boxall, S. F., N. Kadu, L. V. Dever, J. Knerová, J. L. Waller, P. J. D. Gould and J. Hartwell | Kalanchoë PPC1 is essential for crassulacean acid metabolism and the regulation of core circadian clock and guard cell signaling genes[CC-BY] | Plant Cell | 32(4) 1136-1160 |
| 2020 | 10.1002/bit.27544 | Hwang, J., A. Hari, R. Cheng, J. G. Gardner and D. Lobo | Kinetic modeling of microbial growth, enzyme activity, and gene deletions: An integrated model of β-glucosidase function in xCellvibrio japonicus | Biotechnology and Bioengineering | 117(12) 3876–90 |
| 2020 | 10.1021/acs.bioconjchem.0c00163 | Sue, C. K., S. A. McConnell, K. Ellis-Guardiola, J. M. Muroski, R. A. McAllister, J. Yu, A. I. Alvarez, C. Chang, R. R. Ogorzalek Loo, J. A. Loo, H. Ton-That and R. T. Clubb | Kinetics and Optimization of the Lysine-Isopeptide Bond Forming Sortase Enzyme from Corynebacterium diphtheriae | Bioconjugate Chemistry | 31(6) 1624-1634 |
| 2020 | 10.1016/j.agee.2020.107085 | Zhang, Y. J., N. L. Haan and D. A. Landis | Landscape composition and configuration have scale-dependent effects on agricultural pest suppression | Agriculture, Ecosystems & Environment | 302 |
| 2020 | 10.1111/biom.13144 | Cao, M., W. Zhou, F. J. Breidt and G. Peers | Large scale maximum average power multiple inference on time-course count data with application to RNA-seq analysis | Biometrics | 76(1) 9–22 |
| 2020 | 10.1128/mBio.01325-20 | Leu, A. O., S. J. McIlroy, J. Ye, D. H. Parks, V. J. Orphan and G. W. Tyson | Lateral Gene Transfer Drives Metabolic Flexibility in the Anaerobic Methane-Oxidizing Archaeal Family Methanoperedenaceae | mBio | 11(3) |
| 2020 | 10.1016/j.scitotenv.2020.139379 | Hussain, M. Z., G. P. Robertson, B. Basso and S. K. Hamilton | Leaching losses of dissolved organic carbon and nitrogen from agricultural soils in the upper US Midwest | Science of the Total Environment | 734 139379 |
| 2020 | 10.3389/fpls.2020.596301 | Sun, Y., Z. Qiao, W. Muchero and J. G. Chen | Lectin Receptor-Like Kinases: The Sensor and Mediator at the Plant Cell Surface | Frontiers in Plant Science | 11 596301 |
| 2020 | 10.1016/j.mec.2019.e00119 | Incha, M. R., M. G. Thompson, J. M. Blake-Hedges, Y. Liu, A. N. Pearson, M. Schmidt, J. W. Gin, C. J. Petzold, A. M. Deutschbauer and J. D. Keasling | Leveraging host metabolism for bisdemethoxycurcumin production in Pseudomonas putida | Metabolic Engineering Communications | 10 e00119 |
| 2020 | 10.5194/bg-17-1293-2020 | Basile, S. J., X. Lin, W. R. Wieder, M. D. Hartman and G. Keppel-Aleks | Leveraging the signature of heterotrophic respiration on atmospheric CO2 for model benchmarking | Biogeosciences | 17(5) 1293–308 |
| 2020 | 10.1126/sciadv.aba1269 | Hill, N. C., J. W. Tay, S. Altus, D. M. Bortz and J. C. Cameron | Life cycle of a cyanobacterial carboxysome | Science Advances | 6(19) eaba1269 |
| 2020 | 10.1093/gigascience/giaa018 | Zhang, J., R. Hu, A. Sreedasyam, T. M. Garcia, A. Lipzen, et al. | Light-responsive expression atlas reveals the effects of light quality and intensity in Kalanchoë fedtschenkoi, a plant with crassulacean acid metabolism | GigaScience | 9(3) |
| 2020 | 10.1002/ecy.3113 | Hall, S. J., W. Huang, V. I. Timokhin and K. E. Hammel | Lignin lags, leads, or limits the decomposition of litter and soil organic carbon | Ecology | 101(9) |
| 2020 | 10.1021/acssuschemeng.0c01109 | Del Río, J. C., J. Rencoret, A. Gutiérrez, T. Elder, H. Kim and J. Ralph | Lignin Monomers from beyond the Canonical Monolignol Biosynthetic Pathway: Another Brick in the Wall | ACS Sustainable Chemistry and Engineering | 8(13) 4997-5012 |
| 2020 | 10.1002/bbb.2083 | Wu, X. Y., J. H. Jiang, C. M. Wang, J. Liu, Y. Q. Pu, A. Ragauskas, S. M. Li and B. Yang | Lignin-derived electrochemical energy materials and systems | Biofuels, Bioproducts and Biorefining | 14(3) 650–72 |
| 2020 | 10.1186/s12870-020-2305-x | Alexandersson, E., S. Kushwaha, A. Subedi, D. Weighill, S. Climer, D. Jacobson and E. Andreasson | Linking crop traits to transcriptome differences in a progeny population of tetraploid potato | BMC Plant Biology | 20(1) 120 |
| 2020 | 10.1016/j.semcdb.2020.02.014 | Ischebeck, T., H. E. Krawczyk, R. T. Mullen, J. M. Dyer and K. D. Chapman | Lipid droplets in plants and algae: Distribution, formation, turnover and function | Seminars in Cell & Developmental Biology | 108 82–93 |
| 2020 | 10.1007/s00299-019-02488-w | Liu, W., M. R. Rudis, M. H. Cheplick, R. J. Millwood, J. P. Yang, C. A. Ondzighi-Assoume, G. A. Montgomery, K. P. Burris, M. Mazarei, J. D. Chesnut and C. N. Stewart, Jr. | Lipofection-mediated genome editing using DNA-free delivery of the Cas9/gRNA ribonucleoprotein into plant cells | Plant Cell Reports | 39(2) 245–57 |
| 2020 | 10.3390/metabo10010030 | Cocuron, J. C., Z. Ross and A. P. Alonso | Liquid Chromatography Tandem Mass Spectrometry Quantification of 13C-Labeling in Sugars | Metabolites | 10(1) |
| 2020 | 10.1002/agj2.20184 | Novak, J. M., D. W. Watts, P. J. Bauer, D. L. Karlen, P. G. Hunt and U. Mishra | Loamy sand soil approaches organic carbon saturation after 37 years of conservation tillage | Agronomy Journal | 112(4) 3152–62 |
| 2020 | 10.1002/hyp.13630 | Abraha, M., J. Q. Chen, S. K. Hamilton and G. P. Robertson | Long-term evapotranspiration rates for rainfed corn versus perennial bioenergy crops in a mesic landscape | Hydrological Processes | 34(3) 810–22 |
| 2020 | 10.1088/1748-9326/ab865f | Yang, P., Q. K. Zhao and X. M. Cai | Machine learning based estimation of land productivity in the contiguous US using biophysical predictors | Environmental Research Letters | 15(7) |
| 2020 | 10.1002/bbb.2087 | Huntington, T., X. G. Cui, U. Mishra and C. D. Scown | Machine learning to predict biomass sorghum yields under future climate scenarios | Biofuels, Bioproducts and Biorefining | 14(3) 566–77 |
| 2020 | 10.1073/pnas.2012245117 | Liu, W. Y., H. H. Lin, C. P. Yu, C. K. Chang, H. J. Chen, J. J. Lin, M. J. Lu, S. L. Tu, S. H. Shiu, S. H. Wu, M. S. B. Ku and W. H. Li | Maize ANT1 modulates vascular development, chloroplast development, photosynthesis, and plant growth | Proceedings of the National Academy of Sciences of the United States of America | 117(35) 21747–56 |
| 2020 | 10.1073/pnas.2004091117 | Liu, W. Y., H. H. Lin, C. P. Yu, C. K. Chang, H. J. Chen, J. J. Lin, M. Y. J. Lu, S. L. Tu, S. H. Shiu, S. H. Wu, M. S. B. Ku and W. H. Li | Maize ANT1 modulates vascular development, chloroplast development, photosynthesis, and plant growth | Proceedings of the National Academy of Sciences of the United States of America | 117(35) 21747-21756 |
| 2020 | 10.1073/pnas.2010087117 | Henry, K. K., W. Ross, K. S. Myers, K. C. Lemmer, J. M. Vera, R. Landick, T. J. Donohue and R. L. Gourse | A majority of Rhodobacter sphaeroides promoters lack a crucial RNA polymerase recognition feature, enabling coordinated transcription activation | Proceedings of the National Academy of Sciences of the United States of America | 117(47) 29658–68 |
| 2020 | 10.1038/s41467-020-14981-y | Dong, O. X., S. Yu, R. Jain, N. Zhang, P. Q. Duong, C. Butler, Y. Li, A. Lipzen, J. A. Martin, K. W. Barry, J. Schmutz, L. Tian and P. C. Ronald | Marker-free carotenoid-enriched rice generated through targeted gene insertion using CRISPR-Cas9 | Nature Communications | 11(1) 1178 |
| 2020 | 10.1002/bit.27343 | Xue, P., T. Si, S. Mishra, L. Zhang, K. Choe, J. V. Sweedler and H. Zhao | A mass spectrometry-based high-throughput screening method for engineering fatty acid synthases with improved production of medium-chain fatty acids | Biotechnology and Bioengineering | 117(7) 2131–8 |
| 2020 | 10.1128/mSystems.00151-20 | Sieradzki, E. T., B. J. Koch, A. Greenlon, R. Sachdeva, R. R. Malmstrom, R. L. Mau, S. J. Blazewicz, M. K. Firestone, K. S. Hofmockel, E. Schwartz, B. A. Hungate and J. Pett-Ridge | Measurement Error and Resolution in Quantitative Stable Isotope Probing: Implications for Experimental Design | mSystems | 5(4) |
| 2020 | 10.1038/s41598-020-66916-8 | Jakes, J. E., S. L. Zelinka, C. G. Hunt, P. Ciesielski, C. R. Frihart, D. Yelle, L. Passarini, S. C. Gleber, D. Vine and S. Vogt | Measurement of moisture-dependent ion diffusion constants in wood cell wall layers using time-lapse micro X-ray fluorescence microscopy | Scientific Reports | 10(1) |
| 2020 | 10.1128/AEM.01036-20 | Zhang, Y. Z., W. X. Zhang and X. L. Chen | Mechanisms for induction of microbial extracellular proteases in response to exterior proteins | Applied and Environmental Microbiology | 86(19) |
| 2020 | 10.1021/acssuschemeng.0c03423 | Li, W. Q., N. Wanninayake, X. Gao, M. Li, Y. Q. Pu, D. Y. Kim, A. J. Ragauskas and J. Shi | Mechanistic Insight into Lignin Slow Pyrolysis by Linking Pyrolysis Chemistry and Carbon Material Properties | ACS Sustainable Chemistry & Engineering | 8(42) 15843–54 |
| 2020 | 10.1002/cssc.202000753 | Li, Y., S. D. Karlen, B. Demir, H. Kim, J. Luterbacher, J. A. Dumesic, S. S. Stahl and J. Ralph | Mechanistic Study of Diaryl Ether Bond Cleavage during Palladium-Catalyzed Lignin Hydrogenolysis | ChemSusChem | 13(17) 4487–94 |
| 2020 | 10.1021/acs.chemrev.9b00717 | Anson, C. W. and S. S. Stahl | Mediated Fuel Cells: Soluble Redox Mediators and Their Applications to Electrochemical Reduction of O2 and Oxidation of H2, Alcohols, Biomass, and Complex Fuels | Chemical Reviews | 120(8) 3749–86 |
| 2020 | 10.1111/tpj.14849 | Sonawane, B. V. and A. B. Cousins | Mesophyll CO2 conductance and leakiness are not responsive to short- and long-term soil water limitations in the C4 plant Sorghum bicolor | The Plant Journal | 103(4) 1590–602 |
| 2020 | 10.1128/mSystems.00516-19 | Contador, C. A., S. K. Lo, S. H. J. Chan and H. M. Lam | Metabolic Analyses of Nitrogen Fixation in the Soybean Microsymbiont Sinorhizobium fredii Using Constraint-Based Modeling | mSystems | 5(1) |
| 2020 | 10.1186/s13068-020-01680-5 | Holwerda, E. K., D. G. Olson, N. M. Ruppertsberger, D. M. Stevenson, S. J. L. Murphy, M. I. Maloney, A. A. Lanahan, D. Amador-Noguez and L. R. Lynd | Metabolic and evolutionary responses of Clostridium thermocellum to genetic interventions aimed at improving ethanol production | Biotechnology for Biofuels | 13 40 |
| 2020 | 10.1016/j.plipres.2020.101069 | Xu, C., J. Fan and J. Shanklin | Metabolic and functional connections between cytoplasmic and chloroplast triacylglycerol storage | Progress in Lipid Research | 80 101069 |
| 2020 | 10.1186/s12866-020-01768-w | Grettenberger, C. L., J. R. Havig and T. L. Hamilton | Metabolic diversity and co-occurrence of multiple Ferrovum species at an acid mine drainage site | BMC Microbiology | 20(1) 119 |
| 2020 | 10.1016/j.ymben.2020.05.008 | Yan, Q., T. R. Simmons, W. T. Cordell, N. J. Hernández Lozada, C. J. Breckner, X. Chen, M. A. Jindra and B. F. Pfleger | Metabolic engineering of β-oxidation to leverage thioesterases for production of 2-heptanone, 2-nonanone and 2-undecanone | Metabolic Engineering | 61 335-343 |
| 2020 | 10.1128/mSystems.00252-20 | Catlett, J. L., J. Catazaro, M. Cashman, S. Carr, R. Powers, M. B. Cohen and N. R. Buan | Metabolic Feedback Inhibition Influences Metabolite Secretion by the Human Gut Symbiont Bacteroides thetaiotaomicron | mSystems | 5(5) |
| 2020 | 10.1016/j.coche.2020.05.008 | Hendry, J. I., H. V. Dinh, C. Foster, S. Gopalakrishnan, L. Wang and C. D. Maranas | Metabolic flux analysis reaching genome wide coverage: lessons learned and future perspectives | Current Opinion in Chemical Engineering | 30 17–25 |
| 2020 | 10.1128/AEM.01795-20 | Holwerda, E. K., J. Zhou, S. Hon, D. M. Stevenson, D. Amador-Noguez, L. R. Lynd and J. P. van Dijken | Metabolic Fluxes of Nitrogen and Pyrophosphate in Chemostat Cultures of Clostridium thermocellum and Thermoanaerobacterium saccharolyticum | Applied and Environmental Microbiology | 86(23) |
| 2020 | 10.1002/bit.27529 | Straub, C. T., R. G. Bing, J. K. Otten, L. M. Keller, B. M. Zeldes, M. W. W. Adams and R. M. Kelly | Metabolically engineered Caldicellulosiruptor bescii as a platform for producing acetone and hydrogen from lignocellulose | Biotechnology and Bioengineering | 117(12) 3799–808 |
| 2020 | 10.1128/MRA.00895-20 | Chuckran, P. F., M. Huntemann, A. Clum, B. Foster, B. Foster, et al. | Metagenomes and Metatranscriptomes of a Glucose-Amended Agricultural Soil | Microbiology Resource Announcements | 9(44) |
| 2020 | 10.3389/fmicb.2020.570770 | Khadempour, L., H. Fan, K. Keefover-Ring, C. Carlos-Shanley, N. S. Nagamoto, M. A. Dam, M. T. Pupo and C. R. Currie | Metagenomics Reveals Diet-Specific Specialization of Bacterial Communities in Fungus Gardens of Grass- and Dicot-Cutter Ants | Frontiers in Microbiology | 11 |
| 2020 | 10.1093/femsle/fnaa045 | Semrau, J. D., A. A. DiSpirito, P. K. Obulisamy and C. S. Kang-Yun | Methanobactin from methanotrophs: genetics, structure, function and potential applications | FEMS Microbiology Letters | 367(5) |
| 2020 | 10.1089/cmb.2019.0326 | Gong, B. and E. Purdom | MethCP: Differentially Methylated Region Detection with Change Point Models | Journal of Computational Biology | 27(4) 458–71 |
| 2020 | 10.1007/978-1-0716-0195-2_3 | Hon, S., L. Tian, T. Zheng, J. Cui, L. R. Lynd and D. G. Olson | Methods for Metabolic Engineering of Thermoanaerobacterium saccharolyticum | Metabolic Pathway Engineering | 2096 21–43 |
| 2020 | 10.1104/pp.19.00854 | Zienkiewicz, A., K. Zienkiewicz, E. Poliner, J. A. Pulman, Z. Y. Du, G. Stefano, C. H. Tsai, P. Horn, I. Feussner, E. M. Farre, K. L. Childs, F. Brandizzi and C. Benning | The Microalga Nannochloropsis during Transition from Quiescence to Autotrophy in Response to Nitrogen Availability | Plant Physiology | 182(2) 819–39 |
| 2020 | 10.3389/fenrg.2020.563352 | Roberts, N., M. Hilliard, Q. P. He and J. Wang | A Microalgae-Methanotroph Coculture is a Promising Platform for Fuels and Chemical Production From Wastewater | Frontiers in Energy Research | 8 |
| 2020 | 10.3390/insects11040250 | Dharampal, P. S., L. Diaz-Garcia, M. A. B. Haase, J. Zalapa, C. R. Currie, C. T. Hittinger and S. A. Steffan | Microbial Diversity Associated with the Pollen Stores of Captive-Bred Bumble Bee Colonies | Insects | 11(4) |
| 2020 | 10.1038/s41467-020-17502-z | Domeignoz-Horta, L. A., G. Pold, X. A. Liu, S. D. Frey, J. M. Melillo and K. M. DeAngelis | Microbial diversity drives carbon use efficiency in a model soil | Nature Communications | 11(1) 3684 |
| 2020 | 10.1111/gcb.14994 | Zhang, H., D. S. Goll, Y. P. Wang, P. Ciais, W. R. Wieder, R. Abramoff, Y. Huang, B. Guenet, A. K. Prescher, R. A. Viscarra Rossel, P. Barré, C. Chenu, G. Zhou and X. Tang | Microbial dynamics and soil physicochemical properties explain large-scale variations in soil organic carbon | Global Change Biology | 26(4) 2668-2685 |
| 2020 | 10.1016/j.soilbio.2020.107742 | Sher, Y., N. R. Baker, D. Herman, C. Fossum, L. Hale, X. Zhang, E. Nuccio, M. Saha, J. Zhou, J. Pett-Ridge and M. Firestone | Microbial extracellular polysaccharide production and aggregate stability controlled by switchgrass (Panicum virgatum) root biomass and soil water potential | Soil Biology and Biochemistry | 143 |
| 2020 | 10.1016/j.envint.2020.106068 | He, Z., Y. Deng, M. Xu, J. Li, J. Liang, et al. | Microbial functional genes commonly respond to elevated carbon dioxide | Environment International | 144 |
| 2020 | 10.3389/fmicb.2020.01528 | Dove, N. C., T. J. Rogers, C. Leppanen, D. Simberloff, J. A. Fordyce, V. A. Brown, A. V. LeBude, T. G. Ranney and M. A. Cregger | Microbiome Variation Across Two Hemlock Species With Hemlock Woolly Adelgid Infestation | Frontiers in Microbiology | 11 1528 |
| 2020 | 10.1016/j.xcrm.2020.100077 | Alcon-Giner, C., M. J. Dalby, S. Caim, J. Ketskemety, A. Shaw, et al. | Microbiota Supplementation with Bifidobacterium and Lactobacillus Modifies the Preterm Infant Gut Microbiota and Metabolome: An Observational Study | Cell Reports Medicine | 1(5) 100077 |
| 2020 | 10.1093/nar/gkaa131 | Xu, P., C. Modavi, B. Demaree, F. Twigg, B. Liang, C. Sun, W. Zhang and A. R. Abate | Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery | Nucleic Acids Research | 48(8) e48 |
| 2020 | 10.1021/acs.analchem.0c02124 | Liu, X., R. Zhu, T. Chen, P. Song, F. Lu, F. Xu, J. Ralph and X. Zhang | Mild Acetylation and Solubilization of Ground Whole Plant Cell Walls in EmimAc: A Method for Solution-State NMR in DMSO-d6 | Analytical Chemistry | 92(19) 13101–9 |
| 2020 | 10.1021/acssynbio.9b00420 | Hammer, S. K., Y. Zhang and J. L. Avalos | Mitochondrial Compartmentalization Confers Specificity to the 2-Ketoacid Recursive Pathway: Increasing Isopentanol Production in Saccharomyces cerevisiae | ACS Synthetic Biology | 9(3) 546–55 |
| 2020 | 10.1111/nph.16744 | Jallet, D., D. Xing, A. Hughes, M. Moosburner, M. P. Simmons, A. E. Allen and G. Peers | Mitochondrial fatty acid β-oxidation is required for storage-lipid catabolism in a marine diatom | New Phytologist | 228(3) 946–58 |
| 2020 | 10.1016/j.copbio.2019.07.003 | Liu, N., S. Santala and G. Stephanopoulos | Mixed carbon substrates: a necessary nuisance or a missed opportunity? | Current Opinion in Biotechnology | 62 15–21 |
| 2020 | 10.1371/journal.ppat.1008211 | Ben Maamar, S., A. J. Glawe, T. K. Brown, N. Hellgeth, J. Hu, J. P. Wang, C. Huttenhower and E. M. Hartmann | Mobilizable antibiotic resistance genes are present in dust microbial communities | PLoS Pathogens | 16(1) e1008211 |
| 2020 | 10.3390/life10110299 | Lacerda, M. P., E. J. Oh and C. Eckert | The Model System Saccharomyces cerevisiae Versus Emerging Non-Model Yeasts for the Production of Biofuels | Life | 10(11) |
| 2020 | 10.1371/journal.pcbi.1008137 | Ong, W. K., D. K. Courtney, S. Pan, R. B. Andrade, P. J. Kiley, B. F. Pfleger and J. L. Reed | Model-driven analysis of mutant fitness experiments improves genome-scale metabolic models of Zymomonas mobilis ZM4 | PLoS Computational Biology | 16(8) e1008137 |
| 2020 | 10.1016/j.mec.2020.e00132 | Campos, D. T., C. Zuñiga, A. Passi, J. Del Toro, J. D. Tibocha-Bonilla, A. Zepeda, M. J. Betenbaugh and K. Zengler | Modeling of nitrogen fixation and polymer production in the heterotrophic diazotroph Azotobacter vinelandii DJ: Genome-scale metabolic modeling of Azotobacter vinelandii DJ | Metabolic Engineering Communications | 11 |
| 2020 | 10.1146/annurev-arplant-050718-100221 | Clark, T. J., L. Guo, J. Morgan and J. Schwender | Modeling Plant Metabolism: From Network Reconstruction to Mechanistic Models | Annual Review of Plant Biology | 71 303–26 |
| 2020 | 10.3390/f11020213 | Russell, A. E. and W. J. Parton | Modeling the Effects of Global Change on Ecosystem Processes in a Tropical Rainforest | Forests | 11(2) |
| 2020 | 10.1016/j.jhydrol.2020.124777 | Wang, G. S., W. J. Huang, G. Y. Zhou, M. A. Mayes and J. Z. Zhou | Modeling the processes of soil moisture in regulating microbial and carbon-nitrogen cycling | Journal of Hydrology | 585 |
| 2020 | 10.1093/SYNBIO/YSAA019 | Karim, A. S., F. Liew, S. Garg, B. Vögeli, B. J. Rasor, A. Gonnot, M. Pavan, A. Juminaga, S. D. Simpson, M. Köpke and M. C. Jewett | Modular cell-free expression plasmids to accelerate biological design in cells | Synthetic Biology | 5(1) |
| 2020 | 10.1038/s41598-020-72387-8 | Dalia, T. N., J. L. Chlebek and A. B. Dalia | A modular chromosomally integrated toolkit for ectopic gene expression in Vibrio cholerae | Scientific Reports | 10(1) 15398 |
| 2020 | 10.1104/pp.20.00864 | Takeuchi, T., Y. T. Lin, N. Fekaris, J. Umen, B. B. Sears and C. Benning | Modulation of CHT7 Complexes during Light/Dark- and Nitrogen-Mediated Life Cycle Transitions of Chlamydomonas | Plant Physiology | 184(4) 1762–74 |
| 2020 | 10.3389/fmicb.2020.00341 | Casarrubia, S., E. Martino, S. Daghino, A. Kohler, E. Morin, H. R. Khouja, C. Murat, K. W. Barry, E. A. Lindquist, F. M. Martin and S. Perotto | Modulation of Plant and Fungal Gene Expression Upon Cd Exposure and Symbiosis in Ericoid Mycorrhizal Vaccinium myrtillus | Frontiers in Microbiology | 11 341 |
| 2020 | 10.1002/pmic.202000067 | Abraham, P. E., A. Matthiadis, R. L. Hettich and U. C. Kalluri | Molecular Remodeling in Populus PdKOR RNAi Roots Profiled Using LC-MS/MS Proteomics | Proteomics | 20(24) e2000067 |
| 2020 | 10.1021/acssuschemeng.9b06389 | Kim, H., Q. Z. Li, S. D. Karlen, R. A. Smith, R. Shi, J. Liu, C. M. Yang, S. Tunlaya-Anukit, J. P. Wang, H. M. Chang, R. R. Sederoff, J. Ralph and V. L. Chiang | Monolignol Benzoates Incorporate into the Lignin of Transgenic Populus trichocarpa Depleted in C3H and C4H | ACS Sustainable Chemistry & Engineering | 8(9) 3644–54 |
| 2020 | 10.1038/s41467-020-19428-y | Jian, S., J. Li, G. Wang, L. A. Kluber, C. W. Schadt, J. Liang and M. A. Mayes | Multi-year incubation experiments boost confidence in model projections of long-term soil carbon dynamics | Nature Communications | 11(1) 5864 |
| 2020 | 10.1021/jacs.0c00199 | Zhou, Y., G. E. Klinger, E. L. Hegg, C. M. Saffron and J. E. Jackson | Multiple Mechanisms Mapped in Aryl Alkyl Ether Cleavage via Aqueous Electrocatalytic Hydrogenation over Skeletal Nickel | Journal of the American Chemical Society | 142(8) 4037–50 |
| 2020 | 10.1021/acssynbio.0c00159 | Oh, E. J., R. Liu, L. Liang, E. F. Freed, C. A. Eckert and R. T. Gill | Multiplex Evolution of Antibody Fragments Utilizing a Yeast Surface Display Platform | ACS Synthetic Biology | 9(8) 2197–202 |
| 2020 | 10.3389/fmicb.2020.00005 | Moosburner, M. A., P. Gholami, J. K. McCarthy, M. Tan, V. A. Bielinski and A. E. Allen | Multiplexed Knockouts in the Model Diatom Phaeodactylum by Episomal Delivery of a Selectable Cas9 | Frontiers in Microbiology | 11 5 |
| 2020 | 10.1111/nph.16546 | Woods, D. P., Y. Dong, F. Bouché, K. Mayer, L. Varner, T. S. Ream, N. Thrower, C. Wilkerson, A. Cartwright, R. Sibout, D. Laudencia-Chingcuanco, J. Vogel and R. M. Amasino | Mutations in the predicted DNA polymerase subunit POLD3 result in more rapid flowering of Brachypodium distachyon | New Phytologist | 227(6) 1725-1735 |
| 2020 | 10.1038/s41598-020-76832-6 | Daguerre, Y., V. Basso, S. Hartmann-Wittulski, R. Schellenberger, L. Meyer, J. Bailly, A. Kohler, J. M. Plett, F. Martin and C. Veneault-Fourrey | The mutualism effector MiSSP7 of Laccaria bicolor alters the interactions between the poplar JAZ6 protein and its associated proteins | Scientific Reports | 10(1) 20362 |
| 2020 | 10.1038/s41467-020-15688-w | Hale, K. R. S., F. S. Valdovinos and N. D. Martinez | Mutualism increases diversity, stability, and function of multiplex networks that integrate pollinators into food webs | Nature Communications | 11(1) |
| 2020 | 10.1111/nph.16759 | Plett, J. M., K. L. Plett, J. Wong-Bajracharya, M. de Freitas Pereira, M. D. Costa, A. Kohler, F. Martin and I. C. Anderson | Mycorrhizal effector PaMiSSP10b alters polyamine biosynthesis in Eucalyptus root cells and promotes root colonization | New Phytologist | 228(2) 712–27 |
| 2020 | 10.1111/tpj.14870 | Park, S. and S. Y. Ding | The N-terminal zinc finger of CELLULOSE SYNTHASE6 is critical in defining its functional properties by determining the level of homodimerization in Arabidopsis | The Plant Journal | 103(5) 1826–38 |
| 2020 | 10.1002/was.000400041 | Khalid, M., M. J. Doktycz and S. T. Retterer | Nano-enabled chemical imaging | Wiley Imaging and Microscopy Journal | |
| 2020 | 10.1021/acsomega.9b02849 | Farahi, R. H., A. L. Lereu, A. M. Charrier, U. C. Kalluri, B. H. Davison and A. Passian | Nanomechanics and Raman Spectroscopy of in Situ Native Carbohydrate Storage Granules for Enhancing Starch Quality and Lignocellulosic Biomass Production | ACS Omega | 5(6) 2594–602 |
| 2020 | 10.1146/annurev-marine-010419-010714 | Mayali, X. | NanoSIMS: Microscale Quantification of Biogeochemical Activity with Large-Scale Impacts | Annual Review of Marine Science | 12 449–67 |
| 2020 | 10.1007/s12155-020-10090-2 | Bahri, B. A., G. Daverdin, X. Y. Xu, J. F. Cheng, K. W. Barry, E. C. Brummer, A. Missaoui and K. M. Devos | Natural Variation in Lignin and Pectin Biosynthesis-Related Genes in Switchgrass (Panicum virgatum L.) and Association of SNP Variants with Dry Matter Traits | BioEnergy Research | 13(1) 79–99 |
| 2020 | 10.1007/978-1-0716-0195-2_15 | Jones, P., D. Weighill, M. Shah, S. Climer, J. Schmutz, A. Sreedasyam, G. Tuskan and D. Jacobson | Network Modeling of Complex Data Sets | Metabolic Pathway Engineering | 2096 197–215 |
| 2020 | 10.1111/tpj.14940 | Ko, D. K. and F. Brandizzi | Network-based approaches for understanding gene regulation and function in plants | The Plant Journal | 104(2) 302–17 |
| 2020 | 10.1016/j.copbio.2020.02.001 | Belcher, M. S., J. Mahinthakumar and J. D. Keasling | New frontiers: harnessing pivotal advances in microbial engineering for the biosynthesis of plant-derived terpenoids | Current Opinion in Biotechnology | 65 88–93 |
| 2020 | 10.1038/s41396-019-0582-x | Nuccio, E. E., E. Starr, U. Karaoz, E. L. Brodie, J. Zhou, S. G. Tringe, R. R. Malmstrom, T. Woyke, J. F. Banfield, M. K. Firestone and J. Pett-Ridge | Niche differentiation is spatially and temporally regulated in the rhizosphere | The ISME Journal | 14(4) 999–1014 |
| 2020 | 10.3389/fmicb.2020.568588 | Liang, D., Y. Ouyang, L. Tiemann and G. P. Robertson | Niche Differentiation of Bacterial Versus Archaeal Soil Nitrifiers Induced by Ammonium Inhibition Along a Management Gradient | Frontiers in Microbiology | 11 568588 |
| 2020 | 10.1126/science.abb6310 | North, J. A., A. B. Narrowe, W. Xiong, K. M. Byerly, G. Zhao, S. J. Young, S. Murali, J. A. Wildenthal, W. R. Cannon, K. C. Wrighton, R. L. Hettich and F. R. Tabita | A nitrogenase-like enzyme system catalyzes methionine, ethylene, and methane biogenesis | Science | 369(6507) 1094–8 |
| 2020 | 10.1111/gcbb.12728 | Zeri, M., W. H. Yang, G. Cunha-Zeri, C. D. Gibson and C. J. Bernacchi | Nitrous oxide fluxes over establishing biofuel crops: Characterization of temporal variability using the cross-wavelet analysis | GCB Bioenergy | 12(9) 756–70 |
| 2020 | 10.1002/saj2.20082 | Ruan, L. L. and G. P. Robertson | No-till establishment improves the climate benefit of bioenergy crops on marginal grasslands | Soil Science Society of America Journal | 84(4) 1280–95 |
| 2020 | 10.1093/jxb/eraa060 | Tsogtbaatar, E., J. C. Cocuron and A. P. Alonso | Non-conventional pathways enable pennycress (Thlaspi arvense L.) embryos to achieve high efficiency of oil biosynthesis | Journal of Experimental Botany | 71(10) 3037–51 |
| 2020 | 10.1016/j.micpath.2019.103856 | Srivastava, N., S. Tiwari, K. Bhandari, A. K. Biswal and A. K. S. Rawat | Novel derivatives of plant monomeric phenolics: act as inhibitors of bacterial cell-to-cell communication | Microbial Pathogenesis | 141 103856 |
| 2020 | 10.1128/mBio.00957-20 | Lemmer, K. C., F. Alberge, K. S. Myers, A. C. Dohnalkova, R. E. Schaub, J. D. Lenz, S. Imam, J. P. Dillard, D. R. Noguera and T. J. Donohue | The NtrYX Two-Component System Regulates the Bacterial Cell Envelope | mBio | 11(3) |
| 2020 | 10.1002/cssc.202001238 | Klinger, G. E., Y. Zhou, J. A. Foote, A. M. Wester, Y. Cui, M. Alherech, S. S. Stahl, J. E. Jackson and E. L. Hegg | Nucleophilic Thiols Reductively Cleave Ether Linkages in Lignin Model Polymers and Lignin | ChemSusChem | 13(17) 4394–9 |
| 2020 | 10.7717/peerj.9942 | Jung, H. and C. D. Meile | Numerical investigation of microbial quorum sensing under various flow conditions | PeerJ | 8 e9942 |
| 2020 | 10.1016/j.tig.2020.03.005 | Azodi, C. B., J. Tang and S. H. Shiu | Opening the Black Box: Interpretable Machine Learning for Geneticists | Trends in Genetics | 36(6) 442–55 |
| 2020 | 10.1364/AO.384674 | Larimer, C. J., E. H. Denis, J. D. Suter and J. J. Moran | Optical coherence tomography imaging of plant root growth in soil | Applied Optics | 59(8) 2474–81 |
| 2020 | 10.1016/bs.mie.2020.04.054 | Xue, P., T. Si and H. Zhao | Optically guided mass spectrometry to screen microbial colonies for directed enzyme evolution | Methods in Enzymology | 644 255–73 |
| 2020 | 10.1111/tpj.14949 | Weiss, T., C. Wang, X. Kang, H. Zhao, M. Elena Gamo, C. G. Starker, P. A. Crisp, P. Zhou, N. M. Springer, D. F. Voytas and F. Zhang | Optimization of multiplexed CRISPR/Cas9 system for highly efficient genome editing in Setaria viridis | The Plant Journal | 104(3) 828–38 |
| 2020 | 10.1016/j.copbio.2020.07.012 | Carrasco-López, C., S. A. García-Echauri, T. Kichuk and J. L. Avalos | Optogenetics and biosensors set the stage for metabolic cybergenetics | Current Opinion in Biotechnology | 65 296-309 |
| 2020 | 10.1016/j.soilbio.2020.107986 | Xu, J., S. S. Roley, M. M. Tfaily, R. K. Chu and J. M. Tiedje | Organic amendments change soil organic C structure and microbial community but not total organic matter on sub-decadal scales | Soil Biology and Biochemistry | 150 |
| 2020 | 10.1016/j.compag.2020.105466 | Xu, W. H., G. H. Yu, A. Zare, B. Zurweller, D. Rowland, J. Reyes-Cabrera, F. B. Fritschi, R. Matamala and T. E. Juenger | Overcoming small minirhizotron datasets using transfer learning | Computers and Electronics in Agriculture | 175 |
| 2020 | 10.1111/pbi.13254 | Zhang, J., M. Xie, M. Li, J. Ding, Y. Pu, et al. | Overexpression of a Prefoldin β subunit gene reduces biomass recalcitrance in the bioenergy crop Populus | Plant Biotechnology Journal | 18(3) 859–71 |
| 2020 | 10.1111/pbi.13309 | Rauschendorfer, J., Y. Yordanov, P. Dobrev, R. Vankova, R. Sykes, C. Külheim and V. Busov | Overexpression of a developing xylem cDNA library in transgenic poplar generates high mutation rate specific to wood formation | Plant Biotechnology Journal | 18(6) 1434-1443 |
| 2020 | 10.1134/S1021443720020144 | Seong, E. S., M. R. Jeon, J. H. Choi, J. H. Yoo, J. G. Lee, J. K. Na, N. Y. Kim and C. Y. Yu | Overexpression of S-Adenosylmethionine Synthetase Enhances Tolerance to Cold Stress in Tobacco | Russian Journal of Plant Physiology | 67(2) 242–9 |
| 2020 | 10.1186/s12864-020-6615-z | Ellis, J. C. | P finder: genomic and metagenomic annotation of RNase P RNA gene (rnpB) | BMC Genomics | 21(1) 334 |
| 2020 | 10.1016/j.copbio.2020.10.001 | Rapp, K. M., J. P. Jenkins and M. J. Betenbaugh | Partners for life: building microbial consortia for the future | Current Opinion in Biotechnology | 66 292–300 |
| 2020 | 10.1371/journal.pone.0237368 | Benucci, G. M. N., B. Rennick and G. Bonito | Patient propagules: Do soil archives preserve the legacy of fungal and prokaryotic communities? | PLoS One | 15(8) e0237368 |
| 2020 | 10.1002/jbm.a.36811 | Pierce, A., Y. Zheng, W. L. Wagner, H. V. Scheller, D. Mohnen, A. Tsuda, M. Ackermann and S. J. Mentzer | Pectin biopolymer mechanics and microstructure associated with polysaccharide phase transitions | Journal of Biomedical Materials Research Part A | 108(2) 246–53 |
| 2020 | 10.1111/tpj.14757 | Abraham, P. E., N. Hurtado Castano, D. Cowan-Turner, J. Barnes, S. Poudel, R. Hettich, S. Flütsch, D. Santelia and A. M. Borland | Peeling back the layers of crassulacean acid metabolism: functional differentiation between Kalanchoë fedtschenkoi epidermis and mesophyll proteomes | Plant Journal | 103(2) 869-888 |
| 2020 | 10.1074/jbc.RA119.011239 | Koendjbiharie, J. G., S. Hon, M. Pabst, R. Hooftman, D. M. Stevenson, J. Cui, D. Amador-Noguez, L. R. Lynd, D. G. Olson and R. van Kranenburg | The pentose phosphate pathway of cellulolytic clostridia relies on 6-phosphofructokinase instead of transaldolase | Journal of Biological Chemistry | 295(7) 1867–78 |
| 2020 | 10.1038/s41561-020-0612-3 | Lehmann, J., C. M. Hansel, C. Kaiser, M. Kleber, K. Maher, S. Manzoni, N. Nunan, M. Reichstein, J. P. Schimel, M. S. Torn, W. R. Wieder and I. Kögel-Knabner | Persistence of soil organic carbon caused by functional complexity | Nature Geoscience | 13(8) 529-534 |
| 2020 | 10.1038/s41598-020-64311-x | Frausto, R. F., V. S. Swamy, G. S. L. Peh, P. M. Boere, E. M. Hanser, et al. | Phenotypic and functional characterization of corneal endothelial cells during in vitro expansion | Scientific Reports | 10(1) |
| 2020 | 10.1021/acs.jproteome.0c00253 | MacGilvray, M. E., E. Shishkova, M. Place, E. R. Wagner, J. J. Coon and A. P. Gasch | Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses | Journal of Proteome Research | 19(8) 3405–17 |
| 2020 | 10.1016/j.cbpa.2020.05.003 | Wu, Y., Z. Yang and Y. Lu | Photocaged functional nucleic acids for spatiotemporal imaging in biology | Current Opinion in Chemical Biology | 57 95–104 |
| 2020 | 10.1038/s41586-020-2406-6 | Huang, X., B. Wang, Y. Wang, G. Jiang, J. Feng and H. Zhao | Photoenzymatic enantioselective intermolecular radical hydroalkylation | Nature | 584(7819) 69–74 |
| 2020 | 10.3390/metabo10060250 | Sengupta, A., P. Pritam, D. Jaiswal, A. Bandyopadhyay, H. B. Pakrasi and P. P. Wangikar | Photosynthetic Co-Production of Succinate and Ethylene in A Fast-Growing Cyanobacterium, Synechococcus elongatus PCC 11801 | Metabolites | 10(6) |
| 2020 | 10.1098/rstb.2019.0242 | Isobe, K., N. J. Bouskill, E. L. Brodie, E. A. Sudderth and J. B. H. Martiny | Phylogenetic conservation of soil bacterial responses to simulated global changes | Philosophical Transactions of the Royal Society B: Biological Sciences | 375(1798) |
| 2020 | 10.34133/2020/7914051 | Kalluri, U. C., X. Yang and S. D. Wullschleger | Plant Biosystems Design for a Carbon-Neutral Bioeconomy | BioDesign Research | 2020 |
| 2020 | 10.34133/2020/8051764 | Yang, X., J. I. Medford, K. Markel, P. M. Shih, H. C. De Paoli, et al. | Plant Biosystems Design Research Roadmap 1.0 | BioDesign Research | 2020 8051764 |
| 2020 | 10.1016/j.pbi.2020.09.003 | Bhandari, D. D. and F. Brandizzi | Plant endomembranes and cytoskeleton: moving targets in immunity | Current Opinion in Plant Biology | 58 8–16 |
| 2020 | 10.1128/mSystems.00092-20 | Veach, A. M., H. Chen, Z. K. Yang, A. D. Labbe, N. L. Engle, T. J. Tschaplinski, C. W. Schadt and M. A. Cregger | Plant Hosts Modify Belowground Microbial Community Response to Extreme Drought | mSystems | 5(3) |
| 2020 | 10.1146/annurev-micro-022620-014327 | Fitzpatrick, C. R., I. Salas-González, J. M. Conway, O. M. Finkel, S. Gilbert, D. Russ, P. J. P. L. Teixeira and J. L. Dangl | The Plant Microbiome: From Ecology to Reductionism and beyond | Annual Review of Microbiology | 74 81-100 |
| 2020 | 10.1111/tpj.14783 | Lim, S. D., J. A. Mayer, W. C. Yim and J. C. Cushman | Plant tissue succulence engineering improves water-use efficiency, water-deficit stress attenuation and salinity tolerance in Arabidopsis | Plant Journal | 103(3) 1049-1072 |
| 2020 | 10.1016/j.pbi.2020.03.007 | Cahoon, E. B. and Y. Li-Beisson | Plant unusual fatty acids: learning from the less common | Current Opinion in Plant Biology | 55 66–73 |
| 2020 | 10.1002/lno.11467 | Villa, J. A., Y. Ju, T. Stephen, C. Rey-Sanchez, K. C. Wrighton and G. Bohrer | Plant-mediated methane transport in emergent and floating-leaved species of a temperate freshwater mineral-soil wetland | Limnology and Oceanography | 65(7) 1635-1650 |
| 2020 | 10.1088/2515-7647/ab9714 | Crawford, B. M., H. N. Wang, P. Strobbia, R. Zentella, Z. M. Pei, T. P. Sun and T. Vo-Dinh | Plasmonic Nanobiosensing: from in situ plant monitoring to cancer diagnostics at the point of care | Journal of Physics: Photonics | 2(3) |
| 2020 | 10.1002/jrs.6056 | Cupil‐Garcia, V., P. Strobbia, B. M. Crawford, H. N. Wang, H. Ngo, Y. Liu and T. Vo‐Dinh | Plasmonic nanoplatforms: From surface‐enhanced Raman scattering sensing to biomedical applications | Journal of Raman Spectroscopy | 52(2) 541–53 |
| 2020 | 10.1111/pce.13721 | Kankanala, P., P. Jones, R. S. Nandety, D. A. Jacobson and K. S. Mysore | Plasticity of Phymatotrichopsis omnivora infection strategies is dependent on host and nonhost plant responses | Plant, Cell & Environment | 43(4) 1084–101 |
| 2020 | 10.1016/j.copbio.2020.02.017 | Köpke, M. and S. D. Simpson | Pollution to products: recycling of ‘above ground’ carbon by gas fermentation | Current Opinion in Biotechnology | 65 180-189 |
| 2020 | 10.1111/ejss.13001 | Kravchenko, A., A. Guber, A. Gunina, M. Dippold and Y. Kuzyakov | Pore‐scale view of microbial turnover: Combining 14 C imaging, μCT and zymography after adding soluble carbon to soil pores of specific sizes | European Journal of Soil Science | 72(2) 593–607 |
| 2020 | 10.1080/15321819.2020.1804933 | Olayinka, A., I. M. Ifeorah, O. Omotosho, T. O. C. Faleye, O. Odukaye, O. Bolaji, I. Ibitoye, O. Ope-Ewe, M. O. Adewumi and J. A. Adeniji | A possible risk of environmental exposure to HEV in Ibadan, Oyo State, Nigeria | Journal of Immunoassay and Immunochemistry | 41(5) 875–84 |
| 2020 | 10.1371/journal.pgen.1008680 | Langdon, Q. K., D. Peris, J. I. Eizaguirre, D. A. Opulente, K. V. Buh, K. Sylvester, M. Jarzyna, M. E. Rodríguez, C. A. Lopes, D. Libkind and C. Todd Hittinger | Postglacial migration shaped the genomic diversity and global distribution of the wild ancestor of lager-brewing hybrids | PLoS Genetics | 16(4) |
| 2020 | 10.15252/msb.20209584 | Park, Y., A. Espah Borujeni, T. E. Gorochowski, J. Shin and C. A. Voigt | Precision design of stable genetic circuits carried in highly-insulated E. coli genomic landing pads | Molecular Systems Biology | 16(8) |
| 2020 | 10.1016/j.tree.2019.10.003 | Haan, N. L., Y. Zhang and D. A. Landis | Predicting Landscape Configuration Effects on Agricultural Pest Suppression | Trends in Ecology & Evolution | 35(2) 175–86 |
| 2020 | 10.1111/gcbb.12726 | Martinez-Feria, R. and B. Basso | Predicting soil carbon changes in switchgrass grown on marginal lands under climate change and adaptation strategies | GCB Bioenergy | 12(9) 742-755 |
| 2020 | 10.1093/nar/gkaa264 | Song, Q., J. Lee, S. Akter, M. Rogers, R. Grene and S. Li | Prediction of condition-specific regulatory genes using machine learning | Nucleic Acids Research | 48(11) e62 |
| 2020 | 10.1093/bioinformatics/btaa1075 | Baisya, D. R. and S. Lonardi | Prediction Of Histone Post-Translational Modifications Using Deep Learning | Bioinformatics | 36(24) 5160–7 |
| 2020 | 10.1016/j.jbiotec.2019.12.002 | Srivastava, P. A., E. L. Hegg, B. G. Fox and R. M. Yennamalli | PreDSLpmo: A neural network-based prediction tool for functional annotation of lytic polysaccharide monooxygenases | Journal of Biotechnology | 308 148–55 |
| 2020 | 10.34133/2020/9350905 | Hassan, M. M., G. Yuan, J.-G. Chen, G. A. Tuskan and X. Yang | Prime Editing Technology and Its Prospects for Future Applications in Plant Biology Research | BioDesign Research | 2020 |
| 2020 | 10.1016/j.bpj.2020.04.009 | Yin, S., M. Tien and H. Yang | Prior-Apprised Unsupervised Learning of Subpixel Curvilinear Features in Low Signal/Noise Images | Vaccine | 118(10) 2458–69 |
| 2020 | 10.1021/acssuschemeng.0c05651 | Timokhin, V. I., M. Regner, A. H. Motagamwala, C. Sener, S. D. Karlen, J. A. Dumesic and J. Ralph | Production of p-Coumaric Acid from Corn GVL-Lignin | ACS Sustainable Chemistry & Engineering | 8(47) 17427–38 |
| 2020 | 10.1016/j.biteb.2020.100517 | Zhang, Y., J. Serate, D. Xie, S. Gajbhiye, P. Kulzer, G. Sanford, J. D. Russell, M. McGee, C. Foster, J. J. Coon, R. Landick and T. K. Sato | Production of hydrolysates from unmilled AFEX-pretreated switchgrass and comparative fermentation with Zymomonas mobilis | Bioresource Technology Reports | 11 |
| 2020 | 10.1039/d0gc03218b | Galebach, P. H., J. K. Soeherman, E. Gilcher, A. M. Wittrig, J. Johnson, T. Fredriksen, C. R. Wang, M. P. Lanci, J. A. Dumesic and G. W. Huber | Production of renewable alcohols from maple wood using supercritical methanol hydrodeoxygenation in a semi-continuous flowthrough reactor | Green Chemistry | 22(23) 8462–77 |
| 2020 | 10.1016/j.mec.2019.e00115 | Eng, T., Y. Sasaki, R. A. Herbert, A. Lau, J. Trinh, Y. Chen, M. Mirsiaghi, C. J. Petzold and A. Mukhopadhyay | Production of tetra-methylpyrazine using engineered Corynebacterium glutamicum | Metabolic Engineering Communications | 10 e00115 |
| 2020 | 10.1016/j.biortech.2020.123275 | Cheng, M. H., L. Sun, Y. S. Jin, B. Dien and V. Singh | Production of xylose enriched hydrolysate from bioenergy sorghum and its conversion to β-carotene using an engineered Saccharomyces cerevisiae | Bioresource Technology | 308 123275 |
| 2020 | 10.1002/cpmc.130 | Banta, A. B., R. D. Ward, J. S. Tran, E. E. Bacon and J. M. Peters | Programmable Gene Knockdown in Diverse Bacteria Using Mobile-CRISPRi | Current Protocols in Microbiology | 59(1) e130 |
| 2020 | 10.1016/j.synbio.2020.01.004 | Jakociunas, T., A. K. Klitgaard, E. E. Kontou, J. B. Nielsen, E. Thomsen, et al. | Programmable polyketide biosynthesis platform for production of aromatic compounds in yeast | Synthetic and Systems Biotechnology | 5(1) 11–8 |
| 2020 | 10.1146/annurev-arplant-081519-040100 | Hennacy, J. H. and M. C. Jonikas | Prospects for Engineering Biophysical CO2 Concentrating Mechanisms into Land Plants to Enhance Yields | Annual Review of Plant Biology | 71 461–85 |
| 2020 | 10.1016/j.landusepol.2020.104727 | Lark, T. J. | Protecting our prairies: Research and policy actions for conserving America's grasslands | Land Use Policy | 97 |
| 2020 | 10.1002/anie.201914703 | Luo, X., Y. Li, N. K. Gupta, B. Sels, J. Ralph and L. Shuai | Protection Strategies Enable Selective Conversion of Biomass | Angewandte Chemie International Edition | 59(29) 11704–16 |
| 2020 | 10.1105/tpc.19.00300 | Li, H. M., D. Schnell and S. M. Theg | Protein Import Motors in Chloroplasts: On the Role of Chaperones | The Plant Cell | 32(3) 536–42 |
| 2020 | 10.1038/s41598-020-73446-w | Tessler, M., J. P. Gaffney, A. G. Oliveira, A. Guarnaccia, K. C. Dobi, N. A. Gujarati, M. Galbraith, J. D. Mirza, J. S. Sparks, V. A. Pieribone, R. J. Wood and D. F. Gruber | A putative chordate luciferase from a cosmopolitan tunicate indicates convergent bioluminescence evolution across phyla | Scientific Reports | 10(1) 17724 |
| 2020 | 10.1104/pp.19.00760 | Schwarz, B., C. B. Azodi, S. H. Shiu and P. Bauer | Putative cis-Regulatory Elements Predict Iron Deficiency Responses in Arabidopsis Roots | Plant Physiology | 182(3) 1420–39 |
| 2020 | 10.1016/j.soilbio.2019.107678 | Woolet, J. and T. Whitman | Pyrogenic organic matter effects on soil bacterial community composition | Soil Biology and Biochemistry | 141 |
| 2020 | 10.1534/g3.120.401122 | Lin, F., E. Z. Lazarus and S. Y. Rhee | QTG-Finder2: A Generalized Machine-Learning Algorithm for Prioritizing QTL Causal Genes in Plants | G3 Genes|Genomes|Genetics | 10(7) 2411–21 |
| 2020 | 10.1186/s12870-020-02714-8 | R, M. R. and A. Missaoui | QTL mapping of winter dormancy and associated traits in two switchgrass pseudo-F1 populations: lowland x lowland and lowland x upland | BMC Plant Biology | 20(1) 537 |
| 2020 | 10.1111/gcbb.12729 | Slessarev, E. W., E. E. Nuccio, K. J. McFarlane, C. E. Ramon, M. Saha, M. K. Firestone and J. Pett‐Ridge | Quantifying the effects of switchgrass Panicum virgatum on deep organic C stocks using natural abundance 14C in three marginal soils | GCB Bioenergy | 12(10) 834–47 |
| 2020 | 10.1038/s41467-020-18560-z | Ning, D., M. Yuan, L. Wu, Y. Zhang, X. Guo, X. Zhou, Y. Yang, A. P. Arkin, M. K. Firestone and J. Zhou | A quantitative framework reveals ecological drivers of grassland microbial community assembly in response to warming | Nature Communications | 11(1) 4717 |
| 2020 | 10.1002/saj2.20159 | Purcell, A. M., P. Dijkstra, B. Finley, M. Hayer, B. J. Koch, R. L. Mau, E. Morrissey, K. Papp, E. Schwartz, B. W. Stone and B. A. Hungate | Quantitative stable isotope probing with H2 | Soil Science Society of America Journal | 84(5) 1503–18 |
| 2020 | 10.1021/bk-2020-1374.ch013 | Jagtap, S. S., A. A. Bedekar and C. V. Rao | Quorum sensing in yeast | Quorum Sensing: Microbial Rules of Life | Chapter 13 235–50 |
| 2020 | 10.1016/j.algal.2020.101967 | Metcalf, A. J., A. Nagygyor and N. R. Boyle | Rapid Annotation of Photosynthetic Systems (RAPS): automated algorithm to generate genome-scale metabolic networks from algal genomes | Algal Research | 50 |
| 2020 | 10.1007/s11244-020-01260-9 | Walker, T. W., A. K. Chew, R. C. Van Lehn, J. A. Dumesic and G. W. Huber | Rational Design of Mixed Solvent Systems for Acid-Catalyzed Biomass Conversion Processes Using a Combined Experimental, Molecular Dynamics and Machine Learning Approach | Topics in Catalysis | 63(45481) 649–63 |
| 2020 | 10.1038/s41388-020-01461-2 | Goodsell, D. S. and S. K. Burley | RCSB Protein Data Bank tools for 3D structure-guided cancer research: human papillomavirus (HPV) case study | Oncogene | 39(43) 6623-6632 |
| 2020 | 10.1002/pro.3730 | Goodsell, D. S., C. Zardecki, L. Di Costanzo, J. M. Duarte, B. P. Hudson, I. Persikova, J. Segura, C. Shao, M. Voigt, J. D. Westbrook, J. Y. Young and S. K. Burley | RCSB Protein Data Bank: Enabling biomedical research and drug discovery | Protein Science | 29(1) 52–65 |
| 2020 | 10.1371/journal.pcbi.1008502 | Bittrich, S., S. K. Burley and A. S. Rose | Real-time structural motif searching in proteins using an inverted index strategy | PLoS Computational Biology | 16(12) |
| 2020 | 10.1038/s41467-020-17116-5 | Sun, M., R. A. Folk, M. A. Gitzendanner, P. S. Soltis, Z. Chen, D. E. Soltis and R. P. Guralnick | Recent accelerated diversification in rosids occurred outside the tropics | Nature Communications | 11(1) 3333 |
| 2020 | 10.1002/btpr.3008 | Fatma, Z., J. C. Schultz and H. Zhao | Recent advances in domesticating non-model microorganisms | Biotechnology Progress | 36(5) e3008 |
| 2020 | 10.1111/tpj.14664 | Cousins, A. B., D. L. Mullendore and B. V. Sonawane | Recent developments in mesophyll conductance in C3, C4, and crassulacean acid metabolism plants | The Plant Journal | 101(4) 816–30 |
| 2020 | 10.1016/j.biortech.2019.122724 | Bhatia, S. K., S. S. Jagtap, A. A. Bedekar, R. K. Bhatia, A. K. Patel, D. Pant, J. Rajesh Banu, C. V. Rao, Y. G. Kim and Y. H. Yang | Recent developments in pretreatment technologies on lignocellulosic biomass: Effect of key parameters, technological improvements, and challenges | Bioresource Technology | 300 122724 |
| 2020 | 10.34133/2020/9078303 | Lu, H., G. Yuan, S. H. Strauss, T. J. Tschaplinski, G. A. Tuskan, J.-G. Chen and X. Yang | Reconfiguring Plant Metabolism for Biodegradable Plastic Production | BioDesign Research | 2020 |
| 2020 | 10.1038/s41598-020-73253-3 | Nanda, P., P. Patra, M. Das and A. Ghosh | Reconstruction and analysis of genome-scale metabolic model of weak Crabtree positive yeast Lachancea kluyveri | Scientific Reports | 10(1) 16314 |
| 2020 | 10.3390/en13226022 | Jia, Y. Y., D. Kumar, J. K. Winkler-Moser, B. Dien and V. Singh | Recoveries of Oil and Hydrolyzed Sugars from Corn Germ Meal by Hydrothermal Pretreatment: A Model Feedstock for Lipid-Producing Energy Crops | Energies | 13(22) |
| 2020 | 10.1126/sciadv.aba7599 | Walker, T. W., N. Frelka, Z. Shen, A. K. Chew, J. Banick, S. Grey, M. S. Kim, J. A. Dumesic, R. C. Van Lehn and G. W. Huber | Recycling of multilayer plastic packaging materials by solvent-targeted recovery and precipitation | Science Advances | 6(47) |
| 2020 | 10.1002/biot.201900173 | Kwak, S., E. J. Yun, S. Lane, E. J. Oh, K. H. Kim and Y. S. Jin | Redirection of the Glycolytic Flux Enhances Isoprenoid Production in Saccharomyces cerevisiae | Biotechnology Journal | 15(2) e1900173 |
| 2020 | 10.1094/Pbiomes-05-20-0044-R | Onufrak, A. J., G. M. Williams, W. E. Klingeman, M. A. Cregger, D. M. Klingeman, J. M. DeBruyn, M. D. Ginzel and D. Hadziabdic | Regional Differences in the Structure of Juglans nigra Phytobiome Reflect Geographical Differences in Thousand Cankers Disease Severity | Phytobiomes Journal | 4(4) 388–404 |
| 2020 | 10.1016/j.ymben.2020.06.005 | Liu, Y., I. N. Ghosh, J. Martien, Y. Zhang, D. Amador-Noguez and R. Landick | Regulated redirection of central carbon flux enhances anaerobic production of bioproducts in Zymomonas mobilis | Metabolic Engineering | 61 261–74 |
| 2020 | 10.1021/acschembio.0c00055 | Kuru, E., R. M. Määttälä, K. Noguera, D. A. Stork, K. Narasimhan, J. Rittichier, D. Wiegand and G. M. Church | Release factor inhibiting antimicrobial peptides improve nonstandard amino acid incorporation in wild-type bacterial cells | ACS Chemical Biology | 15(7) 1852-1861 |
| 2020 | 10.1021/acs.analchem.9b05718 | May, J. C., R. Knochenmuss, J. C. Fjeldsted and J. A. McLean | Resolution of Isomeric Mixtures in Ion Mobility Using a Combined Demultiplexing and Peak Deconvolution Technique | Analytical Chemistry | 92(14) 9482–92 |
| 2020 | 10.1002/cssc.202000268 | Park, M. R., Y. Chen, M. Thompson, V. T. Benites, B. Fong, C. J. Petzold, E. E. K. Baidoo, J. M. Gladden, P. D. Adams, J. D. Keasling, B. A. Simmons and S. W. Singer | Response of Pseudomonas putida to Complex, Aromatic-Rich Fractions from Biomass | ChemSusChem | 13(17) 4455–67 |
| 2020 | 10.1016/j.plantsci.2020.110675 | Beuchat, G., X. Xue and L. Q. Chen | Review: The Next Steps in Crop Improvement: Adoption of Emerging Strategies to Identify Bottlenecks in Sugar Flux | Plant Science | 301 110675 |
| 2020 | 10.1016/j.ymben.2019.04.009 | Yan, Q. and B. F. Pfleger | Revisiting metabolic engineering strategies for microbial synthesis of oleochemicals | Metabolic Engineering | 58 35–46 |
| 2020 | 10.1016/j.soilbio.2020.107819 | Barnard, R. L., S. J. Blazewicz and M. K. Firestone | Rewetting of soil: Revisiting the origin of soil CO2 emissions | Soil Biology and Biochemistry | 147 |
| 2020 | 10.1073/pnas.2020204117 | Todor, H., H. Osadnik, E. A. Campbell, K. S. Myers, H. Li, T. J. Donohue and C. A. Gross | Rewiring the specificity of extracytoplasmic function sigma factors | Proceedings of the National Academy of Sciences of the United States of America | 117(52) 33496–506 |
| 2020 | 10.1016/j.cbpa.2020.08.005 | Gambacorta, F. V., J. J. Dietrich, Q. Yan and B. F. Pfleger | Rewiring yeast metabolism to synthesize products beyond ethanol | Current Opinion in Chemical Biology | 59 182–92 |
| 2020 | 10.1073/pnas.1920877117 | Field, J. L., T. L. Richard, E. A. H. Smithwick, H. Cai, M. S. Laser, D. S. LeBauer, S. P. Long, K. Paustian, Z. Qin, J. J. Sheehan, P. Smith, M. Q. Wang and L. R. Lynd | Robust paths to net greenhouse gas mitigation and negative emissions via advanced biofuels | Proceedings of the National Academy of Sciences of the United States of America | 117(36) 21968–77 |
| 2020 | 10.1111/gcbb.12768 | Kim, S. Y., R. A. Slattery and D. R. Ort | A role for differential Rubisco activase isoform expression in C4 bioenergy grasses at high temperature | GCB Bioenergy | 13(1) 211–23 |
| 2020 | 10.1021/acssuschemeng.0c00779 | Nill, J. D. and T. Jeoh | The Role of Evolving Interfacial Substrate Properties on Heterogeneous Cellulose Hydrolysis Kinetics | ACS Sustainable Chemistry & Engineering | 8(17) 6722–33 |
| 2020 | 10.1007/978-1-0716-0142-6_4 | Basso, V. and C. Veneault-Fourrey | Role of Jasmonates in Beneficial Microbe-Root Interactions | Methods in Molecular Biology | 2085 43–67 |
| 2020 | 10.1007/s00138-020-01088-z | Yu, G. H., A. Zare, H. D. Y. Sheng, R. Matamala, J. Reyes-Cabrera, F. B. Fritschi and T. E. Juenger | Root identification in minirhizotron imagery with multiple instance learning | Machine Vision and Applications | 31(6) |
| 2020 | 10.1002/pld3.207 | Sasse, J., S. M. Kosina, M. de Raad, J. S. Jordan, K. Whiting, K. Zhalnina and T. R. Northen | Root morphology and exudate availability are shaped by particle size and chemistry in Brachypodium distachyon | Plant Direct | 4(7) e00207 |
| 2020 | 10.1007/978-981-10-6739-6_49-1 | Papa, G., B. A. Simmons and N. Sun | Scale-Up of the Ionic Liquid-Based Biomass Conversion Processes | Encyclopedia of Ionic Liquids | 1–8 |
| 2020 | 10.1002/ecs2.3280 | Hartman, M. D., W. J. Parton, J. D. Derner, D. K. Schulte, W. K. Smith, D. E. Peck, K. A. Day, S. J. Del Grosso, S. Lutz, B. A. Fuchs, M. Chen and W. Gao | Seasonal grassland productivity forecast for the U.S. Great Plains using Grass‐Cast | Ecosphere | 11(11) |
| 2020 | 10.1038/s41396-020-0666-7 | Carlson, H. K., L. M. Lui, M. N. Price, A. E. Kazakov, A. V. Carr, J. V. Kuehl, T. K. Owens, T. Nielsen, A. P. Arkin and A. M. Deutschbauer | Selective carbon sources influence the end products of microbial nitrate respiration | The ISME Journal | 14(8) 2034–45 |
| 2020 | 10.1073/pnas.1917110117 | Demir, B., T. Kropp, K. R. Rivera-Dones, E. B. Gilcher, G. W. Huber, M. Mavrikakis and J. A. Dumesic | A self-adjusting platinum surface for acetone hydrogenation | Proceedings of the National Academy of Sciences of the United States of America | 117(7) 3446–50 |
| 2020 | 10.3390/genes11080843 | Zhou, R., D. Macaya-Sanz, J. Schmutz, J. W. Jenkins, G. A. Tuskan and S. P. DiFazio | Sequencing and Analysis of the Sex Determination Region of Populus trichocarpa | Genes | 11(8) |
| 2020 | 10.1002/pld3.235 | Kebrom, T. H., B. A. McKinley and J. E. Mullet | Shade signals alter the expression of circadian clock genes in newly-formed bioenergy sorghum internodes | Plant Direct | 4(6) |
| 2020 | 10.1007/s10021-019-00407-4 | Reed, D. E., J. Chen, M. Abraha, G. P. Robertson and K. M. Dahlin | The Shifting Role of mRUE for Regulating Ecosystem Production | Ecosystems | 23(2) 359–69 |
| 2020 | 10.3389/fpls.2020.00843 | Mazarei, M., H. L. Baxter, A. Srivastava, G. Li, H. Xie, et al. | Silencing Folylpolyglutamate Synthetase1 (FPGS1) in Switchgrass (Panicum virgatum L.) Improves Lignocellulosic Biofuel Production | Frontiers in Plant Science | 11 843 |
| 2020 | 10.1371/journal.pone.0222691 | Bruns, T. D., J. A. Chung, A. A. Carver and S. I. Glassman | A simple pyrocosm for studying soil microbial response to fire reveals a rapid, massive response by Pyronema species | PLoS One | 15(3) e0222691 |
| 2020 | 10.1021/acs.est.0c01676 | Kent, J., M. D. Hartman, D. K. Lee and T. Hudiburg | Simulated Biomass Sorghum GHG Reduction Potential is Similar to Maize | Environmental Science & Technology | 54(19) 12456–66 |
| 2020 | 10.1186/s12859-020-3372-6 | Barnett, S. E. and D. H. Buckley | Simulating metagenomic stable isotope probing datasets with MetaSIPSim | BMC Bioinformatics | 21(1) 37 |
| 2020 | 10.3389/fmicb.2020.601788 | Barua, N., A. M. Herken, K. R. Stern, S. Reese, R. L. Powers, J. L. Morrell-Falvey, T. G. Platt and R. R. Hansen | Simultaneous Discovery of Positive and Negative Interactions Among Rhizosphere Bacteria Using Microwell Recovery Arrays | Frontiers in Microbiology | 11 601788 |
| 2020 | 10.1038/s41586-020-2778-7 | Finkel, O. M., I. Salas-González, G. Castrillo, J. M. Conway, T. F. Law, P. J. P. L. Teixeira, E. D. Wilson, C. R. Fitzpatrick, C. D. Jones and J. L. Dangl | A single bacterial genus maintains root growth in a complex microbiome | Nature | 587(7832) 103-108 |
| 2020 | 10.1515/9783110589757-016 | Askenasy, I. and M. E. Stroupe | The siroheme-[4fe-4s] coupled center | Metal Ions in Life Sciences | 20 343-380 |
| 2020 | 10.1186/s40168-020-00825-w | Tian, R., D. Ning, Z. He, P. Zhang, S. J. Spencer, et al. | Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity | Microbiome | 8(1) 51 |
| 2020 | 10.1111/1462-2920.14959 | Kang, H., X. Chen, M. Kemppainen, A. G. Pardo, C. Veneault-Fourrey, A. Kohler and F. M. Martin | The small secreted effector protein MiSSP7.6 of Laccaria bicolor is required for the establishment of ectomycorrhizal symbiosis | Environmental Microbiology | 22(4) 1435–46 |
| 2020 | 10.1111/tpj.14746 | Sarkar, D. and C. D. Maranas | SNPeffect: identifying functional roles of SNPs using metabolic networks | The Plant Journal | 103(2) 512–31 |
| 2020 | 10.1146/annurev-phyto-010820-012740 | Friesen, M. L. | Social Evolution and Cheating in Plant Pathogens | Annual Review of Phytopathology | 58 55–75 |
| 2020 | 10.1038/s41893-019-0456-2 | Moreira, M. M. R., J. E. A. Seabra, L. R. Lynd, S. M. Arantes, M. P. Cunha and J. J. M. Guilhoto | Socio-environmental and land-use impacts of double-cropped maize ethanol in Brazil | Nature Sustainability | 3(3) 209–16 |
| 2020 | 10.1016/j.soilbio.2020.107952 | Norman, J. S., D. N. Smercina, J. T. Hileman, L. K. Tiemann and M. L. Friesen | Soil aminopeptidase induction is unaffected by inorganic nitrogen availability | Soil Biology and Biochemistry | 149 |
| 2020 | 10.1093/femsec/fiz194 | Barnett, S. E., N. D. Youngblut and D. H. Buckley | Soil characteristics and land-use drive bacterial community assembly patterns | FEMS Microbiology Ecology | 96(1) |
| 2020 | 10.1111/gcb.15319 | Zhu, X., R. D. Jackson, E. H. DeLucia, J. M. Tiedje and C. Liang | The soil microbial carbon pump: From conceptual insights to empirical assessments | Global Change Biology | 26(11) 6032–9 |
| 2020 | 10.1016/j.soilbio.2020.108037 | Bhattacharjee, A., A. M. Thompson, K. C. Schwarz, M. C. Burnet, Y. M. Kim, et al. | Soil microbial EPS resiliency is influenced by carbon source accessibility | Soil Biology and Biochemistry | 151 |
| 2020 | 10.1038/s41579-019-0265-7 | Jansson, J. K. and K. S. Hofmockel | Soil microbiomes and climate change | Nature Reviews Microbiology | 18(1) 35–46 |
| 2020 | 10.1146/annurev-environ-012320-082720 | Naylor, D., N. Sadler, A. Bhattacharjee, E. B. Graham, C. R. Anderton, R. McClure, M. Lipton, K. S. Hofmockel and J. K. Jansson | Soil Microbiomes Under Climate Change and Implications for Carbon Cycling | Annual Review of Environment and Resources | 45 29–59 |
| 2020 | 10.1126/sciadv.aax8254 | Del Valle, I., T. M. Webster, H. Y. Cheng, J. E. Thies, A. Kessler, M. K. Miller, Z. T. Ball, K. R. MacKenzie, C. A. Masiello, J. J. Silberg and J. Lehmann | Soil organic matter attenuates the efficacy of flavonoid-based plant-microbe communication | Science Advances | 6(5) eaax8254 |
| 2020 | 10.1111/gcb.15124 | von Haden, A. C., W. H. Yang and E. H. DeLucia | Soils' dirty little secret: Depth-based comparisons can be inadequate for quantifying changes in soil organic carbon and other mineral soil properties | Global Change Biology | 26(7) 3759–70 |
| 2020 | 10.1021/acssuschemeng.0c01538 | Walker, T. W., N. Kuch, K. A. Vander Meulen, C. F. M. Clewett, G. W. Huber, B. G. Fox and J. A. Dumesic | Solid-state NMR studies of solvent-mediated, acid-catalyzed woody biomass pre-treatment for enzymatic conversion of residual cellulose | ACS Sustainable Chemistry & Engineering | 8(16) 6551–63 |
| 2020 | 10.1021/acs.iecr.9b06086 | Shen, Z. Z. and R. C. Van Lehn | Solvent Selection for the Separation of Lignin-Derived Monomers Using the Conductor-like Screening Model for Real Solvents | Industrial & Engineering Chemistry Research | 59(16) 7755–64 |
| 2020 | 10.1074/jbc.H120.014701 | Yu, X.-H. and J. Shanklin | Solving a furan fatty acid biosynthesis puzzle | Journal of Biological Chemistry | 295(29) 9802–3 |
| 2020 | 10.1097/01.CCN.0000694084.86350.93 | Franges, E. Z. | Solving the puzzle of Brown-Séquard syndrome | Nursing Critical Care | 15(5) 18-23 |
| 2020 | 10.1007/978-3-030-65414-6_21 | Gaillard, M., C. Miao, J. Schnable and B. Benes | Sorghum segmentation by skeleton extraction | Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | 12540 LNCS 296-311 |
| 2020 | 10.1042/BCJ20200480 | Sharkey, T. D., A. L. Preiser, S. M. Weraduwage and L. Gog | Source of 12C in Calvin-Benson cycle intermediates and isoprene emitted from plant leaves fed with 13CO2 | Biochemical Journal | 477(17) 3237-3252 |
| 2020 | 10.1007/s10980-020-01022-8 | Sciusco, P., J. Q. Chen, M. Abraha, C. Lei, G. P. Robertson, R. Lafortezza, G. Shirkey, Z. T. Ouyang, R. Zhang and R. John | Spatiotemporal variations of albedo in managed agricultural landscapes: inferences to global warming impacts (GWI) | Landscape Ecology | 35(6) 1385–402 |
| 2020 | 10.1029/2019JG005601 | Wik, M., B. F. Thornton, R. K. Varner, C. McCalley and P. M. Crill | Stable Methane Isotopologues From Northern Lakes Suggest That Ebullition Is Dominated by Sub-Lake Scale Processes | Journal of Geophysical Research: Biogeosciences | 125(10) |
| 2020 | 10.1111/nph.16432 | Smith, G. R. and K. G. Peay | Stepping forward from relevance in mycorrhizal ecology | New Phytologist | 226(2) 292–4 |
| 2020 | 10.1021/acscatal.0c02489 | Wang, Y. J., X. Q. Huang, J. S. Hui, L. T. Vo and H. M. Zhao | Stereoconvergent Reduction of Activated Alkenes by a Nicotinamide Free Synergistic Photobiocatalytic System | ACS Catalysis | 10(16) 9431–7 |
| 2020 | 10.1073/pnas.2002780117 | Gao, Q., G. Wang, K. Xue, Y. Yang, J. Xie, H. Yu, S. Bai, F. Liu, Z. He, D. Ning, S. E. Hobbie, P. B. Reich and J. Zhou | Stimulation of soil respiration by elevated CO2 is enhanced under nitrogen limitation in a decade-long grassland study | Proceedings of the National Academy of Sciences of the United States of America | 117(52) 33317–24 |
| 2020 | 10.1016/j.ijepes.2020.106279 | Tang, Z., J. Liu, Y. Liu and L. Xu | Stochastic reserve scheduling of energy storage system in energy and reserve markets | International Journal of Electrical Power and Energy Systems | 123 |
| 2020 | 10.1111/1751-7915.13575 | De Vrieze, J., T. De Mulder, S. Matassa, J. Zhou, L. T. Angenent, N. Boon and W. Verstraete | Stochasticity in microbiology: managing unpredictability to reach the Sustainable Development Goals | Microbial Biotechnology | 13(4) 829–43 |
| 2020 | 10.5194/gmd-13-4413-2020 | Kyker-Snowman, E., W. R. Wieder, S. D. Frey and A. S. Grandy | Stoichiometrically coupled carbon and nitrogen cycling in the MIcrobial-MIneral Carbon Stabilization model version 1.0 (MIMICS-CN v1.0) | Geoscientific Model Development | 13(9) 4413–34 |
| 2020 | 10.1007/s00122-020-03612-1 | Fan, K. H., K. M. Devos and P. Schliekelman | Strategies for eQTL mapping in allopolyploid organisms | Theoretical and Applied Genetics | 133(8) 2477-2497 |
| 2020 | 10.1186/s13068-020-01707-x | Lin, C. Y. and A. Eudes | Strategies for the production of biochemicals in bioenergy crops | Biotechnology for Biofuels | 13 71 |
| 2020 | 10.1038/s41589-019-0452-x | Thorwall, S., C. Schwartz, J. W. Chartron and I. Wheeldon | Stress-tolerant non-conventional microbes enable next-generation chemical biosynthesis | Nature Chemical Biology | 16(2) 113–21 |
| 2020 | 10.1074/jbc.RA120.015328 | Glasgow, E. M., E. I. Kemna, C. A. Bingman, N. Ing, K. Deng, C. M. Bianchetti, T. E. Takasuka, T. R. Northen and B. G. Fox | A structural and kinetic survey of GH5_4 endoglucanases reveals determinants of broad substrate specificity and opportunities for biomass hydrolysis | Journal of Biological Chemistry | 295(51) 17752–69 |
| 2020 | 10.1038/s41467-020-15830-8 | Zhu, P., X. H. Yu, C. Wang, Q. Zhang, W. Liu, S. McSweeney, J. Shanklin, E. Lam and Q. Liu | Structural basis for Ca2+-dependent activation of a plant metacaspase | Nature Communications | 11(1) 2249 |
| 2020 | 10.1016/j.biortech.2019.122240 | Yang, H., C. G. Yoo, X. Meng, Y. Pu, W. Muchero, G. A. Tuskan, T. J. Tschaplinski, A. J. Ragauskas and L. Yao | Structural changes of lignins in natural Populus variants during different pretreatments | Bioresource Technology | 295 122240 |
| 2020 | 10.1021/jasms.9b00059 | Frankfater, C., W. R. Henson, A. Juenger-Leif, M. Foston, T. S. Moon, J. Turk, J. L. Kao, A. Haas and F. F. Hsu | Structural Determination of a New Peptidolipid Family from Rhodococcus opacus and the Pathogen Rhodococcus equi by Multiple Stage Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 31(3) 611–23 |
| 2020 | 10.1021/jacs.9b09187 | Blake-Hedges, J. M., J. H. Pereira, P. Cruz-Morales, M. G. Thompson, J. F. Barajas, et al. | Structural Mechanism of Regioselectivity in an Unusual Bacterial Acyl-CoA Dehydrogenase | Journal of the American Chemical Society | 142(2) 835–46 |
| 2020 | 10.1021/acs.biochem.0c00126 | Curran, S. C., J. H. Pereira, M. J. Baluyot, J. Lake, H. Puetz, D. J. Rosenburg, P. Adams and J. D. Keasling | Structure and Function of BorB, the Type II Thioesterase from the Borrelidin Biosynthetic Gene Cluster | Biochemistry | 59(16) 1630–9 |
| 2020 | 10.1016/j.str.2020.09.005 | Gallagher-Jones, M. and J. A. Rodriguez | Structures from the mesophase: MicroEd targets crystals extracted from LCP | Structure | 28(10) 1084-1086 |
| 2020 | 10.1002/lno.11301 | Bier, R. L., J. J. Wernegreen, R. J. Vilgalys, J. C. Ellis and E. S. Bernhardt | Subsidized or stressed? Shifts in freshwater benthic microbial metagenomics along a gradient of alkaline coal mine drainage | Limnology and Oceanography | 65(S1) S277–92 |
| 2020 | 10.1016/j.biortech.2020.122896 | Sharara, M. A., K. Sahoo, A. D. Reddy, S. Kim, X. S. Zhang, B. Dale, C. D. Jones, R. C. Izaurralde and T. M. Runge | Sustainable feedstock for bioethanol production: Impact of spatial resolution on the design of a sustainable biomass supply-chain | Bioresource Technology | 302 |
| 2020 | 10.1016/j.cub.2020.05.043 | Salem, H., R. Kirsch, Y. Pauchet, A. Berasategui, K. Fukumori, M. Moriyama, M. Cripps, D. Windsor, T. Fukatsu and N. M. Gerardo | Symbiont Digestive Range Reflects Host Plant Breadth in Herbivorous Beetles | Current Biology | 30(15) 2875–86.e4 |
| 2020 | 10.1073/pnas.2007245117 | Kim, S. J., B. Chandrasekar, A. C. Rea, L. Danhof, S. Zemelis-Durfee, N. Thrower, Z. S. Shepard, M. Pauly, F. Brandizzi and K. Keegstra | The synthesis of xyloglucan, an abundant plant cell wall polysaccharide, requires CSLC function | Proceedings of the National Academy of Sciences of the United States of America | 117(33) 20316–24 |
| 2020 | 10.1021/acssynbio.9b00460 | Halper, S. M., A. Hossain and H. M. Salis | Synthesis Success Calculator: Predicting the Rapid Synthesis of DNA Fragments with Machine Learning | ACS Synthetic Biology | 9(7) 1563–71 |
| 2020 | 10.1016/j.tibtech.2019.12.024 | Bowie, J. U., S. Sherkhanov, T. P. Korman, M. A. Valliere, P. H. Opgenorth and H. Liu | Synthetic Biochemistry: The Bio-inspired Cell-Free Approach to Commodity Chemical Production | Trends in Biotechnology | 38(7) 766–78 |
| 2020 | 10.3389/fbioe.2020.00710 | Liang, L., R. Liu, E. F. Freed and C. A. Eckert | Synthetic Biology and Metabolic Engineering Employing Escherichia coli for C2–C6 Bioalcohol Production | Frontiers in Bioengineering and Biotechnology | 8 |
| 2020 | 10.1039/c9gc03062j | Brunecky, R., V. Subramanian, J. M. Yarbrough, B. S. Donohoe, T. B. Vinzant, T. A. Vanderwall, B. C. Knott, Y. B. Chaudhari, Y. J. Bomble, M. E. Himmel and S. R. Decker | Synthetic fungal multifunctional cellulases for enhanced biomass conversion | Green Chemistry | 22(2) 478–89 |
| 2020 | 10.1016/j.coisb.2020.09.007 | Ostrov, N., A. Nyerges, A. Chiappino-Pepe, A. Rudolph, M. Baas-Thomas and G. M. Church | Synthetic genomes with altered genetic codes | Current Opinion in Systems Biology | 24 32–40 |
| 2020 | 10.1038/s41467-020-15559-4 | Peris, D., W. G. Alexander, K. J. Fisher, R. V. Moriarty, M. G. Basuino, E. J. Ubbelohde, R. L. Wrobel and C. T. Hittinger | Synthetic hybrids of six yeast species | Nature Communications | 11(1) 2085 |
| 2020 | 10.1038/s41467-020-17612-8 | Zuñiga, C., T. Li, M. T. Guarnieri, J. P. Jenkins, C. T. Li, K. Bingol, Y. M. Kim, M. J. Betenbaugh and K. Zengler | Synthetic microbial communities of heterotrophs and phototrophs facilitate sustainable growth | Nature Communications | 11(1) |
| 2020 | 10.1016/j.isci.2019.100751 | Huang, K., P. Fasahati and C. T. Maravelias | System-Level Analysis of Lignin Valorization in Lignocellulosic Biorefineries | iScience | 23(1) 100751 |
| 2020 | 10.1016/j.ymben.2020.03.007 | Cheah, Y. E., Y. Xu, S. A. Sacco, P. K. Babele, A. O. Zheng, C. H. Johnson and J. D. Young | Systematic identification and elimination of flux bottlenecks in the aldehyde production pathway of Synechococcus elongatus PCC 7942 | Metabolic Engineering | 60 56–65 |
| 2020 | 10.7554/eLife.62669 | Renganaath, K., R. Cheung, L. Day, S. Kosuri, L. Kruglyak and F. W. Albert | Systematic identification of cis-regulatory variants that cause gene expression differences in a yeast cross | eLife | 9 12785 |
| 2020 | 10.1016/j.copbio.2019.12.007 | Chen, Y., D. Banerjee, A. Mukhopadhyay and C. J. Petzold | Systems and synthetic biology tools for advanced bioproduction hosts | Current Opinion in Biotechnology | 64 101–9 |
| 2020 | 10.1002/ael2.20030 | Sprunger, C. D., T. Martin and M. Mann | Systems with greater perenniality and crop diversity enhance soil biological health | Agricultural & Environmental Letters | 5(1) |
| 2020 | 10.1128/mBio.00351-20 | Banerjee, R., E. Weisenhorn, K. J. Schwartz, K. S. Myers, J. D. Glasner, N. T. Perna, J. J. Coon, R. A. Welch and P. J. Kiley | Tailoring a Global Iron Regulon to a Uropathogen | mBio | 11(2) |
| 2020 | 10.1016/j.cbpa.2020.04.001 | Davis, K. and T. S. Moon | Tailoring microbes to upgrade lignin | Current Opinion in Chemical Biology | 59 23-29 |
| 2020 | 10.1074/jbc.H120.015332 | Hallberg, Z. F. and M. E. Taga | Taking the "me" out of meat: A new demethylation pathway dismantles a toxin's precursor | Journal of Biological Chemistry | 295(34) 11982-11983 |
| 2020 | 10.1038/s41396-020-0635-1 | Wu, R., B. Chai, J. R. Cole, S. K. Gunturu, X. Guo, R. Tian, J. D. Gu, J. Zhou and J. M. Tiedje | Targeted assemblies of cas1 suggest CRISPR-Cas’s response to soil warming | ISME Journal | 14(7) 1651-1662 |
| 2020 | 10.1104/pp.19.01496 | Griffiths, M. and L. M. York | Targeting Root Ion Uptake Kinetics to Increase Plant Productivity and Nutrient Use Efficiency | Plant Physiology | 182(4) 1854–68 |
| 2020 | 10.1038/s41396-020-0617-3 | Blazewicz, S. J., B. A. Hungate, B. J. Koch, E. E. Nuccio, E. Morrissey, E. L. Brodie, E. Schwartz, J. Pett-Ridge and M. K. Firestone | Taxon-specific microbial growth and mortality patterns reveal distinct temporal population responses to rewetting in a California grassland soil | The ISME Journal | 14(6) 1520–32 |
| 2020 | 10.1101/2020.06.17.157016 | Marchand, J. A., M. D. Pierson Smela, T. H. H. Jordan, K. Narasimhan and G. M. Church | TBDB – A database of structurally annotated T-box riboswitch:tRNA pairs | AIChE Annual Meeting, Conference Proceedings | 2020-November |
| 2020 | 10.1016/j.rser.2020.109764 | Mousavi-Avval, S. H. and A. Shah | Techno-economic analysis of pennycress production, harvest and post-harvest logistics for renewable jet fuel | Renewable and Sustainable Energy Reviews | 123 |
| 2020 | 10.1073/pnas.1821684116 | Hannon, J. R., L. R. Lynd, O. Andrade, P. T. Benavides, G. T. Beckham, et al. | Technoeconomic and life-cycle analysis of single-step catalytic conversion of wet ethanol into fungible fuel blendstocks | Proceedings of the National Academy of Sciences of the United States of America | 117(23) 12576–83 |
| 2020 | 10.3390/land9120479 | Spiesman, B., B. Iuliano and C. Gratton | Temporal resource continuity increases predator abundance in a metapopulation model: Insights for conservation and biocontrol | Land | 9(12) 45307 |
| 2020 | 10.1104/pp.20.00547 | Kong, Q., S. K. Singh, J. J. Mantyla, S. Pattanaik, L. Guo, L. Yuan, C. Benning and W. Ma | Teosinte branched1/cycloidea/ proliferating cell factor4 interacts with wrinkled1 to mediate seed oil biosynthesis | Plant Physiology | 184(2) 658-665 |
| 2020 | 10.1128/MRA.00718-20 | Nelson, W. C., L. N. Anderson, R. Wu, J. E. McDermott, S. L. Bell, A. Jumpponen, S. J. Fansler, K. J. Tyrrell, Y. Farris, K. S. Hofmockel and J. K. Jansson | Terabase Metagenome Sequencing of Grassland Soil Microbiomes | Microbiology Resource Announcements | 9(32) |
| 2020 | 10.1021/acs.est.0c01028 | Zheng, H., K. Kim, A. Kravchenko, M. Rivers and A. Guber | Testing Os Staining Approach for Visualizing Soil Organic Matter Patterns in Intact Samples via X-ray Dual-Energy Tomography Scanning | Environmental Science & Technology | 54(14) 8980–9 |
| 2020 | 10.1128/MRA.00326-20 | Sun, E. W. H., S. Hajirezaie, M. Dooner, T. A. Vishnivetskaya, A. Layton, A. Chauhan, S. M. Pfiffner, L. G. Whyte, T. C. Onstott and M. C. Y. Laue | Thaumarchaea genome sequences from a high Arctic active layer | Microbiology Resource Announcements | 9(21) |
| 2020 | 10.1029/2019JG005526 | Perryman, C. R., C. K. Mccalley, A. Malhotra, M. F. Fahnestock, N. N. Kashi, J. G. Bryce, R. Giesler and R. K. Varner | Thaw Transitions and Redox Conditions Drive Methane Oxidation in a Permafrost Peatland | Journal of Geophysical Research: Biogeosciences | 125(3) |
| 2020 | 10.1039/c9cp05339e | Ju, Z., W. Xiao, X. Yao, X. Tan, B. A. Simmons, K. L. Sale and N. Sun | Theoretical study on the microscopic mechanism of lignin solubilization in Keggin-type polyoxometalate ionic liquids | Physical Chemistry Chemical Physics | 22(5) 2878–86 |
| 2020 | 10.1128/MMBR.00030-17 | Zamora, M., C. A. Ziegler, P. L. Freddolino and A. J. Wolfe | A thermosensitive, phase-variable epigenetic switch: Pap revisited | Microbiology and Molecular Biology Reviews | 84(3) |
| 2020 | 10.1146/annurev-bioeng-060418-052203 | Liu, S., H. Huh, S. H. Lee and F. Huang | Three-Dimensional Single-Molecule Localization Microscopy in Whole-Cell and Tissue Specimens | Annual Review of Biomedical Engineering | 22 155–84 |
| 2020 | 10.1117/12.2567752 | Shuhui, Y., M. J. Amin, T. E. Nyssa and Y. Haw | Three-dimensional super line-localization in low signal-to-noise microscope images via prior-apprised unsupervised learning (PAUL) | Proceedings of the SPIE | |
| 2020 | 10.1111/1758-2229.12838 | Rajeev, L., M. E. Garber and A. Mukhopadhyay | Tools to map target genes of bacterial two-component system response regulators | Environmental Microbiology Reports | 12(3) 267–76 |
| 2020 | 10.1016/j.ymeth.2019.10.007 | Zhou, M., N. Malhan, A. H. Ahkami, K. Engbrecht, G. Myers, J. Dahlberg, J. Hollingsworth, J. A. Sievert, R. Hutmacher, M. Madera, P. G. Lemaux, K. K. Hixson, C. Jansson and L. Paša-Tolić | Top-down mass spectrometry of histone modifications in sorghum reveals potential epigenetic markers for drought acclimation | Methods | 184 29-39 |
| 2020 | 10.1146/annurev-micro-022020-051835 | James, T. Y., J. E. Stajich, C. T. Hittinger and A. Rokas | Toward a Fully Resolved Fungal Tree of Life | Annual Review of Microbiology | 74 291–313 |
| 2020 | 10.1111/gcbb.12684 | Parajuli, S., B. Kannan, R. Karan, G. Sanahuja, H. Liu, E. Garcia-Ruiz, D. Kumar, V. Singh, H. M. Zhao, S. Long, J. Shanklin and F. Altpeter | Towards oilcane: Engineering hyperaccumulation of triacylglycerol into sugarcane stems | GCB Bioenergy | 12(7) 476–90 |
| 2020 | 10.1016/j.copbio.2019.12.017 | Lee, J. W. and C. T. Trinh | Towards renewable flavors, fragrances, and beyond | Current Opinion in Biotechnology | 61 168–80 |
| 2020 | 10.1016/j.copbio.2019.11.003 | Allen, D. K. and J. D. Young | Tracing metabolic flux through time and space with isotope labeling experiments | Current Opinion in Biotechnology | 64 92–100 |
| 2020 | 10.1534/g3.120.401402 | Olatoye, M. O., L. V. Clark, N. R. Labonte, H. Dong, M. S. Dwiyanti, et al. | Training Population Optimization for Genomic Selection in Miscanthus | G3 Genes|Genomes|Genetics | 10(7) 2465–76 |
| 2020 | 10.3389/fpls.2020.00652 | Zhang, J., G. A. Tuskan, T. J. Tschaplinski, W. Muchero and J. G. Chen | Transcriptional and Post-transcriptional Regulation of Lignin Biosynthesis Pathway Genes in Populus | Frontiers in Plant Science | 11 652 |
| 2020 | 10.3389/fpls.2020.572137 | Yao, T., J. Zhang, M. Xie, G. Yuan, T. J. Tschaplinski, W. Muchero and J. G. Chen | Transcriptional Regulation of Drought Response in Arabidopsis and Woody Plants | Frontiers in Plant Science | 11 572137 |
| 2020 | 10.3390/ijms21030772 | Abdel-Ghany, S. E., F. Ullah, A. Ben-Hur and A. S. N. Reddy | Transcriptome Analysis of Drought-Resistant and Drought-Sensitive Sorghum (Sorghum bicolor) Genotypes in Response to PEG-Induced Drought Stress | International Journal of Molecular Sciences | 21(3) |
| 2020 | 10.1002/csc2.20083 | Taylor, M., X. W. Zhao, M. D. Casler and Y. W. Jiang | Transcriptome profiling reveals differentially expressed genes associated with flowering time in contrasting switchgrass genotypes | Crop Science | 60(3) 1472–87 |
| 2020 | 10.1105/tpc.19.00332 | Azodi, C. B., J. Pardo, R. VanBuren, G. de Los Campos and S. H. Shiu | Transcriptome-Based Prediction of Complex Traits in Maize | The Plant Cell | 32(1) 139–51 |
| 2020 | 10.1016/j.tplants.2020.03.008 | Bryant, N. D., Y. Pu, T. J. Tschaplinski, G. A. Tuskan, W. Muchero, U. C. Kalluri, C. G. Yoo and A. J. Ragauskas | Transgenic Poplar Designed for Biofuels | Trends in Plant Science | 25(9) 881–96 |
| 2020 | 10.7554/eLife.56275 | Sharma, K., M. Palatinszky, G. Nikolov, D. Berry and E. A. Shank | Transparent soil microcosms for live-cell imaging and non-destructive stable isotope probing of soil microorganisms | eLife | 9 |
| 2020 | 10.1128/AEM.01639-20 | Garcia, C. A., J. A. Narrett and J. G. Gardner | Trehalose Degradation by Cellvibrio japonicus Exhibits No Functional Redundancy and Is Solely Dependent on the Tre37A Enzyme | Applied and Environmental Microbiology | 86(22) |
| 2020 | 10.1111/nph.16827 | Ralph, J. | Tricin and tricin-lignins in Medicago versus in monocots | New Phytologist | 228(1) 11–4 |
| 2020 | 10.1016/j.algal.2020.101953 | Polle, J. E. W., R. Roth, A. Ben-Amotz and U. Goodenough | Ultrastructure of the green alga Dunaliella salina strain CCAP19/18 (Chlorophyta) as investigated by quick-freeze deep-etch electron microscopy | Algal Research | 49 |
| 2020 | 10.1073/pnas.1912434117 | Ribeiro, C. L., D. Conde, K. M. Balmant, C. Dervinis, M. G. Johnson, et al. | The uncharacterized gene EVE contributes to vessel element dimensions in Populus | Proceedings of the National Academy of Sciences of the United States of America | 117(9) 5059–66 |
| 2020 | 10.1128/AEM.02299-19 | Walker, C., S. Ryu, R. J. Giannone, S. Garcia and C. T. Trinh | Understanding and Eliminating the Detrimental Effect of Thiamine Deficiency on the Oleaginous Yeast Yarrowia lipolytica | Applied and Environmental Microbiology | 86(3) |
| 2020 | 10.1016/j.synbio.2020.01.002 | Wang, B. and H. Zhao | Unleashing the power of energy storage: Engineering β-oxidation pathways for polyketide production | Synthetic and Systems Biotechnology | 5(1) 21–2 |
| 2020 | 10.1016/j.copbio.2020.06.012 | Cao, M., V. G. Tran and H. Zhao | Unlocking nature's biosynthetic potential by directed genome evolution | Current Opinion in Biotechnology | 66 95-104 |
| 2020 | 10.1038/s41598-020-59494-2 | Martinez-Feria, R. A. and B. Basso | Unstable crop yields reveal opportunities for site-specific adaptations to climate variability | Scientific Reports | 10(1) 2885 |
| 2020 | 10.1186/s13068-020-01675-2 | Straub, C. T., R. G. Bing, J. P. Wang, V. L. Chiang, M. W. W. Adams and R. M. Kelly | Use of the lignocellulose-degrading bacterium Caldicellulosiruptor bescii to assess recalcitrance and conversion of wild-type and transgenic poplar | Biotechnology for Biofuels | 13 43 |
| 2020 | 10.1111/mpp.12999 | Murphree, C., S. B. Kim, S. Karre, R. Samira and P. Balint-Kurti | Use of virus-induced gene silencing to characterize genes involved in modulating hypersensitive cell death in maize | Molecular Plant Pathology | 21(12) 1662-1676 |
| 2020 | 10.1089/crispr.2020.29085.rba | Barrangou, R. | Ushering in the Next CRISPR Decade | The CRISPR Journal | 3(1) 2 |
| 2020 | 10.1016/j.indcrop.2020.112906 | Viswanathan, M. B., K. Park, M. H. Cheng, E. B. Cahoon, I. Dweikat, T. Clemente and V. Singh | Variability in structural carbohydrates, lipid composition, and cellulosic sugar production from industrial hemp varieties | Industrial Crops and Products | 157 |
| 2020 | 10.1104/pp.19.00817 | Crisp, P. A., R. Hammond, P. Zhou, B. Vaillancourt, A. Lipzen, C. Daum, K. Barry, N. de Leon, C. R. Buell, S. M. Kaeppler, B. C. Meyers, C. N. Hirsch and N. M. Springer | Variation and Inheritance of Small RNAs in Maize Inbreds and F1 Hybrids | Plant Physiology | 182(1) 318–31 |
| 2020 | 10.1038/s41564-020-0720-2 | Sichert, A., C. H. Corzett, M. S. Schechter, F. Unfried, S. Markert, D. Becher, A. Fernandez-Guerra, M. Liebeke, T. Schweder, M. F. Polz and J. H. Hehemann | Verrucomicrobia use hundreds of enzymes to digest the algal polysaccharide fucoidan | Nature Microbiology | 5(8) 1026-1039 |
| 2020 | 10.1094/MPMI-04-20-0082-TA | Villalobos Solis, M. I., S. Poudel, C. Bonnot, H. K. Shrestha, R. L. Hettich, C. Veneault-Fourrey, F. Martin and P. E. Abraham | A Viable New Strategy for the Discovery of Peptide Proteolytic Cleavage Products in Plant-Microbe Interactions | Molecular Plant-Microbe Interactions | 33(10) 1177–88 |
| 2020 | 10.1007/s10841-020-00248-w | Myers, A. T., N. L. Haan and D. A. Landis | Video surveillance reveals a community of largely nocturnal Danaus plexippus (L.) egg predators | Journal of Insect Conservation | 24(4) 731–7 |
| 2020 | 10.1002/bmb.21428 | Burley, S. K., Y. Bromberg, P. Craig, S. Duffy, S. Dutta, et al. | Virtual Boot Camp: COVID-19 evolution and structural biology | Biochemistry and Molecular Biology Education | 48(5) 511-513 |
| 2020 | 10.1128/mSystems.00645-19 | Bhattacharjee, A., D. Velickovic, T. W. Wietsma, S. L. Bell, J. K. Jansson, K. S. Hofmockel and C. R. Anderton | Visualizing Microbial Community Dynamics via a Controllable Soil Environment | mSystems | 5(1) |
| 2020 | 10.1002/pld3.255 | Gaillard, M., C. Miao, J. C. Schnable and B. Benes | Voxel carving-based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency | Plant Direct | 4(10) e00255 |
| 2020 | 10.3390/molecules25092108 | Zheng, Y., A. Pierce, W. L. Wagner, H. V. Scheller, D. Mohnen, M. Ackermann and S. J. Mentzer | Water-Dependent Blending of Pectin Films: The Mechanics of Conjoined Biopolymers | Molecules | 25(9) |
| 2020 | 10.1016/j.pbi.2020.01.006 | Baxter, I. | We aren't good at picking candidate genes, and it's slowing us down | Current Opinion in Plant Biology | 54 57-60 |
| 2020 | 10.1007/978-3-030-65414-6_30 | Yu, G., A. Zare, W. Xu, R. Matamala, J. Reyes-Cabrera, F. B. Fritschi and T. E. Juenger | Weakly supervised minirhizotron image segmentation with MIL-CAM | Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | 12540 LNCS 433-449 |
| 2020 | 10.1002/rcm.8858 | Yu, L., E. Harris, D. Lewicka-Szczebak, M. Barthel, M. R. A. Blomberg, et al. | What can we learn from N2O isotope data? – Analytics, processes and modelling | Rapid Communications in Mass Spectrometry | 34(20) |
| 2020 | 10.1088/1361-6420/ab649c | Subramanian, S., K. Scheufele, M. Mehl and G. Biros | Where Did the Tumor Start? An Inverse Solver with Sparse Localization for Tumor Growth Models | Inverse Problems | 36(4) |
| 2020 | 10.1128/MRA.00852-20 | Tshipamba, M. E., K. A. Alayande, N. Lubanza and M. Mwanza | Whole-Genome Sequencing of Multidrug-Resistant Campylobacter fetus subsp. fetus NWU_ED24, Isolated from a Bovine Sheath Wash Sample | Microbiology Resource Announcements | 9(40) |
| 2020 | 10.1111/tpj.14671 | Chakrabarti, M., L. de Lorenzo, S. E. Abdel-Ghany, A. S. N. Reddy and A. G. Hunt | Wide-ranging transcriptome remodelling mediated by alternative polyadenylation in response to abiotic stresses in Sorghum | Plant Journal | 102(5) 916-930 |
| 2020 | 10.1186/s13059-020-1952-4 | Zhou, R., D. Macaya-Sanz, C. H. Carlson, J. Schmutz, J. W. Jenkins, et al. | A willow sex chromosome reveals convergent evolution of complex palindromic repeats | Genome Biology | 21(1) 38 |
| 2020 | 10.1186/s40168-020-00838-5 | Tao, X., J. Feng, Y. Yang, G. Wang, R. Tian, et al. | Winter warming in Alaska accelerates lignin decomposition contributed by Proteobacteria | Microbiome | 8(1) |
| 2020 | 10.1093/insilicoplants/diaa005 | Moore, B. M., P. Wang, P. Fan, A. Lee, B. Leong, Y. R. Lou, C. A. Schenck, K. Sugimoto, R. Last, M. D. Lehti-Shiu, C. S. Barry and S. H. Shiu | Within- and cross-species predictions of plant specialized metabolism genes using transfer learning | In Silico Plants | 2(1) diaa005 |
| 2020 | 10.1371/journal.pone.0234839 | Buongiorno, J., K. Sipes, K. Wasmund, A. Loy and K. G. Lloyd | Woeseiales transcriptional response to shallow burial in Arctic fjord surface sediment | PLoS One | 15(8) e0234839 |
| 2020 | 10.1002/bit.27202 | Lane, S., Y. Zhang, E. J. Yun, L. Ziolkowski, G. Zhang, Y. S. Jin and J. L. Avalos | Xylose assimilation enhances the production of isobutanol in engineered Saccharomyces cerevisiae | Biotechnology and Bioengineering | 117(2) 372–81 |
| 2020 | 10.1073/pnas.1917914117 | Boyer, D. R., B. Li, C. Sun, W. Fan, K. Zhou, M. P. Hughes, M. R. Sawaya, L. Jiang and D. S. Eisenberg | The α-synuclein hereditary mutation E46K unlocks a more stable, pathogenic fibril structure | Proceedings of the National Academy of Sciences of the United States of America | 117(7) 3592–602 |
| 2019 | 10.1038/s41467-019-09836-0 | Liu, Y., D. T. Huynh and T. O. Yeates | A 3.8 Å resolution cryo-EM structure of a small protein bound to an imaging scaffold | Nature Communications | 10(1) 1864 |
| 2019 | 10.1038/s41467-019-10082-7 | Barros, J., L. Escamilla-Trevino, L. Song, X. Rao, J. C. Serrani-Yarce, M. D. Palacios, N. Engle, F. K. Choudhury, T. J. Tschaplinski, B. J. Venables, R. Mittler and R. A. Dixon | 4-Coumarate 3-hydroxylase in the lignin biosynthesis pathway is a cytosolic ascorbate peroxidase | Nature Communications | 10(1) 1994 |
| 2019 | 10.1128/mSystems.00003-19 | Bowsher, A. W., P. J. Kearns and A. Shade | 16S rRNA/rRNA Gene Ratios and Cell Activity Staining Reveal Consistent Patterns of Microbial Activity in Plant-Associated Soil | mSystems | 4(2) |
| 2019 | 10.1016/j.mib.2019.09.008 | Shade, A. and N. Stopnisek | Abundance-occupancy distributions to prioritize plant core microbiome membership | Current Opinion in Microbiology | 49 50–8 |
| 2019 | 10.1016/j.tibtech.2019.05.007 | Harfouche, A. L., D. A. Jacobson, D. Kainer, J. C. Romero, A. H. Harfouche, G. Scarascia Mugnozza, M. Moshelion, G. A. Tuskan, J. J. B. Keurentjes and A. Altman | Accelerating Climate Resilient Plant Breeding by Applying Next-Generation Artificial Intelligence | Trends in Biotechnology | 37(11) 1217–35 |
| 2019 | 10.1021/acs.analchem.9b01234 | Hutchins, P. D., J. D. Russell and J. J. Coon | Accelerating Lipidomic Method Development through in Silico Simulation | Analytical Chemistry | 91(15) 9698–706 |
| 2019 | 10.1016/bs.abr.2018.11.006 | Teixeira, R. T., X. Sheng and A. M. Brunner | Activity of the shoot apical and cambial meristems: Coordination and responses to environmental signals | Advances in Botanical Research | 89 185-199 |
| 2019 | 10.1111/agec.12501 | Anand, M., R. Miao and M. Khanna | Adopting bioenergy crops: Does farmers’ attitude toward loss matter? | Agricultural Economics | 50(4) 435–50 |
| 2019 | 10.1016/j.cmet.2019.05.010 | Arrojo, E. D. R., V. Lev-Ram, S. Tyagi, R. Ramachandra, T. Deerinck, E. Bushong, S. Phan, V. Orphan, C. Lechene, M. H. Ellisman and M. W. Hetzer | Age Mosaicism across Multiple Scales in Adult Tissues | Cell Metabolism | 30(2) 343–51.e3 |
| 2019 | 10.7554/eLife.47815 | Du, Z. Y., K. Zienkiewicz, N. Vande Pol, N. E. Ostrom, C. Benning and G. M. Bonito | Algal-fungal symbiosis leads to photosynthetic mycelium | eLife | 8 |
| 2019 | 10.3389/fpls.2019.00708 | Chaudhary, S., W. Khokhar, I. Jabre, A. S. N. Reddy, L. J. Byrne, C. M. Wilson and N. H. Syed | Alternative Splicing and Protein Diversity: Plants Versus Animals | Frontiers in Plant Science | 10 708 |
| 2019 | 10.1007/978-3-030-17743-0_6 | Macioszek, E. and D. Lach | The Analysis of Roundabouts Perception by Drivers, Cyclists and Pedestrians | Springer Proceedings in Business and Economics | 61-75 |
| 2019 | 10.3389/fgene.2019.00253 | Zhao, L., H. Zhang, M. V. Kohnen, K. Prasad, L. Gu and A. S. N. Reddy | Analysis of Transcriptome and Epitranscriptome in Plants Using PacBio Iso-Seq and Nanopore-Based Direct RNA Sequencing | Frontiers in Genetics | 10 253 |
| 2019 | 10.3389/fevo.2019.00300 | Veen, G. F., E. R. Jasper Wubs, R. D. Bardgett, E. Barrios, M. A. Bradford, et al. | Applying the aboveground-belowground interaction concept in agriculture: Spatio-temporal scales matter | Frontiers in Ecology and Evolution | 7(AUG) |
| 2019 | 10.1021/acs.jafc.9b05840 | Lapierre, C., A. Voxeur, S. Boutet and J. Ralph | Arabinose Conjugates Diagnostic of Ferulate-Ferulate and Ferulate-Monolignol Cross-Coupling Are Released by Mild Acidolysis of Grass Cell Walls | Journal of Agricultural and Food Chemistry | 67(46) 12962–71 |
| 2019 | 10.1029/2019gl085543 | Wieder, W. R., B. N. Sulman, M. D. Hartman, C. D. Koven and M. A. Bradford | Arctic Soil Governs Whether Climate Change Drives Global Losses or Gains in Soil Carbon | Geophysical Research Letters | 46(24) 14486–95 |
| 2019 | 10.1186/s12915-019-0710-0 | Pankievicz, V. C. S., T. B. Irving, L. G. S. Maia and J. M. Ané | Are we there yet? The long walk towards the development of efficient symbiotic associations between nitrogen-fixing bacteria and non-leguminous crops | BMC Biology | 17(1) |
| 2019 | 10.1111/1751-7915.13318 | Nora, L. C., C. A. Westmann, L. Martins-Santana, L. F. Alves, L. M. O. Monteiro, M. E. Guazzaroni and R. Silva-Rocha | The art of vector engineering: towards the construction of next-generation genetic tools | Microbial Biotechnology | 12(1) 125–47 |
| 2019 | 10.1038/s41467-019-11974-4 | Grady, K. L., J. W. Sorensen, N. Stopnisek, J. Guittar and A. Shade | Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops | Nature Communications | 10(1) 4135 |
| 2019 | 10.1016/j.soilbio.2018.12.013 | Koechli, C., A. N. Campbell, C. Pepe-Ranney and D. H. Buckley | Assessing fungal contributions to cellulose degradation in soil by using high-throughput stable isotope probing | Soil Biology and Biochemistry | 130 150–8 |
| 2019 | 10.1002/ecs2.2889 | Chen, M., W. J. Parton, M. D. Hartman, S. J. Del Grosso, W. K. Smith, A. K. Knapp, S. Lutz, J. D. Derner, C. J. Tucker, D. S. Ojima, J. D. Volesky, M. B. Stephenson, W. H. Schacht and W. Gao | Assessing precipitation, evapotranspiration, and NDVI as controls of U.S. Great Plains plant production | Ecosphere | 10(10) |
| 2019 | 10.1038/s41564-019-0621-4 | Zuniga, C., C. T. Li, G. Yu, M. M. Al-Bassam, T. Li, L. Jiang, L. S. Zaramela, M. Guarnieri, M. J. Betenbaugh and K. Zengler | Author Correction: Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities | Nature Microbiology | 4(12) 2578 |
| 2019 | 10.1021/acssuschemeng.8b05665 | Vermaas, J. V., L. D. Dellon, L. J. Broadbelt, G. T. Beckham and M. F. Crowley | Automated Transformation of Lignin Topologies into Atomic Structures with LigninBuilder | ACS Sustainable Chemistry & Engineering | 7(3) 3443–53 |
| 2019 | 10.1021/acs.analchem.8b03126 | Domingo-Almenara, X., J. R. Montenegro-Burke, C. Guijas, E. L. Majumder, H. P. Benton and G. Siuzdak | Autonomous METLIN-Guided In-source Fragment Annotation for Untargeted Metabolomics | Analytical Chemistry | 91(5) 3246–53 |
| 2019 | 10.1128/MRA.00516-19 | Xue, Y., I. Jonassen, L. Ovreas and N. Tas | Bacterial and Archaeal Metagenome-Assembled Genome Sequences from Svalbard Permafrost | Microbiology Resource Announcements | 8(27) |
| 2019 | 10.1016/j.algal.2019.101500 | Fisher, C. L., C. S. Ward, P. D. Lane, J. A. Kimbrel, K. L. Sale, R. K. Stuart, X. Mayali and T. W. Lane | Bacterial communities protect the alga Microchloropsis salina from grazing by the rotifer Brachionus plicatilis | Algal Research | 40 |
| 2019 | 10.1096/fasebj.2019.33.1_supplement.781.8 | Kontur, W. S., D. R. Noguera and T. J. Donohue | Bacterial Glutathione S‐Transferases (GSTs) Involved in Breaking the β‐Aryl Ether Bond of Lignin Reveal Novel Catalytic Abilities and Reaction Mechanisms within the GST Superfamily | The FASEB Journal | 33(S1) |
| 2019 | 10.1016/bs.aambs.2018.10.002 | Paul, C., S. Filippidou, I. Jamil, W. Kooli, G. L. House, et al. | Bacterial spores, from ecology to biotechnology | Advances in Applied Microbiology | 106 79–111 |
| 2019 | 10.3389/fmicb.2019.02956 | Ramin, K. I. and S. D. Allison | Bacterial Tradeoffs in Growth Rate and Extracellular Enzymes | Frontiers in Microbiology | 10 2956 |
| 2019 | 10.1074/mcp.TIR119.001317 | Peshkin, L., M. Gupta, L. Ryazanova and M. Wühr | Bayesian confidence intervals for multiplexed proteomics integrate ion-statistics with peptide quantification concordance | Molecular and Cellular Proteomics | 18(10) 2108-2120 |
| 2019 | 10.1534/g3.119.400498 | Azodi, C. B., E. Bolger, A. McCarren, M. Roantree, G. de Los Campos and S. H. Shiu | Benchmarking Parametric and Machine Learning Models for Genomic Prediction of Complex Traits | G3 Genes|Genomes|Genetics | 9(11) 3691–702 |
| 2019 | 10.1016/j.mib.2019.08.003 | Teixeira, P. J. P., N. R. Colaianni, C. R. Fitzpatrick and J. L. Dangl | Beyond pathogens: microbiota interactions with the plant immune system | Current Opinion in Microbiology | 49 7–17 |
| 2019 | 10.1016/j.chroma.2018.12.059 | Cocuron, J. C., M. I. Casas, F. Yang, E. Grotewold and A. P. Alonso | Beyond the wall: High-throughput quantification of plant soluble and cell-wall bound phenolics by liquid chromatography tandem mass spectrometry | Journal of Chromatography A | 1589 93–104 |
| 2019 | 10.1021/acssynbio.8b00381 | Stark, J. C., A. Huang, K. J. Hsu, R. S. Dubner, J. Forbrook, et al. | BioBits Health: Classroom Activities Exploring Engineering, Biology, and Human Health with Fluorescent Readouts | ACS Synthetic Biology | 8(5) 1001–9 |
| 2019 | 10.1021/acs.est.9b01345 | Zhang, X., J. Xia, J. Pu, C. Cai, G. W. Tyson, Z. Yuan and S. Hu | Biochar-Mediated Anaerobic Oxidation of Methane | Environmental Science & Technology | 53(12) 6660–8 |
| 2019 | 10.34133/2019/9680853 | Yang, X., L. S. Qi, A. Jaramillo and Z.-M. Cheng | Biodesign Research to Advance the Principles and Applications of Biosystems Design | BioDesign Research | 2019 |
| 2019 | 10.1038/s41477-018-0322-7 | Allen, J. M., R. A. Folk, P. S. Soltis, D. E. Soltis and R. P. Guralnick | Biodiversity synthesis across the green branches of the tree of life | Nature Plants | 5(1) 11–3 |
| 2019 | 10.1021/acs.chemrev.8b00439 | Cheng, X. and J. C. Smith | Biological Membrane Organization and Cellular Signaling | Chemical Reviews | 119(9) 5849–80 |
| 2019 | 10.1111/gcbb.12606 | Clark, L. V., M. S. Dwiyanti, K. G. Anzoua, J. E. Brummer, B. K. Ghimire, et al. | Biomass yield in a genetically diverse Miscanthus sinensis germplasm panel evaluated at five locations revealed individuals with exceptional potential | GCB Bioenergy | 11(10) 1125–45 |
| 2019 | 10.1002/cssc.201901742 | Klinger, G. E., Y. Zhou, P. Hao, J. Robbins, J. M. Aquilina, J. E. Jackson and E. L. Hegg | Biomimetic Reductive Cleavage of Keto Aryl Ether Bonds by Small-Molecule Thiols | ChemSusChem | 12(21) 4775–9 |
| 2019 | 10.1186/s13068-019-1424-9 | Bai, W., W. Geng, S. Wang and F. Zhang | Biosynthesis, regulation, and engineering of microbially produced branched biofuels | Biotechnology for Biofuels | 12 84 |
| 2019 | 10.1002/aic.16716 | Wang, Y., X. Yu and H. Zhao | Biosystems design by directed evolution | AIChE Journal | 66(3) |
| 2019 | 10.1111/gcbb.12566 | Clifton-Brown, J., A. Harfouche, M. D. Casler, H. Dylan Jones, W. J. Macalpine, et al. | Breeding progress and preparedness for mass-scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow and poplar | GCB Bioenergy | 11(1) 118–51 |
| 2019 | 10.1080/08927014.2019.1646731 | Krantz, G. P., K. Lucas, E. L. Wunderlich, L. T. Hoang, R. Avci, G. Siuzdak and M. W. Fields | Bulk phase resource ratio alters carbon steel corrosion rates and endogenously produced extracellular electron transfer mediators in a sulfate-reducing biofilm | Biofouling | 35(6) 669–83 |
| 2019 | 10.1038/s41598-019-47529-2 | Yoo, C. Y., N. Mano, A. Finkler, H. Weng, I. S. Day, A. S. N. Reddy, B. W. Poovaiah, H. Fromm, P. M. Hasegawa and M. V. Mickelbart | A Ca2+/CaM-regulated transcriptional switch modulates stomatal development in response to water deficit | Scientific Reports | 9(1) 12282 |
| 2019 | 10.1111/nph.15505 | Yan, X., J. Liu, H. Kim, B. Liu, X. Huang, et al. | CAD1 and CCR2 protein complex formation in monolignol biosynthesis in Populus trichocarpa | New Phytologist | 222(1) 244–60 |
| 2019 | 10.1111/ejss.12744 | Guber, A. K., A. N. Kravchenko, B. S. Razavi, E. Blagodatskaya and Y. Kuzyakov | Calibration of 2-D soil zymography for correct analysis of enzyme distribution | European Journal of Soil Science | 70(4) 715–26 |
| 2019 | 10.7146/torture.v29i1.112897 | Momartin, S., M. Coello, E. Pittaway, R. Downham and J. Aroche | Capoeira angola: An alternative intervention program for traumatized adolescent refugees from war-torn countries | Torture | 29(1) 85-96 |
| 2019 | 10.3390/s19204446 | Shuai, G., R. A. Martinez-Feria, J. Zhang, S. Li, R. Price and B. Basso | Capturing Maize Stand Heterogeneity Across Yield-Stability Zones Using Unmanned Aerial Vehicles (UAV) | Sensors | 19(20) |
| 2019 | 10.1007/978-3-030-10777-2_1 | Ramin, K. I. a. S. D. A. | Carbon cycle implications of soil microbial interactions | Understanding Terrestrial Microbial Communities | 6 1–29 |
| 2019 | 10.1088/1748-9326/aafc10 | Abraha, M., I. Gelfand, S. K. Hamilton, J. Q. Chen and G. P. Robertson | Carbon debt of field-scale conservation reserve program grasslands converted to annual and perennial bioenergy crops | Environmental Research Letters | 14(2) |
| 2019 | 10.1038/s41396-019-0385-0 | Smith, A. R., B. Kieft, R. Mueller, M. R. Fisk, O. U. Mason, R. Popa and F. S. Colwell | Carbon fixation and energy metabolisms of a subseafloor olivine biofilm | The ISME Journal | 13(7) 1737–49 |
| 2019 | 10.1016/bs.mie.2018.12.009 | Nichols, T. M., N. W. Kennedy and D. Tullman-Ercek | Cargo encapsulation in bacterial microcompartments: Methods and analysis | Methods in Enzymology | 617 155–86 |
| 2019 | 10.1039/c9gc00564a | De bruyn, M., C. Sener, D. D. Petrolini, D. J. McClelland, J. He, M. R. Ball, Y. Liu, L. Martins, J. A. Dumesic, G. W. Huber and B. M. Weckhuysen | Catalytic hydrogenation of dihydrolevoglucosenone to levoglucosanol with a hydrotalcite/mixed oxide copper catalyst | Green Chemistry | 21(18) 5000–7 |
| 2019 | 10.1021/acs.jpcb.9b06243 | Prates, E. T., M. F. Crowley, M. S. Skaf and G. T. Beckham | Catalytic Mechanism of Aryl-Ether Bond Cleavage in Lignin by LigF and LigG | Journal of Physical Chemistry B | 123(48) 10142–51 |
| 2019 | 10.1073/pnas.1913803116 | Marckmann, D., P. I. Trasnea, J. Schimpf, C. Winterstein, A. Andrei, S. Schmollinger, C. E. Blaby-Haas, T. Friedrich, F. Daldal and H. G. Koch | The cbb3-type cytochrome oxidase assembly factor CcoG is a widely distributed cupric reductase | Proceedings of the National Academy of Sciences of the United States of America | 116(42) 21166–75 |
| 2019 | 10.1186/s13068-019-1515-7 | Patri, A. S., L. McAlister, C. M. Cai, R. Kumar and C. E. Wyman | CELF significantly reduces milling requirements and improves soaking effectiveness for maximum sugar recovery of Alamo switchgrass over dilute sulfuric acid pretreatment | Biotechnology for Biofuels | 12 |
| 2019 | 10.1016/bs.abr.2018.11.008 | Harding, S. A. and C. J. Tsai | Cell wall pectins in tree growth and woody biomass utilization | Molecular Physiology and Biotechnology of Trees | 89 235–56 |
| 2019 | 10.1093/synbio/ysz003 | Dudley, Q. M., C. J. Nash and M. C. Jewett | Cell-free biosynthesis of limonene using enzyme-enriched Escherichia coli lysates | Synthetic Biology | 4(1) |
| 2019 | 10.1038/s41467-019-08448-y | Valliere, M. A., T. P. Korman, N. B. Woodall, G. A. Khitrov, R. E. Taylor, D. Baker and J. U. Bowie | A cell-free platform for the prenylation of natural products and application to cannabinoid production | Nature Communications | 10(1) 565 |
| 2019 | 10.3791/59495 | Wiegand, D. J., H. H. Lee, N. Ostrov and G. M. Church | Cell-free Protein Expression Using the Rapidly Growing Bacterium Vibrio natriegens | Journal of Visualized Experiments | (145) e59495 |
| 2019 | 10.1016/j.coisb.2019.01.001 | Lugagne, J. B. and M. J. Dunlop | Cell-machine interfaces for characterizing gene regulatory network dynamics | Current Opinion in Systems Biology | 14 45299 |
| 2019 | 10.1016/j.carbon.2018.10.099 | Nguyen, H. N., C. Chaves-Lopez, R. C. Oliveira, A. Paparella and D. E. Rodrigues | Cellular and metabolic approaches to investigate the effects of graphene and graphene oxide in the fungi Aspergillus flavus and Aspergillus niger | Carbon | 143 419–29 |
| 2019 | 10.1039/c9gc00252a | Ding, J. H., C. G. Yoo, Y. Q. Pu, X. Z. Meng, S. Bhagia, C. W. Yu and A. J. Ragauskas | Cellulolytic enzyme-aided extraction of hemicellulose from switchgrass and its characteristics | Green Chemistry | 21(14) 3902–10 |
| 2019 | 10.1039/c9gc00262f | Kothari, N., S. Bhagia, M. Zaher, Y. Q. Pu, A. Mittal, C. G. Yoo, M. E. Himmel, A. J. Ragauskas, R. Kumar and C. E. Wyman | Cellulose hydrolysis by Clostridium thermocellum is agnostic to substrate structural properties in contrast to fungal cellulases | Green Chemistry | 21(10) 2810–22 |
| 2019 | 10.1039/c8se00287h | Satari, B., K. Karimi and R. Kumar | Cellulose solvent-based pretreatment for enhanced second-generation biofuel production: a review | Sustainable Energy & Fuels | 3(1) 11–62 |
| 2019 | 10.1111/gcbb.12585 | Parish, A. L., A. D. Kendall, A. M. Thompson, R. S. Stenjem and D. W. Hyndman | Cellulosic biofuel crops alter evapotranspiration and drainage fluxes: Direct quantification using automated equilibrium tension lysimeters | GCB Bioenergy | 11(3) 505–16 |
| 2019 | 10.1007/s10529-018-2622-4 | Sake, C. L., A. J. Metcalf and N. R. Boyle | The challenge and potential of photosynthesis: unique considerations for metabolic flux measurements in photosynthetic microorganisms | Biotechnology Letters | 41(1) 35–45 |
| 2019 | 10.1128/mBio.02287-19 | Van Goethem, M. W., T. L. Swenson, G. Trubl, S. Roux and T. R. Northen | Characteristics of Wetting-Induced Bacteriophage Blooms in Biological Soil Crust | mBio | 10(6) |
| 2019 | 10.1007/s00425-019-03288-y | de O. Buanafina, M. M., M. Fernanda Buanafina, T. Laremore, E. A. Shearer and H. W. Fescemyer | Characterization of feruloyl esterases in maize pollen | Planta | 250(6) 2063–82 |
| 2019 | 10.1016/j.biortech.2018.09.130 | Meng, X., A. Parikh, B. Seemala, R. Kumar, Y. Pu, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Characterization of fractional cuts of co-solvent enhanced lignocellulosic fractionation lignin isolated by sequential precipitation | Bioresource Technology | 272 202–8 |
| 2019 | 10.1021/acscentsci.9b00403 | Jones, C. G., M. Asay, L. J. Kim, J. F. Kleinsasser, A. Saha, T. J. Fulton, K. R. Berkley, D. Cascio, A. G. Malyutin, M. P. Conley, B. M. Stoltz, V. Lavallo, J. A. Rodríguez and H. M. Nelson | Characterization of Reactive Organometallic Species via MicroED | ACS Central Science | 5(9) 1507-1513 |
| 2019 | 10.1016/j.ymben.2018.09.006 | Cui, J., D. G. Olson and L. R. Lynd | Characterization of the Clostridium thermocellum AdhE, NfnAB, ferredoxin and Pfor proteins for their ability to support high titer ethanol production in Thermoanaerobacterium saccharolyticum | Metabolic Engineering | 51 32–42 |
| 2019 | 10.1038/s41598-019-50125-z | Reese, K. L., C. L. Fisher, P. D. Lane, J. D. Jaryenneh, M. W. Moorman, A. D. Jones, M. Frank and T. W. Lane | Chemical Profiling of Volatile Organic Compounds in the Headspace of Algal Cultures as Early Biomarkers of Algal Pond Crashes | Scientific Reports | 9(1) 13866 |
| 2019 | 10.1007/978-1-4939-9721-3_6 | Mayali, X., P. K. Weber, E. Nuccio, J. Lietard, M. Somoza, S. J. Blazewicz and J. Pett-Ridge | Chip-SIP: Stable Isotope Probing Analyzed with rRNA-Targeted Microarrays and NanoSIMS | Methods in Molecular Biology | 2046 71–87 |
| 2019 | 10.1104/pp.19.00653 | Uygun, S., C. B. Azodi and S. H. Shiu | Cis-Regulatory Code for Predicting Plant Cell-Type Transcriptional Response to High Salinity | Plant Physiology | 181(4) 1739–51 |
| 2019 | 10.1016/j.soilbio.2018.09.036 | Geyer, K. M., P. Dijkstra, R. Sinsabaugh and S. D. Frey | Clarifying the interpretation of carbon use efficiency in soil through methods comparison | Soil Biology and Biochemistry | 128 79–88 |
| 2019 | 10.1038/s41477-019-0501-1 | Muller, L. M., K. Flokova, E. Schnabel, X. Sun, Z. Fei, J. Frugoli, H. J. Bouwmeester and M. J. Harrison | A CLE-SUNN module regulates strigolactone content and fungal colonization in arbuscular mycorrhiza | Nature Plants | 5(9) 933–9 |
| 2019 | 10.1016/j.envpol.2019.04.129 | Yang, Q., X. Zhang, J. E. Almendinger, M. Huang, X. Chen, G. Leng, Y. Zhou, K. Zhao, G. R. Asrar and X. Li | Climate change will pose challenges to water quality management in the St. Croix River basin | Environmental Pollution | 251 302–11 |
| 2019 | 10.1038/s41559-019-0848-8 | Guo, X., X. Zhou, L. Hale, M. Yuan, D. Ning, et al. | Climate warming accelerates temporal scaling of grassland soil microbial biodiversity | Nature Ecology & Evolution | 3(4) 612–9 |
| 2019 | 10.1111/gcb.14553 | Ware, I. M., M. E. Van Nuland, J. A. Schweitzer, Z. Yang, C. W. Schadt, L. C. Sidak-Loftis, N. E. Stone, J. D. Busch, D. M. Wagner and J. K. Bailey | Climate-driven reduction of genetic variation in plant phenology alters soil communities and nutrient pools | Global Change Biology | 25(4) 1514–28 |
| 2019 | 10.1111/gcbb.12609 | Zhang, L., T. E. Juenger, D. B. Lowry and K. D. Behrman | Climatic impact, future biomass production, and local adaptation of four switchgrass cultivars | GCB Bioenergy | 11(8) 956–70 |
| 2019 | 10.1111/1462-2920.14608 | Zimmerman, A. E., C. Bachy, X. Ma, S. Roux, H. B. Jang, M. B. Sullivan, J. R. Waldbauer and A. Z. Worden | Closely related viruses of the marine picoeukaryotic alga Ostreococcus lucimarinus exhibit different ecological strategies | Environmental Microbiology | 21(6) 2148–70 |
| 2019 | 10.1093/abbs/gmz080 | Rao, X. and R. A. Dixon | Co-expression networks for plant biology: why and how | Acta Biochimica et Biophysica Sinica | 51(10) 981–8 |
| 2019 | 10.1104/pp.19.00920 | Cocuron, J. C., M. Koubaa, R. Kimmelfield, Z. Ross and A. P. Alonso | A Combined Metabolomics and Fluxomics Analysis Identifies Steps Limiting Oil Synthesis in Maize Embryos | Plant Physiology | 181(3) 961–75 |
| 2019 | 10.1016/j.ymben.2019.08.014 | Yu King Hing, N., F. Liang, P. Lindblad and J. A. Morgan | Combining isotopically non-stationary metabolic flux analysis with proteomics to unravel the regulation of the Calvin-Benson-Bassham cycle in Synechocystis sp. PCC 6803 | Metabolic Engineering | 56 77–84 |
| 2019 | 10.1186/s13068-019-1446-3 | Xie, H., N. L. Engle, S. Venketachalam, C. G. Yoo, J. Barros, et al. | Combining loss of function of olylpolyglutamate synthetase1 and caffeoyl-coa 3-o-methyltransferase1 for lignin reduction and improved saccharification efficiency in Arabidopsis thaliana | Biotechnology for Biofuels | 12 108 |
| 2019 | 10.1038/s41579-019-0255-9 | Lawson, C. E., W. R. Harcombe, R. Hatzenpichler, S. R. Lindemann, F. E. Loffler, M. A. O'Malley, H. Garcia Martin, B. F. Pfleger, L. Raskin, O. S. Venturelli, D. G. Weissbrodt, D. R. Noguera and K. D. McMahon | Common principles and best practices for engineering microbiomes | Nature Reviews Microbiology | 17(12) 725–41 |
| 2019 | 10.1146/annurev-arplant-050718-095841 | Blaby-Haas, C. E. and S. S. Merchant | Comparative and Functional Algal Genomics | Annual Review of Plant Biology | 70 605–38 |
| 2019 | 10.1128/AEM.01983-18 | Lee, L. L., W. S. Hart, V. V. Lunin, M. Alahuhta, Y. J. Bomble, M. E. Himmel, S. E. Blumer-Schuette, M. W. W. Adams and R. M. Kelly | Comparative Biochemical and Structural Analysis of Novel Cellulose Binding Proteins (Tapirins) from Extremely Thermophilic Caldicellulosiruptor Species | Applied and Environmental Microbiology | 85(3) |
| 2019 | 10.1002/9781119409144.ch136 | Pingault, L., Z. Qiao and M. Libault | Comparative genomic and transcriptomic analyses of legume genes controlling the nodulation process | The Model Legume Medicago Truncatula | 1055–61 |
| 2019 | 10.3389/fpls.2019.00292 | Moseley, R. C., G. A. Tuskan and X. Yang | Comparative genomics analysis provides new insight into molecular basis of stomatal movement in Kalanchoë fedtschenkoi | Frontiers in Plant Science | 10 |
| 2019 | 10.1093/jxb/erz408 | Yang, X., D. Liu, T. J. Tschaplinski and G. A. Tuskan | Comparative genomics can provide new insights into the evolutionary mechanisms and gene function in CAM plants | Journal of Experimental Biology | 70(22) 6539–47 |
| 2019 | 10.1007/s00248-018-1239-4 | Albright, M. B. N., B. Timalsina, J. B. H. Martiny and J. Dunbar | Comparative Genomics of Nitrogen Cycling Pathways in Bacteria and Archaea | Microbial Ecology | 77(3) 597–606 |
| 2019 | 10.1093/gbe/evz136 | Vuong, H. Q. and Q. S. McFrederick | Comparative Genomics of Wild Bee and Flower Isolated Lactobacillus Reveals Potential Adaptation to the Bee Host | Genome Biology and Evolution | 11(8) 2151–61 |
| 2019 | 10.1002/aic.16367 | Abernathy, M. H., Y. C. Zhang, W. D. Hollinshead, G. Wang, E. E. K. Baidoo, T. G. Liu and Y. J. J. Tang | Comparative studies of glycolytic pathways and channeling under in vitro and in vivo modes | AIChE Journal | 65(2) 483–90 |
| 2019 | 10.1039/c9gc01663e | Song, Y., A. H. Motagamwala, S. D. Karlen, J. A. Dumesic, J. Ralph, J. K. Mobley and M. Crocker | A comparative study of secondary depolymerization methods on oxidized lignins | Green Chemistry | 21(14) 3940–7 |
| 2019 | 10.1038/s41598-019-53679-0 | Orellana, L. H., J. K. Hatt, R. Iyer, K. Chourey, R. L. Hettich, J. C. Spain, W. H. Yang, J. C. Chee-Sanford, R. A. Sanford, F. E. Löffler and K. T. Konstantinidis | Comparing DNA, RNA and protein levels for measuring microbial dynamics in soil microcosms amended with nitrogen fertilizer | Scientific Reports | 9(1) |
| 2019 | 10.1186/s12864-018-5393-3 | Ma, F., B. K. Fuqua, Y. Hasin, C. Yukhtman, C. D. Vulpe, A. J. Lusis and M. Pellegrini | A comparison between whole transcript and 3' RNA sequencing methods using Kapa and Lexogen library preparation methods | BMC Genomics | 20(1) 9 |
| 2019 | 10.3390/pr7060361 | Garcia, S. and C. T. Trinh | Comparison of Multi-Objective Evolutionary Algorithms to Solve the Modular Cell Design Problem for Novel Biocatalysis | Processes | 7(6) |
| 2019 | 10.1093/femsec/fiz147 | Hashmi, I., C. Paul, A. Al-Dourobi, F. Sandoz, P. Deschamps, T. Junier, P. Junier and S. Bindschedler | Comparison of the plant growth-promotion performance of a consortium of Bacilli inoculated as endospores or as vegetative cells | FEMS Microbiology Ecology | 95(11) |
| 2019 | 10.1128/MRA.00432-19 | Langley, S., T. Eng, K. H. Wan, R. A. Herbert, A. P. Klein, Y. Yoshikuni, S. G. Tringe, J. B. Brown, S. E. Celniker, J. C. Mortimer and A. Mukhopadhyay | Complete Genome Sequence of Agrobacterium sp. Strain 33MFTa1.1, Isolated from Thlaspi arvense Roots | Microbiology Resource Announcements | 8(37) |
| 2019 | 10.1128/MRA.00708-19 | Hatmaker, E. A., D. M. Klingeman, R. K. Martin, A. M. Guss and J. G. Elkins | Complete Genome Sequence of Caloramator sp. Strain E03, a Novel Ethanologenic, Thermophilic, Obligately Anaerobic Bacterium | Microbiology Resource Announcements | 8(32) |
| 2019 | 10.1128/MRA.00456-19 | Day, L. A., K. B. De Leon, M. L. Kempher, J. Zhou and J. D. Wall | Complete Genome Sequence of Desulfovibrio desulfuricans IC1, a Sulfonate-Respiring Anaerobe | Microbiology Resource Announcements | 8(31) |
| 2019 | 10.1128/MRA.01538-18 | McComb, E., J. Holm, B. Ma and J. Ravel | Complete Genome Sequence of Lactobacillus crispatus CO3MRSI1 | Microbiology Resource Announcements | 8(5) |
| 2019 | 10.1128/MRA.01065-19 | Podar, M., J. Turner, L. H. Burdick and D. A. Pelletier | Complete Genome Sequence of Terriglobus albidus Strain ORNL, an Acidobacterium Isolated from the Populus deltoides Rhizosphere | Microbiology Resource Announcements | 8(46) |
| 2019 | 10.1128/MRA.00793-19 | Zhang, Y., Y. T. Liao, A. Salvador, X. Sun and V. C. H. Wu | Complete Genome Sequence of a Shiga Toxin-Converting Bacteriophage, Escherichia Phage Lys12581Vzw, Induced from an Outbreak Shiga Toxin-Producing Escherichia coli Strain | Microbiology Resource Announcements | 8(36) |
| 2019 | 10.1128/MRA.01077-19 | Garcia, C. A., J. A. Narrett and J. G. Gardner | Complete Genome Sequences of Cellvibrio japonicus Strains with Improved Growth When Using α-Diglucosides | Microbiology Resource Announcements | 8(44) |
| 2019 | 10.1128/MRA.01430-18 | Hatmaker, E. A., D. M. Klingeman, K. B. O'Dell, L. A. Riley, B. Papanek and A. M. Guss | Complete Genome Sequences of Two Megasphaera elsdenii Strains, NCIMB 702410 and ATCC 25940 | Microbiology Resource Announcements | 8(3) |
| 2019 | 10.1111/pce.13546 | Weng, X., J. T. Lovell, S. L. Schwartz, C. Cheng, T. Haque, L. Zhang, S. Razzaque and T. E. Juenger | Complex interactions between day length and diurnal patterns of gene expression drive photoperiodic responses in a perennial C4 grass | Plant Cell & Environment | 42(7) 2165–82 |
| 2019 | 10.1016/j.mec.2019.e00101 | Dinh, H. V., P. F. Suthers, S. H. J. Chan, Y. Shen, T. Xiao, A. Deewan, S. S. Jagtap, H. Zhao, C. V. Rao, J. D. Rabinowitz and C. D. Maranas | A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data | Metabolic Engineering Communications | 9 e00101 |
| 2019 | 10.1073/pnas.1903229116 | Bastiaanse, H., M. Zinkgraf, C. Canning, H. Tsai, M. Lieberman, L. Comai, I. Henry and A. Groover | A comprehensive genomic scan reveals gene dosage balance impacts on quantitative traits in Populus trees | Proceedings of the National Academy of Sciences of the United States of America | 116(27) 13690–9 |
| 2019 | 10.1021/acschembio.9b00725 | Garcia, D. C., X. Cheng, M. L. Land, R. F. Standaert, J. L. Morrell-Falvey and M. J. Doktycz | Computationally Guided Discovery and Experimental Validation of Indole-3-acetic Acid Synthesis Pathways | ACS Chemical Biology | 14(12) 2867–75 |
| 2019 | 10.1016/j.ymben.2019.06.013 | Roell, G. W., R. R. Carr, T. Campbell, Z. Shang, W. R. Henson, J. J. Czajka, H. G. Martin, F. Zhang, M. Foston, G. Dantas, T. S. Moon and Y. J. Tang | A concerted systems biology analysis of phenol metabolism in Rhodococcus opacus PD630 | Metabolic Engineering | 55 120–30 |
| 2019 | 10.3389/fmicb.2019.02181 | Singer, E., J. Bonnette, T. Woyke and T. E. Juenger | Conservation of Endophyte Bacterial Community Structure Across Two Panicum Grass Species | Frontiers in Microbiology | 10 2181 |
| 2019 | 10.1021/acssynbio.9b00213 | DeLorenzo, D. M. and T. S. Moon | Construction of Genetic Logic Gates Based on the T7 RNA Polymerase Expression System in Rhodococcus opacus PD630 | ACS Synthetic Biology | 8(8) 1921–30 |
| 2019 | 10.1021/acscatal.9b02737 | Fasan, R., S. B. Jennifer Kan and H. Zhao | A Continuing Career in Biocatalysis: Frances H. Arnold | ACS Catalysis | 9(11) 9775–88 |
| 2019 | 10.1016/j.soilbio.2018.08.025 | Szymanski, L. M., G. R. Sanford, K. A. Heckman, R. D. Jackson and E. Marin-Spiotta | Conversion to bioenergy crops alters the amount and age of microbially-respired soil carbon | Soil Biology and Biochemistry | 128 35–44 |
| 2019 | 10.1007/s11626-019-00354-3 | Altpeter, F., S. Parajuli, B. Kannan, G. B. Luo, R. Karan, H. Liu, E. Garcia-Ruiz, H. M. Zhao and J. Shanklin | Converting Sugarcane into Oilcane by Metabolic Engineering | In Vitro Cellular & Developmental Biology-Animal | 55 S16 |
| 2019 | 10.1093/nar/gkz642 | Hancock, S. P., D. Cascio and R. C. Johnson | Cooperative DNA binding by proteins through DNA shape complementarity | Nucleic Acids Research | 47(16) 8874–87 |
| 2019 | 10.1007/s11295-019-1399-5 | Bdeir, R., W. Muchero, Y. Yordanov, G. A. Tuskan, V. Busov, J. Zhang and O. Gailing | Correction to: Genome-wide association studies of bark texture in Populus trichocarpa | Tree Genetics & Genomes | 15(6) |
| 2019 | 10.1038/s41467-018-07946-9 | Pacheco, A. R., M. Moel and D. Segre | Costless metabolic secretions as drivers of interspecies interactions in microbial ecosystems | Nature Communications | 10(1) 103 |
| 2019 | 10.1002/bbb.1976 | Cheng, M. H., H. B. Huang, B. S. Dien and V. Singh | The costs of sugar production from different feedstocks and processing technologies | Biofuels, Bioproducts and Biorefining | 13(3) 723–39 |
| 2019 | 10.1038/s41477-019-0510-0 | Vanholme, R., L. Sundin, K. C. Seetso, H. Kim, X. Liu, et al. | COSY catalyses trans-cis isomerization and lactonization in the biosynthesis of coumarins | Nature Plants | 5(10) 1066–75 |
| 2019 | 10.3389/fpls.2019.00129 | Amin, A. B., K. N. Rathnayake, W. C. Yim, T. M. Garcia, B. Wone, J. C. Cushman and B. W. M. Wone | Crassulacean Acid Metabolism Abiotic Stress-Responsive Transcription Factors: A Potential Genetic Engineering Approach for Improving Crop Tolerance to Abiotic Stress | Frontiers in Plant Science | 10 129 |
| 2019 | 10.1186/s13068-019-1386-y | Kahn, A., S. Morais, A. P. Galanopoulou, D. Chung, N. S. Sarai, N. Hengge, D. G. Hatzinikolaou, M. E. Himmel, Y. J. Bomble and E. A. Bayer | Creation of a functional hyperthermostable designer cellulosome | Biotechnology for Biofuels | 12 44 |
| 2019 | 10.1038/s41598-019-52400-5 | Noirot-Gros, M. F., S. Forrester, G. Malato, P. E. Larsen and P. Noirot | CRISPR interference to interrogate genes that control biofilm formation in Pseudomonas fluorescens | Scientific Reports | 9(1) 15954 |
| 2019 | 10.1093/jxb/erz415 | Liu, D., M. Chen, B. Mendoza, H. Cheng, R. Hu, L. Li, C. T. Trinh, G. A. Tuskan and X. Yang | CRISPR/Cas9-mediated targeted mutagenesis for functional genomics research of crassulacean acid metabolism plants | Journal of Experimental Botany | 70(22) 6621–9 |
| 2019 | 10.3389/fpls.2019.00915 | Amos, R. A. and D. Mohnen | Critical Review of Plant Cell Wall Matrix Polysaccharide Glycosyltransferase Activities Verified by Heterologous Protein Expression | Frontiers in Plant Science | 10 915 |
| 2019 | 10.1039/c8gc03606c | Giummarella, N., Y. Q. Pu, A. J. Ragauskas and M. Lawoko | A critical review on the analysis of lignin carbohydrate bonds | Green Chemistry | 21(7) 1573–95 |
| 2019 | 10.1111/nph.15685 | Broddrick, J. T., N. Du, S. R. Smith, Y. Tsuji, D. Jallet, M. A. Ware, G. Peers, Y. Matsuda, C. L. Dupont, B. G. Mitchell, B. O. Palsson and A. E. Allen | Cross-compartment metabolic coupling enables flexible photoprotective mechanisms in the diatom Phaeodactylum tricornutum | New Phytologist | 222(3) 1364–79 |
| 2019 | 10.1038/s41594-019-0248-4 | Cao, Q., D. R. Boyer, M. R. Sawaya, P. Ge and D. S. Eisenberg | Cryo-EM structures of four polymorphic TDP-43 amyloid cores | Nature Structural & Molecular Biology | 26(7) 619–27 |
| 2019 | 10.1093/nar/gky1309 | Caldwell, B. J., E. Zakharova, G. T. Filsinger, T. M. Wannier, J. P. Hempfling, L. Chun-Der, D. Pei, G. M. Church and C. E. Bell | Crystal structure of the Redβ C-terminal domain in complex with λ Exonuclease reveals an unexpected homology with λ Orf and an interaction with Escherichia coli single stranded DNA binding protein | Nucleic Acids Research | 47(4) 1950–63 |
| 2019 | 10.1038/s41598-018-37988-4 | Zhang, Y., C. E. Blaby-Haas, S. Steimle, A. F. Verissimo, V. A. Garcia-Angulo, H. G. Koch, F. Daldal and B. Khalfaoui-Hassani | Cu Transport by the Extended Family of CcoA-like Transporters (CalT) in Proteobacteria | Scientific Reports | 9(1) 1208 |
| 2019 | 10.1128/mSystems.00072-19 | Price, M. N. and A. P. Arkin | Curated BLAST for Genomes | mSystems | 4(2) |
| 2019 | 10.3791/59992 | Murphy, K. M., S. Chung, S. Fogla, H. B. Minsky, K. Y. Zhu and P. Zerbe | A Customizable Approach for the Enzymatic Production and Purification of Diterpenoid Natural Products | Journal of Visualized Experiments | (152) e59992 |
| 2019 | 10.1038/s41467-019-08515-4 | Sadre, R., P. Kuo, J. Chen, Y. Yang, A. Banerjee, C. Benning and B. Hamberger | Cytosolic lipid droplets as engineered organelles for production and accumulation of terpenoid biomaterials in leaves | Nature Communications | 10(1) 853 |
| 2019 | 10.3389/fgene.2019.00874 | Weighill, D., T. J. Tschaplinski, G. A. Tuskan and D. Jacobson | Data Integration in Poplar: 'Omics Layers and Integration Strategies | Frontiers in Genetics | 10 874 |
| 2019 | 10.1042/ETLS20180177 | Glynn, C. and J. A. Rodriguez | Data-driven challenges and opportunities in crystallography | Emerging Topics in Life Sciences | 3(4) 423–32 |
| 2019 | 10.1002/asjc.1782 | Xu, Y., G. Zhang, N. Li, J. Zhang, S. Li and L. Wang | Data-Driven Performance Monitoring for Model Predictive Control Using a mahalanobis distance based overall index | Asian Journal of Control | 21(2) 891-907 |
| 2019 | 10.1074/jbc.RA118.006025 | Johnson, S. R., W. W. Bhat, J. Bibik, A. Turmo, B. Hamberger, C. Evolutionary Mint Genomics and B. Hamberger | A database-driven approach identifies additional diterpene synthase activities in the mint family (Lamiaceae) | Journal of Biological Chemistry | 294(4) 1349–62 |
| 2019 | 10.1093/nar/gkz772 | Liu, X., S. T. P. Gupta, D. Bhimsaria, J. L. Reed, J. A. Rodríguez-Martínez, A. Z. Ansari and S. Raman | De novo design of programmable inducible promoters | Nucleic Acids Research | 47(19) 10452–63 |
| 2019 | 10.1093/femsec/fiz049 | Altshuler, I., J. Ronholm, A. Layton, T. C. Onstott, W. G. C and L. G. Whyte | Denitrifiers, nitrogen-fixing bacteria and N2O soil gas flux in high Arctic ice-wedge polygon cryosols | FEMS Microbiology Ecology | 95(5) |
| 2019 | 10.1128/mSystems.00263-18 | Thommes, M., T. Wang, Q. Zhao, I. C. Paschalidis and D. Segre | Designing Metabolic Division of Labor in Microbial Communities | mSystems | 4(2) |
| 2019 | 10.1186/s13068-019-1426-7 | da Costa, R. M. F., S. Pattathil, U. Avci, A. Winters, M. G. Hahn and M. Bosch | Desirable plant cell wall traits for higher-quality miscanthus lignocellulosic biomass | Biotechnology for Biofuels | 12 85 |
| 2019 | 10.1038/s41596-019-0191-1 | Meng, X., C. Crestini, H. Ben, N. Hao, Y. Pu, A. J. Ragauskas and D. S. Argyropoulos | Determination of hydroxyl groups in biorefinery resources via quantitative 31P NMR spectroscopy | Nature Protocols | 14(9) 2627–47 |
| 2019 | 10.1021/acs.est.8b06389 | Christensen, G. A., C. M. Gionfriddo, A. J. King, J. G. Moberly, C. L. Miller, et al. | Determining the Reliability of Measuring Mercury Cycling Gene Abundance with Correlations with Mercury and Methylmercury Concentrations | Environmental Science & Technology | 53(15) 8649–63 |
| 2019 | 10.1016/j.funeco.2018.12.009 | Bruns, T. D. | The developing relationship between the study of fungal communities and community ecology theory | Fungal Ecology | 39 393–402 |
| 2019 | 10.1016/j.copbio.2018.09.003 | Barros, J., S. Temple and R. A. Dixon | Development and commercialization of reduced lignin alfalfa | Current Opinion in Biotechnology | 56 48–54 |
| 2019 | 10.1186/s13068-019-1535-3 | Anthony, W. E., R. R. Carr, D. M. DeLorenzo, T. P. Campbell, Z. Shang, M. Foston, T. S. Moon and G. Dantas | Development of Rhodococcus opacus as a chassis for lignin valorization and bioproduction of high-value compounds | Biotechnology for Biofuels | 12 192 |
| 2019 | 10.1002/bit.27001 | Schultz, J. C., M. Cao and H. Zhao | Development of a CRISPR/Cas9 system for high efficiency multiplexed gene deletion in Rhodosporidium toruloides | Biotechnology and Bioengineering | 116(8) 2103–9 |
| 2019 | 10.1128/mSphere.00345-19 | Tran, V. G., M. Cao, Z. Fatma, X. Song and H. Zhao | Development of a CRISPR/Cas9-Based Tool for Gene Deletion in Issatchenkia orientalis | mSphere | 4(3) |
| 2019 | 10.3389/fmolb.2019.00115 | Gupta, V., B. Zhang, C. R. Penton, J. Yu and J. M. Tiedje | Diazotroph Diversity and Nitrogen Fixation in Summer Active Perennial Grasses in a Mediterranean Region Agricultural Soil | Frontiers in Molecular Biosciences | 6 115 |
| 2019 | 10.1038/s41396-019-0472-2 | Kolody, B. C., J. P. McCrow, L. Z. Allen, F. O. Aylward, K. M. Fontanez, A. Moustafa, M. Moniruzzaman, F. P. Chavez, C. A. Scholin, E. E. Allen, A. Z. Worden, E. F. Delong and A. E. Allen | Diel transcriptional response of a California Current plankton microbiome to light, low iron, and enduring viral infection | The ISME Journal | 13(11) 2817–33 |
| 2019 | 10.1038/s41598-019-42865-9 | Torres-Cortes, G., B. J. Garcia, S. Compant, S. Rezki, P. Jones, A. Preveaux, M. Briand, A. Roulet, O. Bouchez, D. Jacobson and M. Barret | Differences in resource use lead to coexistence of seed-transmitted microbial populations | Scientific Reports | 9(1) 6648 |
| 2019 | 10.1038/s41467-019-09986-1 | Anderson, E. M., M. L. Stone, R. Katahira, M. Reed, W. Muchero, K. J. Ramirez, G. T. Beckham and Y. Roman-Leshkov | Differences in S/G ratio in natural poplar variants do not predict catalytic depolymerization monomer yields | Nature Communications | 10(1) 2033 |
| 2019 | 10.1111/jbi.13641 | Barge, E. G., D. R. Leopold, K. G. Peay, G. Newcombe and P. E. Busby | Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa | Journal of Biogeography | 46(9) 2001–11 |
| 2019 | 10.1021/acschembio.9b00532 | Throckmorton, K., V. Vinnik, R. Chowdhury, T. Cook, M. G. Chevrette, C. Maranas, B. Pfleger and M. G. Thomas | Directed Evolution Reveals the Functional Sequence Space of an Adenylation Domain Specificity Code | ACS Chemical Biology | 14(9) 2044–54 |
| 2019 | 10.1016/j.syapm.2018.12.003 | Martinez, M. A., B. J. Woodcroft, J. C. Ignacio Espinoza, A. A. Zayed, C. M. Singleton, et al. | Discovery and ecogenomic context of a global Caldiserica-related phylum active in thawing permafrost, Candidatus Cryosericota phylum nov., Ca. Cryosericia class nov., Ca. Cryosericales ord. nov., Ca. Cryosericaceae fam. nov., comprising the four species Cryosericum septentrionale gen. nov. sp. nov., Ca. C. hinesii sp. nov., Ca. C. odellii sp. nov., Ca. C. terrychapinii sp. nov | Systematic and Applied Microbiology | 42(1) 54–66 |
| 2019 | 10.1111/mmi.14380 | Brenac, L., E. E. K. Baidoo, J. D. Keasling and I. Budin | Distinct functional roles for hopanoid composition in the chemical tolerance of Zymomonas mobilis | Vaccine | 112(5) 1564–75 |
| 2019 | 10.1002/cbic.201800580 | Pelot, K. A., D. M. Hagelthorn, Y. J. Hong, D. J. Tantillo and P. Zerbe | Diterpene Synthase-Catalyzed Biosynthesis of Distinct Clerodane Stereoisomers | ChemBioChem | 20(1) 111–7 |
| 2019 | 10.1371/journal.pcbi.1006692 | Sarkar, D., T. J. Mueller, D. Liu, H. B. Pakrasi and C. D. Maranas | A diurnal flux balance model of Synechocystis sp. PCC 6803 metabolism | PLoS Computational Biology | 15(1) e1006692 |
| 2019 | 10.1038/s41396-018-0343-2 | Boyd, J. A., S. P. Jungbluth, A. O. Leu, P. N. Evans, B. J. Woodcroft, G. L. Chadwick, V. J. Orphan, J. P. Amend, M. S. Rappe and G. W. Tyson | Divergent methyl-coenzyme M reductase genes in a deep-subseafloor Archaeoglobi | The ISME Journal | 13(5) 1269–79 |
| 2019 | 10.1111/pce.13509 | Watts-Williams, S. J., B. D. Emmett, V. Levesque-Tremblay, A. M. MacLean, X. Sun, J. W. Satterlee, Z. Fei and M. J. Harrison | Diverse Sorghum bicolor accessions show marked variation in growth and transcriptional responses to arbuscular mycorrhizal fungi | Plant Cell & Environment | 42(5) 1758–74 |
| 2019 | 10.1038/s41598-018-38124-y | Knoot, C. J. and H. B. Pakrasi | Diverse hydrocarbon biosynthetic enzymes can substitute for olefin synthase in the cyanobacterium Synechococcus sp. PCC 7002 | Scientific Reports | 9(1) 1360 |
| 2019 | 10.3390/plants8070229 | Fan, J., C. Zhou, L. Yu, P. Li, J. Shanklin and C. Xu | Diversion of Carbon Flux from Sugars to Lipids Improves the Growth of an Arabidopsis Starchless Mutant | Plants | 8(7) |
| 2019 | 10.1093/nar/gkz121 | Jabre, I., A. S. N. Reddy, M. Kalyna, S. Chaudhary, W. Khokhar, L. J. Byrne, C. M. Wilson and N. H. Syed | Does co-transcriptional regulation of alternative splicing mediate plant stress responses? | Nucleic Acids Research | 47(6) 2716–26 |
| 2019 | 10.1093/bib/bbx088 | Cao, H., Q. Ma, X. Chen and Y. Xu | DOOR: a prokaryotic operon database for genome analyses and functional inference | Briefings in Bioinformatics | 20(4) 1568–77 |
| 2019 | 10.1111/nph.15479 | Murik, O., L. Tirichine, J. Prihoda, Y. Thomas, W. L. Araujo, A. E. Allen, A. R. Fernie and C. Bowler | Downregulation of mitochondrial alternative oxidase affects chloroplast function, redox status and stress response in a marine diatom | New Phytologist | 221(3) 1303–16 |
| 2019 | 10.1038/s42003-018-0265-6 | Li, M., C. G. Yoo, Y. Pu, A. K. Biswal, A. K. Tolbert, D. Mohnen and A. J. Ragauskas | Downregulation of pectin biosynthesis gene GAUT4 leads to reduced ferulate and lignin-carbohydrate cross-linking in switchgrass | Communications Biology | 2 22 |
| 2019 | 10.1128/MRA.01562-18 | Kang, S., S. Denman and C. McSweeney | Draft Genome Sequence and Annotation of Oribacterium sp. Strain C9, Isolated from a Cattle Rumen | Microbiology Resource Announcements | 8(13) |
| 2019 | 10.1128/MRA.01464-18 | Domeignoz-Horta, L. A., K. M. DeAngelis and G. Pold | Draft Genome Sequence of Acidobacteria Group 1 Acidipila sp. Strain EB88, Isolated from Forest Soil | Microbiology Resource Announcements | 8(1) |
| 2019 | 10.1128/MRA.00136-19 | Aremu, B. R., C. Prigent-Combaret and O. O. Babalola | Draft Genome Sequence of Bacillus velezensis Strain ZeaDK315Endo16 | Microbiology Resource Announcements | 8(46) |
| 2019 | 10.1128/MRA.00301-19 | Gupta, N., K. A. Skinner, S. Khan, J. N. Edirisinghe and C. S. Henry | Draft Genome Sequence of Enterobacter sp. Strain A8, a Carbazole-Degrading Bacterium | Microbiology Resource Announcements | 8(18) |
| 2019 | 10.1128/MRA.01706-18 | Babalola, O. O., B. R. Aremu and A. S. Ayangbenro | Draft Genome Sequence of Heavy Metal-Resistant Bacillus cereus NWUAB01 | Microbiology Resource Announcements | 8(7) |
| 2019 | 10.1128/MRA.00857-19 | Benucci, G. M. N., S. Haridas, K. Labutti, G. Marozzi, L. Antonielli, et al. | Draft Genome Sequence of the Ectomycorrhizal Ascomycete Sphaerosporella brunnea | Microbiology Resource Announcements | 8(50) |
| 2019 | 10.1128/MRA.01683-18 | Kee, H. L., I. V. Mikheyeva, R. L. Mickol, S. C. Dawson, D. K. Newman and J. R. Leadbetter | Draft Genome Sequence of the Iridescent Marine Bacterium Tenacibaculum discolor Strain IMLK18 | Microbiology Resource Announcements | 8(5) |
| 2019 | 10.1128/MRA.01518-18 | Matu, A., A. Lum Nde, L. Oosthuizen, A. Hitzeroth, M. Badenhorst, et al. | Draft Genome Sequences of Seven Chryseobacterium Type Strains | Microbiology Resource Announcements | 8(1) |
| 2019 | 10.1128/MRA.00455-19 | Babalola, O. O., A. S. Ayangbenro and O. S. Olanrewaju | Draft Genome Sequences of Three Rhizospheric Plant Growth-Promoting Bacteria | Microbiology Resource Announcements | 8(26) |
| 2019 | 10.1093/pcp/pcy207 | Wu, P., M. Peng, Z. Li, N. Yuan, Q. Hu, C. E. Foster, C. Saski, G. Wu, D. Sun and H. Luo | DRMY1, a Myb-Like Protein, Regulates Cell Expansion and Seed Production in Arabidopsis thaliana | Plant and Cell Physiology | 60(2) 285–302 |
| 2019 | 10.1038/s41467-018-08177-8 | Mutalik, V. K., P. S. Novichkov, M. N. Price, T. K. Owens, M. Callaghan, S. Carim, A. M. Deutschbauer and A. P. Arkin | Dual-barcoded shotgun expression library sequencing for high-throughput characterization of functional traits in bacteria | Nature Communications | 10(1) 308 |
| 2019 | 10.1038/s41592-019-0465-0 | Zengler, K., K. Hofmockel, N. S. Baliga, S. W. Behie, H. C. Bernstein, et al. | EcoFABs: advancing microbiome science through standardized fabricated ecosystems | Nature Methods | 16(7) 567–71 |
| 2019 | 10.3390/pr7100642 | Cheng, M. H., Z. Q. Wang, B. S. Dien, P. J. W. Slininger and V. Singh | Economic Analysis of Cellulosic Ethanol Production from Sugarcane Bagasse Using a Sequential Deacetylation, Hot Water and Disk-Refining Pretreatment | Processes | 7(10) |
| 2019 | 10.1016/j.bcab.2019.101056 | Cheng, M. H., B. S. Dien and V. Singh | Economics of plant oil recovery: A review | Biocatalysis and Agricultural Biotechnology | 18 |
| 2019 | 10.1105/tpc.18.00676 | Cope, K. R., A. Bascaules, T. B. Irving, M. Venkateshwaran, J. Maeda, et al. | The Ectomycorrhizal Fungus Laccaria bicolor Produces Lipochitooligosaccharides and Uses the Common Symbiosis Pathway to Colonize Populus Roots | The Plant Cell | 31(10) 2386–410 |
| 2019 | 10.1104/pp.19.00533 | Man Ha, C., D. Fine, A. Bhatia, X. Rao, M. Z. Martin, N. L. Engle, D. J. Wherritt, T. J. Tschaplinski, L. W. Sumner and R. A. Dixon | Ectopic Defense Gene Expression Is Associated with Growth Defects in Medicago truncatula Lignin Pathway Mutants | Plant Physiology | 181(1) 63–84 |
| 2019 | 10.1016/j.plantsci.2019.01.006 | Kausch, A. P., K. Nelson-Vasilchik, J. Hague, M. Mookkan, H. Quemada, S. Dellaporta, C. Fragoso and Z. J. Zhang | Edit at will: Genotype independent plant transformation in the era of advanced genomics and genome editing | Plant Science | 281 186–205 |
| 2019 | 10.1109/ICORT46471.2019.9069641 | Banerjee, A., N. Nayak, D. Giri and K. Bandha | Effect of Gun Barrel Wear on Muzzle Velocity of a typical Artillery Shell | 1st International Conference on Range Technology, ICORT 2019 | |
| 2019 | 10.1016/j.biortech.2019.02.051 | Kellock, M., H. Maaheimo, K. Marjamaa, J. Rahikainen, H. Zhang, U. Holopainen-Mantila, J. Ralph, T. Tamminen, C. Felby and K. Kruus | Effect of hydrothermal pretreatment severity on lignin inhibition in enzymatic hydrolysis | Bioresource Technology | 280 303–12 |
| 2019 | 10.1007/s00374-018-1331-4 | Xue, C., Y. W. Hao, X. W. Pu, C. R. Penton, Q. Wang, M. X. Zhao, B. Z. Zhang, W. Ran, Q. W. Huang, Q. R. Shen and J. M. Tiedje | Effect of LSU and ITS genetic markers and reference databases on analyses of fungal communities | Biology and Fertility of Soils | 55(1) 79–88 |
| 2019 | 10.3389/fmicb.2019.00124 | Lohberger, A., J. E. Spangenberg, Y. Ventura, S. Bindschedler, E. P. Verrecchia, R. Bshary and P. Junier | Effect of Organic Carbon and Nitrogen on the Interactions of Morchella spp. and Bacteria Dispersing on Their Mycelium | Frontiers in Microbiology | 10 124 |
| 2019 | 10.1038/s41467-019-09090-4 | Mellmer, M. A., C. Sanpitakseree, B. Demir, K. Ma, W. A. Elliott, P. Bai, R. L. Johnson, T. W. Walker, B. H. Shanks, R. M. Rioux, M. Neurock and J. A. Dumesic | Effects of chloride ions in acid-catalyzed biomass dehydration reactions in polar aprotic solvents | Nature Communications | 10(1) 1132 |
| 2019 | 10.3389/fenrg.2019.00085 | Avci, U., X. Zhou, S. Pattathil, L. da Costa Sousa, M. G. Hahn, B. Dale, Y. Xu and V. Balan | Effects of Extractive Ammonia Pretreatment on the Ultrastructure and Glycan Composition of Corn Stover | Frontiers in Energy Research | 7 |
| 2019 | 10.3389/fpls.2019.01643 | Ulrich, D. E. M., S. Sevanto, S. Peterson, M. Ryan and J. Dunbar | Effects of Soil Microbes on Functional Traits of Loblolly Pine (Pinus taeda) Seedling Families From Contrasting Climates | Frontiers in Plant Science | 10 1643 |
| 2019 | 10.1007/s13399-018-0346-2 | Graham, B. J. and R. T. Raines | Efficient metal-free conversion of glucose to 5-hydroxymethylfurfural using a boronic acid | Biomass Conversion and Biorefinery | 9(2) 471–7 |
| 2019 | 10.1021/acssuschemeng.9b00019 | Garedew, M., D. Young-Farhat, J. E. Jackson and C. M. Saffron | Electrocatalytic Upgrading of Phenolic Compounds Observed after Lignin Pyrolysis | ACS Sustainable Chemistry & Engineering | 7(9) 8375–86 |
| 2019 | 10.1021/jacs.9b07243 | Rafiee, M., M. Alherech, S. D. Karlen and S. S. Stahl | Electrochemical Aminoxyl-Mediated Oxidation of Primary Alcohols in Lignin to Carboxylic Acids: Polymer Modification and Depolymerization | Journal of the American Chemical Society | 141(38) 15266–76 |
| 2019 | 10.3390/plants8040085 | Li, S., G. Courbet, A. Ourry and E. A. Ainsworth | Elevated Ozone Concentration Reduces Photosynthetic Carbon Gain but Does Not Alter Leaf Structural Traits, Nutrient Composition or Biomass in Switchgrass | Plants | 8(4) |
| 2019 | 10.1038/s41467-019-08717-w | Vasdekis, A. E., H. Alanazi, A. M. Silverman, C. J. Williams, A. J. Canul, J. B. Cliff, A. C. Dohnalkova and G. Stephanopoulos | Eliciting the impacts of cellular noise on metabolic trade-offs by quantitative mass imaging | Nature Communications | 10(1) 848 |
| 2019 | 10.1007/s00253-019-09710-5 | Adeniji, A. A., D. T. Loots and O. O. Babalola | Bacillus velezensis: phylogeny, useful applications, and avenues for exploitation | Applied Microbiology and Biotechnology | 103(9) 3669–82 |
| 2019 | 10.1099/ijsem.0.003140 | Bortniak, V. L., D. A. Pelletier and J. D. Newman | Chryseobacterium populi sp. nov., isolated from Populus deltoides endosphere | International Journal of Systematic and Evolutionary Microbiology | 69(2) 356–62 |
| 2019 | 10.1099/ijsem.0.004720 | Mahmoud, H., L. Jose and S. Eapen | Grimontia sedimenti sp. nov., isolated from benthic sediments near coral reefs south of Kuwait | International Journal of Systematic and Evolutionary Microbiology | 71(3) |
| 2019 | 10.1111/1462-2920.14727 | Pellegrin, C., Y. Daguerre, J. Ruytinx, F. Guinet, M. Kemppainen, N. F. D. Frey, V. Puech-Pages, A. Hecker, A. G. Pardo, F. M. Martin and C. Veneault-Fourrey | Laccaria bicolor MiSSP8 is a small-secreted protein decisive for the establishment of the ectomycorrhizal symbiosis | Environmental Microbiology | 21(10) 3765–79 |
| 2019 | 10.1007/s11103-019-00861-7 | Rigoulot, S. B., H. E. Petzold, S. P. Williams, A. M. Brunner and E. P. Beers | Populus trichocarpa clade A PP2C protein phosphatases: their stress-induced expression patterns, interactions in core abscisic acid signaling, and potential for regulation of growth and development | Plant Molecular Biology | 100(3) 303–17 |
| 2019 | 10.1099/ijsem.0.003715 | Buhl, M., C. Dunlap and M. Marschal | Prevotella brunnea sp. nov., isolated from a wound of a patient | International Journal of Systematic and Evolutionary Microbiology | 69(12) 3933–8 |
| 2019 | 10.1080/00275514.2019.1657354 | Bruns, T. D., M. L. Hale and N. H. Nguyen | Rhizopogon olivaceotinctus increases its inoculum potential in heated soil independent of competitive release from other ectomycorrhizal fungi | Mycologia | 111(6) 936–41 |
| 2019 | 10.1111/nph.15712 | Gou, J., C. Tang, N. Chen, H. Wang, S. Debnath, L. Sun, A. Flanagan, Y. Tang, Q. Jiang, R. D. Allen and Z. Y. Wang | SPL7 and SPL8 represent a novel flowering regulation mechanism in switchgrass | New Phytologist | 222(3) 1610–23 |
| 2019 | 10.1016/j.soilbio.2019.107522 | Wang, B. and S. D. Allison | Emergent properties of organic matter decomposition by soil enzymes | Soil Biology and Biochemistry | 136 |
| 2019 | 10.1128/mSystems.00230-18 | Succurro, A., D. Segre and O. Ebenhoh | Emergent Subpopulation Behavior Uncovered with a Community Dynamic Metabolic Model of Escherichia coli Diauxic Growth | mSystems | 4(1) |
| 2019 | 10.1073/pnas.1820001116 | Machovina, M. M., S. J. B. Mallinson, B. C. Knott, A. W. Meyers, M. Garcia-Borras, et al. | Enabling microbial syringol conversion through structure-guided protein engineering | Proceedings of the National Academy of Sciences of the United States of America | 116(28) 13970–6 |
| 2019 | 10.1038/s41467-019-08486-6 | Boock, J. T., A. J. E. Freedman, G. A. Tompsett, S. K. Muse, A. J. Allen, L. A. Jackson, B. Castro-Dominguez, M. T. Timko, K. L. J. Prather and J. R. Thompson | Engineered microbial biofuel production and recovery under supercritical carbon dioxide | Nature Communications | 10(1) 587 |
| 2019 | 10.1186/s42480-019-0021-9 | Sarkar, D. and C. D. Maranas | Engineering microbial chemical factories using metabolic models | BMC Chemical Engineering | 1(1) |
| 2019 | 10.1186/s12934-019-1083-3 | Roell, G. W., J. Zha, R. R. Carr, M. A. Koffas, S. S. Fong and Y. J. Tang | Engineering microbial consortia by division of labor | Microbial Cell Factories | 18(1) 35 |
| 2019 | 10.1007/s00425-018-3053-0 | Banerjee, A., J. A. Arnesen, D. Moser, B. B. Motsa, S. R. Johnson and B. Hamberger | Engineering modular diterpene biosynthetic pathways in Physcomitrella patens | Planta | 249(1) 221–33 |
| 2019 | 10.1016/j.tim.2019.01.006 | Wehrs, M., D. Tanjore, T. Eng, J. Lievense, T. R. Pray and A. Mukhopadhyay | Engineering Robust Production Microbes for Large-Scale Cultivation | Trends in Microbiology | 27(6) 524–37 |
| 2019 | 10.3389/fpls.2019.00412 | Conde, D., M. Perales, A. Sreedasyam, G. A. Tuskan, A. Lloret, M. L. Badenes, P. Gonzalez-Melendi, G. Rios and I. Allona | Engineering Tree Seasonal Cycles of Growth Through Chromatin Modification | Frontiers in Plant Science | 10 412 |
| 2019 | 10.1002/jnr.24513 | Sarafian, T. A., A. Yacoub, A. Kunz, B. Aranki, G. Serobyan, W. Cohn, J. P. Whitelegge and J. B. Watson | Enhanced mitochondrial inhibition by 3,4-dihydroxyphenyl-acetaldehyde (DOPAL)-oligomerized α-synuclein | Journal of Neuroscience Research | 97(12) 1689–705 |
| 2019 | 10.1093/synbio/ysz027 | Karim, A. S., B. J. Rasor and M. C. Jewett | Enhancing control of cell-free metabolism through pH modulation | Synthetic Biology | 5(1) |
| 2019 | 10.1002/bit.26847 | Emerson, D. F., B. M. Woolston, N. Liu, M. Donnelly, D. H. Currie and G. Stephanopoulos | Enhancing hydrogen-dependent growth of and carbon dioxide fixation by Clostridium ljungdahlii through nitrate supplementation | Biotechnology and Bioengineering | 116(2) 294–306 |
| 2019 | 10.1111/tpj.14223 | Na, G., X. Mu, P. Grabowski, J. Schmutz and C. Lu | Enhancing microRNA167A expression in seed decreases the α-linolenic acid content and increases seed size in Camelina sativa | The Plant Journal | 98(2) 346–58 |
| 2019 | 10.1021/acs.est.9b01834 | Huang, W., K. E. Hammel, J. Hao, A. Thompson, V. I. Timokhin and S. J. Hall | Enrichment of Lignin-Derived Carbon in Mineral-Associated Soil Organic Matter | Environmental Science & Technology | 53(13) 7522–31 |
| 2019 | 10.1111/gcbb.12572 | Duncan, D. S., L. G. Oates, I. Gelfand, N. Millar, G. P. Robertson and R. D. Jackson | Environmental factors function as constraints on soil nitrous oxide fluxes in bioenergy feedstock cropping systems | GCB Bioenergy | 11(2) 416–26 |
| 2019 | 10.1007/s11627-019-09993-3 | Cano, S., S. Parajuli, B. Kannan, H. Liu, E. Garcia-Ruiz, H. M. Zhao, J. Shanklin and F. Altpeter | Environmental Impacts on Triacyl Glycerol Accumulation in Vegetative Tissues of Oilcane. | In Vitro Cellular & Developmental Biology-Plant | 55(4) 494 |
| 2019 | 10.1111/oik.05548 | Liu, S. S., J. Streich, J. O. Borevitz, K. J. Rice, T. T. Li, B. Li and K. J. Bradford | Environmental resource deficit may drive the evolution of intraspecific trait variation in invasive plant populations | Oikos | 128(2) 171–84 |
| 2019 | 10.1038/s41564-019-0567-6 | Zuñiga, C., C. T. Li, G. Yu, M. M. Al-Bassam, T. Li, L. Jiang, L. S. Zaramela, M. Guarnieri, M. J. Betenbaugh and K. Zengler | Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities | Nature Microbiology | 4(12) 2184-2191 |
| 2019 | 10.1111/tpj.14340 | Zhuo, C., X. Rao, R. Azad, R. Pandey, X. Xiao, A. Harkelroad, X. Wang, F. Chen and R. A. Dixon | Enzymatic basis for C-lignin monomer biosynthesis in the seed coat of Cleome hassleriana | The Plant Journal | 99(3) 506–20 |
| 2019 | 10.3389/fpls.2019.01720 | Lee, J. H., M. Mazarei, A. C. Pfotenhauer, A. B. Dorrough, M. R. Poindexter, T. Hewezi, S. C. Lenaghan, D. E. Graham and C. N. Stewart, Jr. | Epigenetic Footprints of CRISPR/Cas9-Mediated Genome Editing in Plants | Frontiers in Plant Science | 10 1720 |
| 2019 | 10.1128/AEM.02103-19 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Erratum: To Fix or Not To Fix: Controls on Free-Living Nitrogen Fixation in the Rhizosphere (Applied and Environmental Microbiology (2019) 85: 6 (e02546-18) DOI: 10.1128/AEM.02546-18) | Applied and Environmental Microbiology | 85(22) |
| 2019 | 10.3791/58882 | Levine, M. Z., N. E. Gregorio, M. C. Jewett, K. R. Watts and J. P. Oza | Escherichia coli-Based Cell-Free Protein Synthesis: Protocols for a robust, flexible, and accessible platform technology | Journal of Visualized Experiments | (144) e58882 |
| 2019 | 10.1007/s11627-019-09993-3 | Mohan, C., D. D. Wang and F. Altpeter | Establishing a Rapid Readout System for Genome Editing of Sugarcane | In Vitro Cellular & Developmental Biology-Plant | 55(4) 487 |
| 2019 | 10.1021/acs.jafc.8b06707 | Agarwal, U. P., S. A. Ralph, D. Padmakshan, S. Liu and C. E. Foster | Estimation of Syringyl Units in Wood Lignins by FT-Raman Spectroscopy | Journal of Agricultural and Food Chemistry | 67(15) 4367–74 |
| 2019 | 10.1016/j.biteb.2019.100275 | Sitepu, I. R., L. L. Enriquez, V. Nguyen, C. Doyle, B. A. Simmons, S. W. Singer, R. Fry, C. W. Simmons and K. Boundy-Mills | Ethanol production in switchgrass hydrolysate by ionic liquid-tolerant yeasts | Bioresource Technology Reports | 7 |
| 2019 | 10.1016/j.cell.2019.01.034 | Kominek, J., D. T. Doering, D. A. Opulente, X. X. Shen, X. Zhou, J. DeVirgilio, A. B. Hulfachor, M. Groenewald, M. A. McGee, S. D. Karlen, C. P. Kurtzman, A. Rokas and C. T. Hittinger | Eukaryotic Acquisition of a Bacterial Operon | Cell | 176(6) 1356–66.e10 |
| 2019 | 10.1002/slct.201802187 | Mohapatra, S., C. Mishra, B. B. Merritt, S. Pattathil and H. Thatoi | Evaluating the Role of Ultrasonication-Assisted Alkali Pretreatment and Enzymatic Hydrolysis on Cellwall Polysaccharides of Pennisetum Grass Varieties as Potential Biofuel Feedstock | ChemistrySelect | 4(3) 1042–54 |
| 2019 | 10.1007/s11032-019-1081-5 | Olatoye, M. O., L. V. Clark, J. P. Wang, X. P. Yang, T. Yamada, E. J. Sacks and A. E. Lipka | Evaluation of genomic selection and marker-assisted selection in Miscanthus and energycane | Molecular Breeding | 39(12) |
| 2019 | 10.1016/j.agwat.2019.02.049 | Hussain, M. Z., S. K. Hamilton, A. K. Bhardwaj, B. Basso, K. D. Thelen and G. P. Robertson | Evapotranspiration and water use efficiency of continuous maize and maize and soybean in rotation in the upper Midwest US | Agricultural Water Management | 221 92–8 |
| 2019 | 10.1038/s41467-019-12407-y | Smith, S. R., C. L. Dupont, J. K. McCarthy, J. T. Broddrick, M. Obornik, et al. | Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom | Nature Communications | 10(1) 4552 |
| 2019 | 10.1371/journal.pgen.1007786 | Baker, E. P. and C. T. Hittinger | Evolution of a novel chimeric maltotriose transporter in Saccharomyces eubayanus from parent proteins unable to perform this function | PLoS Genetics | 15(4) e1007786 |
| 2019 | 10.1038/s41598-019-47797-y | Lloyd, J. P., M. J. Bowman, C. B. Azodi, R. P. Sowers, G. D. Moghe, K. L. Childs and S. H. Shiu | Evolutionary characteristics of intergenic transcribed regions indicate rare novel genes and widespread noisy transcription in the Poaceae | Scientific Reports | 9(1) 12122 |
| 2019 | 10.1038/s41559-019-0918-y | Morrissey, E. M., R. L. Mau, M. Hayer, X. A. Liu, E. Schwartz, P. Dijkstra, B. J. Koch, K. Allen, S. J. Blazewicz, K. Hofmockel, J. Pett-Ridge and B. A. Hungate | Evolutionary history constrains microbial traits across environmental variation | Nature Ecology & Evolution | 3(7) 1064–9 |
| 2019 | 10.1038/s41579-018-0136-7 | Evans, P. N., J. A. Boyd, A. O. Leu, B. J. Woodcroft, D. H. Parks, P. Hugenholtz and G. W. Tyson | An evolving view of methane metabolism in the Archaea | Nature Reviews Microbiology | 17(4) 219–32 |
| 2019 | 10.1016/j.ymben.2019.03.003 | Walker, C., S. Ryu and C. T. Trinh | Exceptional solvent tolerance in Yarrowia lipolytica is enhanced by sterols | Metabolic Engineering | 54 83–95 |
| 2019 | 10.1111/gcb.14628 | Li, Y., K. Guan, G. D. Schnitkey, E. DeLucia and B. Peng | Excessive rainfall leads to maize yield loss of a comparable magnitude to extreme drought in the United States | Global Change Biology | 25(7) 2325–37 |
| 2019 | 10.1038/s41396-019-0493-x | Wang, B., W. Qin, Y. Ren, X. Zhou, M. Y. Jung, et al. | Expansion of Thaumarchaeota habitat range is correlated with horizontal transfer of ATPase operons | The ISME Journal | 13(12) 3067–79 |
| 2019 | 10.1111/gcb.14715 | Carrell, A. A., M. Kolton, J. B. Glass, D. A. Pelletier, M. J. Warren, J. E. Kostka, C. M. Iversen, P. J. Hanson and D. J. Weston | Experimental warming alters the community composition, diversity, and N2 fixation activity of peat moss (Sphagnum fallax) microbiomes | Global Change Biology | 25(9) 2993–3004 |
| 2019 | 10.1021/acs.analchem.9b00819 | Villalobos Solis, M. I., R. J. Giannone, R. L. Hettich and P. E. Abraham | Exploiting the Dynamic Relationship between Peptide Separation Quality and Peptide Coisolation in a Multiple-Peptide Matches-per-Spectrum Approach Offers a Strategy To Optimize Bottom-Up Proteomics Throughput and Depth | Analytical Chemistry | 91(11) 7273–9 |
| 2019 | 10.3390/ijms20184363 | Pereira, P. N. and J. C. Cushman | Exploring the Relationship between Crassulacean Acid Metabolism (CAM) and Mineral Nutrition with a Special Focus on Nitrogen | International Journal of Molecular Sciences | 20(18) |
| 2019 | 10.1186/s12862-019-1398-z | Panchy, N. L., C. B. Azodi, E. F. Winship, R. C. O'Malley and S. H. Shiu | Expression and regulatory asymmetry of retained Arabidopsis thaliana transcription factor genes derived from whole genome duplication | BMC Evolutionary Biology | 19 |
| 2019 | 10.1104/pp.19.00396 | Yu, X. H., Y. Cai, J. Chai, J. Schwender and J. Shanklin | Expression of a Lychee Phosphatidylcholine:Diacylglycerol Cholinephosphotransferase with an Escherichia coli Cyclopropane Synthase Enhances Cyclopropane Fatty Acid Accumulation in Camelina Seeds | Plant Physiology | 180(3) 1351–61 |
| 2019 | 10.1186/s13568-019-0783-8 | Sander, K., M. Yeary, K. Mahan, J. Whitham, R. J. Giannone, S. D. Brown, M. Rodriguez, Jr., D. E. Graham and B. Hankoua | Expression of benzoyl-CoA metabolism genes in the lignocellulolytic host Caldicellulosiruptor bescii | AMB Express | 9(1) 59 |
| 2019 | 10.3389/fmicb.2019.02270 | Felczak, M. M., T. B. Jacobson, W. K. Ong, D. Amador-Noguez and M. A. TerAvest | Expression of Phosphofructokinase Is Not Sufficient to Enable Embden-Meyerhof-Parnas Glycolysis in Zymomonas mobilis ZM4 | Frontiers in Microbiology | 10 2270 |
| 2019 | 10.1534/g3.118.200969 | Ramstein, G. P. and M. D. Casler | Extensions of BLUP Models for Genomic Prediction in Heterogeneous Populations: Application in a Diverse Switchgrass Sample | G3 Genes|Genomes|Genetics | 9(3) 789–805 |
| 2019 | 10.1371/journal.pbio.3000255 | Steenwyk, J. L., D. A. Opulente, J. Kominek, X. X. Shen, X. Zhou, et al. | Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts | PLoS Biology | 17(5) e3000255 |
| 2019 | 10.1016/j.jmb.2019.01.024 | Glasgow, E. M., K. A. Vander Meulen, T. E. Takasuka, C. M. Bianchetti, L. F. Bergeman, S. Deutsch and B. G. Fox | Extent and Origins of Functional Diversity in a Subfamily of Glycoside Hydrolases | Journal of Molecular Biology | 431(6) 1217–33 |
| 2019 | 10.1128/JB.00410-18 | Orr, J. S., D. G. Christensen, A. J. Wolfe and C. V. Rao | Extracellular Acidic pH Inhibits Acetate Consumption by Decreasing Gene Transcription of the Tricarboxylic Acid Cycle and the Glyoxylate Shunt | Journal of Bacteriology | 201(2) |
| 2019 | 10.1111/1758-2229.12725 | Sirois, S. H. and D. H. Buckley | Factors governing extracellular DNA degradation dynamics in soil | Environmental Microbiology Reports | 11(2) 173–84 |
| 2019 | 10.4324/9780429354335-11 | Barbu, D. | FEELING JEWISH: Emotions, identity, and the Jews’ inverted Christmas | Feeling Exclusion: Religious Conflict, Exile and Emotions in Early Modern Europe | 185-206 |
| 2019 | 10.1038/s41559-019-0998-8 | Langdon, Q. K., D. Peris, E. P. Baker, D. A. Opulente, H. V. Nguyen, U. Bond, P. Goncalves, J. P. Sampaio, D. Libkind and C. T. Hittinger | Fermentation innovation through complex hybridization of wild and domesticated yeasts | Nature Ecology & Evolution | 3(11) 1576–86 |
| 2019 | 10.3389/fpls.2019.01249 | Furches, A., D. Kainer, D. Weighill, A. Large, P. Jones, et al. | Finding New Cell Wall Regulatory Genes in Populus trichocarpa Using Multiple Lines of Evidence | Frontiers in Plant Science | 10 1249 |
| 2019 | 10.7554/ELIFE.42153 | Woods, D., Y. Dong, F. Bouche, R. Bednarek, M. Rowe, T. Ream and R. Amasino | A florigen paralog is required for short-day vernalization in a pooid grass | eLife | 8 |
| 2019 | 10.1104/pp.19.00480 | Andersson, B., C. Shen, M. Cantrell, D. S. Dandy and G. Peers | The Fluctuating Cell-Specific Light Environment and Its Effects on Cyanobacterial Physiology | Plant Physiology | 181(2) 547–64 |
| 2019 | 10.1016/j.ibiod.2019.104731 | Zhang, J. W., D. H. Hu, G. Orr and J. Schilling | Fluorescence in situ mRNA hybridization for gene expression detection in a wood decay fungus | International Biodeterioration & Biodegradation | 143 |
| 2019 | 10.1038/s41396-019-0396-x | Brislawn, C. J., E. B. Graham, K. Dana, P. Ihardt, S. J. Fansler, W. B. Chrisler, J. B. Cliff, J. C. Stegen, J. J. Moran and H. C. Bernstein | Forfeiting the priority effect: turnover defines biofilm community succession | The ISME Journal | 13(7) 1865–77 |
| 2019 | 10.1371/journal.pcbi.1007319 | Foster, C. J., S. Gopalakrishnan, M. R. Antoniewicz and C. D. Maranas | From Escherichia coli mutant 13C labeling data to a core kinetic model: A kinetic model parameterization pipeline | PLoS Computational Biology | 15(9) e1007319 |
| 2019 | 10.1002/aic.16731 | Kong, L. X. and C. T. Maravelias | From graphical to model-based distillation column design: A McCabe-Thiele-inspired mathematical programming approach | AIChE Journal | 65(11) |
| 2019 | 10.1016/j.biortech.2018.09.072 | Wang, H., Y. Pu, A. Ragauskas and B. Yang | From lignin to valuable products-strategies, challenges, and prospects | Bioresource Technology | 271 449–61 |
| 2019 | 10.1128/mSystems.00296-19 | Shi, Z., H. Yin, J. D. Van Nostrand, J. W. Voordeckers, Q. Tu, Y. Deng, M. Yuan, A. Zhou, P. Zhang, N. Xiao, D. Ning, Z. He, L. Wu and J. Zhou | Functional Gene Array-Based Ultrasensitive and Quantitative Detection of Microbial Populations in Complex Communities | mSystems | 4(4) |
| 2019 | 10.1038/s41564-019-0423-8 | Lee, H. H., N. Ostrov, B. G. Wong, M. A. Gold, A. S. Khalil and G. M. Church | Functional genomics of the rapidly replicating bacterium Vibrio natriegens by CRISPRi | Nature Microbiology | 4(7) 1105–13 |
| 2019 | 10.1038/s41396-018-0255-1 | Liu, N., H. Li, M. G. Chevrette, L. Zhang, L. Cao, H. Zhou, X. Zhou, Z. Zhou, P. B. Pope, C. R. Currie, Y. Huang and Q. Wang | Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite | The ISME Journal | 13(1) 104–17 |
| 2019 | 10.1016/j.jcat.2018.11.028 | Walker, T. W., A. H. Motagamwala, J. A. Dumesic and G. W. Huber | Fundamental catalytic challenges to design improved biomass conversion technologies | Journal of Catalysis | 369 518–25 |
| 2019 | 10.1094/MPMI-05-18-0133-R | Liao, H. L., G. Bonito, J. A. Rojas, K. Hameed, S. Wu, C. W. Schadt, J. Labbe, G. A. Tuskan, F. Martin, I. V. Grigoriev and R. Vilgalys | Fungal Endophytes of Populus trichocarpa Alter Host Phenotype, Gene Expression, and Rhizobiome Composition | Molecular Plant-Microbe Interactions | 32(7) 853–64 |
| 2019 | 10.3389/fmicb.2019.00481 | Bonito, G., G. M. N. Benucci, K. Hameed, D. Weighill, P. Jones, K. H. Chen, D. Jacobson, C. Schadt and R. Vilgalys | Fungal-Bacterial Networks in the Populus Rhizobiome Are Impacted by Soil Properties and Host Genotype | Frontiers in Microbiology | 10 481 |
| 2019 | 10.1007/s10021-019-00439-w | Looby, C. I., E. C. Hollenbeck and K. K. Treseder | Fungi in the Canopy: How Soil Fungi and Extracellular Enzymes Differ Between Canopy and Ground Soils | Ecosystems | 23(4) 768–82 |
| 2019 | 10.1039/c8gc03504k | Perez, J. M., W. S. Kontur, M. Alherech, J. Coplien, S. D. Karlen, S. S. Stahl, T. J. Donohue and D. R. Noguera | Funneling aromatic products of chemically depolymerized lignin into 2-pyrone-4-6-dicarboxylic acid with Novosphingobium aromaticivorans | Green Chemistry | 21(6) 1340–50 |
| 2019 | 10.1093/aepp/ppz023 | Debnath, D., M. Khanna, D. Rajagopal and D. Zilberman | The Future of Biofuels in an Electrifying Global Transportation Sector: Imperative, Prospects and Challenges | Applied Economic Perspectives and Policy | 41(4) 563–82 |
| 2019 | 10.1038/s41564-018-0307-3 | Strandwitz, P., K. H. Kim, D. Terekhova, J. K. Liu, A. Sharma, et al. | GABA-modulating bacteria of the human gut microbiota | Nature Microbiology | 4(3) 396–403 |
| 2019 | 10.1128/mBio.02176-19 | Zhang, J., K. A. T. Silverstein, J. D. Castano, M. Figueroa and J. S. Schilling | Gene Regulation Shifts Shed Light on Fungal Adaption in Plant Biomass Decomposers | mBio | 10(6) |
| 2019 | 10.1111/pbi.13000 | Rao, X., X. Chen, H. Shen, Q. Ma, G. Li, Y. Tang, M. Pena, W. York, T. P. Frazier, S. Lenaghan, X. Xiao, F. Chen and R. A. Dixon | Gene regulatory networks for lignin biosynthesis in switchgrass (Panicum virgatum) | Plant Biotechnology Journal | 17(3) 580–93 |
| 2019 | 10.1073/pnas.1904623116 | Ning, D., Y. Deng, J. M. Tiedje and J. Zhou | A general framework for quantitatively assessing ecological stochasticity | Proceedings of the National Academy of Sciences of the United States of America | 116(34) 16892–8 |
| 2019 | 10.1007/s11103-019-00856-4 | Zhao, Y., J. Y. Kim, R. Karan, J. H. Jung, B. Pathak, B. Williamson, B. Kannan, D. Wang, C. Fan, W. Yu, S. Dong, V. Srivastava and F. Altpeter | Generation of a selectable marker free, highly expressed single copy locus as landing pad for transgene stacking in sugarcane | Plant Molecular Biology | 100(3) 247–63 |
| 2019 | 10.3389/fpls.2019.00366 | Khasanova, A., J. T. Lovell, J. Bonnette, X. Weng, J. Jenkins, Y. Yoshinaga, J. Schmutz and T. E. Juenger | The Genetic Architecture of Shoot and Root Trait Divergence Between Mesic and Xeric Ecotypes of a Perennial Grass | Frontiers in Plant Science | 10 366 |
| 2019 | 10.1186/s13068-019-1479-7 | Ohlsson, J. A., H. R. Hallingback, M. Jebrane, A. E. Harman-Ware, T. Shollenberger, S. R. Decker, M. Sandgren and A. C. Ronnberg-Wastljung | Genetic variation of biomass recalcitrance in a natural Salix viminalis (L.) population | Biotechnology for Biofuels | 12 135 |
| 2019 | 10.1111/nph.15472 | Sun, X., W. Chen, S. Ivanov, A. M. MacLean, H. Wight, T. Ramaraj, J. Mudge, M. J. Harrison and Z. Fei | Genome and evolution of the arbuscular mycorrhizal fungus Diversispora epigaea (formerly Glomus versiforme) and its bacterial endosymbionts | New Phytologist | 221(3) 1556–73 |
| 2019 | 10.1016/j.cub.2019.07.086 | Yoshida, S., S. Kim, E. K. Wafula, J. Tanskanen, Y. M. Kim, et al. | Genome Sequence of Striga asiatica Provides Insight into the Evolution of Plant Parasitism | Current Biology | 29(18) 3041–52.e4 |
| 2019 | 10.1128/MRA.00595-19 | Adeniji, A. A. and O. O. Babalola | Genome Sequence of Lipopeptide- and Antioxidant-Producing Strain Bacillus velezensis NWUMFkBS10.5 | Microbiology Resource Announcements | 8(28) |
| 2019 | 10.1186/s12864-019-6262-4 | Jain, R., J. Jenkins, S. Shu, M. Chern, J. A. Martin, et al. | Genome sequence of the model rice variety KitaakeX | BMC Genomics | 20(1) 905 |
| 2019 | 10.3389/fmicb.2019.01986 | Tatli, M., A. S. Hebert, J. J. Coon and D. Amador-Noguez | Genome Wide Phosphoproteome Analysis of Zymomonas mobilis Under Anaerobic, Aerobic, and N2-Fixing Conditions | Frontiers in Microbiology | 10 1986 |
| 2019 | 10.1016/j.watres.2019.02.020 | Gao, H., Y. Mao, X. Zhao, W. T. Liu, T. Zhang and G. Wells | Genome-centric metagenomics resolves microbial diversity and prevalent truncated denitrification pathways in a denitrifying PAO-enriched bioprocess | Water Research | 155 275–87 |
| 2019 | 10.3389/fmicb.2019.02706 | Li, Z., Q. Yao, X. Guo, A. Crits-Christoph, M. A. Mayes, W. I. Hervey, S. L. Lebeis, J. F. Banfield, G. B. Hurst, R. L. Hettich and C. Pan | Genome-Resolved Proteomic Stable Isotope Probing of Soil Microbial Communities Using 13CO2 and 13C-Methanol | Frontiers in Microbiology | 10 2706 |
| 2019 | 10.1104/pp.18.01357 | Hendry, J. I., S. Gopalakrishnan, J. Ungerer, H. B. Pakrasi, Y. J. J. Tang and C. D. Maranasa | Genome-Scale Fluxome of Synechococcus elongatus UTEX 2973 Using Transient 13C-Labeling Data | Plant Physiology | 179(2) 761–9 |
| 2019 | 10.1007/s12042-019-09220-8 | Wang, J., Y. X. Li, F. Zhu, R. Ming and L. Q. Chen | Genome-Wide Analysis of Nitrate Transporter (NRT/NPF) Family in Sugarcane Saccharum spontaneum L. | Tropical Plant Biology | 12(3) 133–49 |
| 2019 | 10.1186/s12870-019-1653-x | Mazaheri, M., M. Heckwolf, B. Vaillancourt, J. L. Gage, B. Burdo, et al. | Genome-wide association analysis of stalk biomass and anatomical traits in maize | BMC Plant Biology | 19(1) 45 |
| 2019 | 10.1111/gcbb.12620 | Clark, L. V., M. S. Dwiyanti, K. G. Anzoua, J. E. Brummer, B. K. Ghimire, et al. | Genome-wide association and genomic prediction for biomass yield in a genetically diverse Miscanthus sinensis germplasm panel phenotyped at five locations in Asia and North America | GCB Bioenergy | 11(8) 988–1007 |
| 2019 | 10.1534/g3.119.400350 | Cuevas, H. E., L. K. Prom and C. M. Cruet-Burgos | Genome-Wide Association Mapping of Anthracnose (Colletotrichum sublineolum) Resistance in NPGS Ethiopian Sorghum Germplasm | G3 Genes|Genomes|Genetics | 9(9) 2879–85 |
| 2019 | 10.1094/PHYTO-08-18-0282-R | Yang, X., S. Sood, Z. Luo, J. Todd and J. Wang | Genome-Wide Association Studies Identified Resistance Loci to Orange Rust and Yellow Leaf Virus Diseases in Sugarcane (Saccharum spp.) | Phytopathology | 109(4) 623–31 |
| 2019 | 10.3389/fpls.2019.01160 | Khokhar, W., M. A. Hassan, A. S. N. Reddy, S. Chaudhary, I. Jabre, L. J. Byrne and N. H. Syed | Genome-Wide Identification of Splicing Quantitative Trait Loci (sQTLs) in Diverse Ecotypes of Arabidopsis thaliana | Frontiers in Plant Science | 10 1160 |
| 2019 | 10.1186/s12864-019-6358-x | Challacombe, J. F., C. N. Hesse, L. M. Bramer, L. A. McCue, M. Lipton, S. Purvine, C. Nicora, V. Gallegos-Graves, A. Porras-Alfaro and C. R. Kuske | Genomes and secretomes of Ascomycota fungi reveal diverse functions in plant biomass decomposition and pathogenesis | BMC Genomics | 20(1) 976 |
| 2019 | 10.1007/s12042-019-09239-x | Zhang, W. P., J. S. Lin, F. Dong, Q. Ma, S. L. Wu, X. Y. Ma, M. Fatima, H. F. Jia and R. Ming | Genomic and Allelic Analyses of Laccase Genes in Sugarcane (Saccharum spontaneum L.) | Tropical Plant Biology | 12(3) 219–29 |
| 2019 | 10.1128/MRA.00849-19 | Faleye, T. O. C., O. M. Adewumi, O. T. Olayinka and J. A. Adeniji | Genomic Characterization of a Coxsackievirus A20 Strain Recovered from a Child with Acute Flaccid Paralysis in Nigeria | Microbiology Resource Announcements | 8(42) |
| 2019 | 10.1371/journal.pone.0210792 | Cadez, N., N. Bellora, R. Ulloa, C. T. Hittinger and D. Libkind | Genomic content of a novel yeast species Hanseniaspora gamundiae sp. nov. from fungal stromata (Cyttaria) associated with a unique fermented beverage in Andean Patagonia, Argentina | PLoS One | 14(1) e0210792 |
| 2019 | 10.1128/JB.00768-18 | Schilling, B., N. Basisty, D. G. Christensen, D. Sorensen, J. S. Orr, A. J. Wolfe and C. V. Rao | Global Lysine Acetylation in Escherichia coli Results from Growth Conditions That Favor Acetate Fermentation | Journal of Bacteriology | 201(9) |
| 2019 | 10.1016/j.soilbio.2018.10.009 | Pegoraro, E., M. Mauritz, R. Bracho, C. Ebert, P. Dijkstra, B. A. Hungate, K. T. Konstantinidis, Y. Q. Luo, C. Schadel, J. M. Tiedje, J. Z. Zhou and E. A. G. Schuur | Glucose addition increases the magnitude and decreases the age of soil respired carbon in a long-term permafrost incubation study | Soil Biology and Biochemistry | 129 201–11 |
| 2019 | 10.1021/acssuschemeng.8b05049 | Chung, D., N. S. Sarai, B. C. Knott, N. Hengge, J. F. Russell, et al. | Glycosylation Is Vital for Industrial Performance of Hyperactive Cellulases | ACS Sustainable Chemistry & Engineering | 7(5) 4792–800 |
| 2019 | 10.1016/j.biocon.2019.03.007 | Haan, N. L. and D. A. Landis | Grassland disturbance increases monarch butterfly oviposition and decreases arthropod predator abundance | Biological Conservation | 233 185–92 |
| 2019 | 10.1002/ece3.5523 | Kim, T., S. Bartel and C. Gratton | Grassland harvesting alters ant community trophic structure: An isotopic study in tallgrass prairies | Ecology and Evolution | 9(17) 9815–26 |
| 2019 | 10.1016/j.soilbio.2018.12.010 | Aronson, E. L., M. L. Goulden and S. D. Allison | Greenhouse gas fluxes under drought and nitrogen addition in a Southern California grassland | Soil Biology and Biochemistry | 131 19-27 |
| 2019 | 10.1021/acssuschemeng.9b02928 | Baral, N. R., O. Kavvada, D. M. Perez, A. Mukhopadhyay, T. S. Lee, B. A. Simmons and C. D. Scown | Greenhouse Gas Footprint, Water-Intensity, and Production Cost of Bio-Based Isopentenol as a Renewable Transportation Fuel | ACS Sustainable Chemistry & Engineering | 7(18) 15434–44 |
| 2019 | 10.1016/j.ymben.2019.06.003 | Mehrer, C. R., J. M. Rand, M. R. Incha, T. B. Cook, B. Demir, A. H. Motagamwala, D. Kim, J. A. Dumesic and B. F. Pfleger | Growth-coupled bioconversion of levulinic acid to butanone | Metabolic Engineering | 55 92–101 |
| 2019 | 10.1038/s41564-019-0384-y | Ceja-Navarro, J. A., U. Karaoz, M. Bill, Z. Hao, R. A. White, 3rd, et al. | Gut anatomical properties and microbial functional assembly promote lignocellulose deconstruction and colony subsistence of a wood-feeding beetle | Nature Microbiology | 4(5) 864–75 |
| 2019 | 10.1002/eap.1828 | Spiesman, B. J., A. Bennett, R. Isaacs and C. Gratton | Harvesting effects on wild bee communities in bioenergy grasslands depend on nesting guild | Ecological Applications | 29(2) e01828 |
| 2019 | 10.1074/jbc.RA118.006548 | Kontur, W. S., C. N. Olmsted, L. M. Yusko, A. V. Niles, K. A. Walters, E. T. Beebe, K. A. Vander Meulen, S. D. Karlen, D. L. Gall, D. R. Noguera and T. J. Donohue | A heterodimeric glutathione S-transferase that stereospecifically breaks lignin's β(R)-aryl ether bond reveals the diversity of bacterial β-etherases | Journal of Biological Chemistry | 294(6) 1877–90 |
| 2019 | 10.3389/fpls.2019.01744 | Lu, S., M. Aziz, D. Sturtevant, K. D. Chapman and L. Guo | Heterogeneous Distribution of Erucic Acid in Brassica napus Seeds | Frontiers in Plant Science | 10 1744 |
| 2019 | 10.1007/s10295-019-02150-0 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | Heterologous co-expression of two β-glucanases and a cellobiose phosphorylase resulted in a significant increase in the cellulolytic activity of the Caldicellulosiruptor bescii exoproteome | Journal of Industrial Microbiology and Biotechnology | 46(5) 687–95 |
| 2019 | 10.1016/j.mec.2019.e00091 | Seppälä, S., J. I. Yoo, D. Yur and M. A. O'Malley | Heterologous transporters from anaerobic fungi bolster fluoride tolerance in Saccharomyces cerevisiae | Metabolic Engineering Communications | 9 |
| 2019 | 10.1038/s42003-019-0577-1 | Roth, M. S., D. J. Westcott, M. Iwai and K. K. Niyogi | Hexokinase is necessary for glucose-mediated photosynthesis repression and lipid accumulation in a green alga | Communications Biology | 2 347 |
| 2019 | 10.1111/nph.15887 | Kainer, D., A. Padovan, J. Degenhardt, S. Krause, P. Mondal, W. J. Foley and C. Kulheim | High marker density GWAS provides novel insights into the genomic architecture of terpene oil yield in Eucalyptus | New Phytologist | 223(3) 1489–504 |
| 2019 | 10.1038/s41396-019-0410-3 | Martiny, A. C. | High proportions of bacteria are culturable across major biomes | The ISME Journal | 13(8) 2125–8 |
| 2019 | 10.1016/j.watres.2019.114917 | Zelaya, A. J., A. E. Parker, K. L. Bailey, P. Zhang, J. Van Nostrand, D. Ning, D. A. Elias, J. Zhou, T. C. Hazen, A. P. Arkin and M. W. Fields | High spatiotemporal variability of bacterial diversity over short time scales with unique hydrochemical associations within a shallow aquifer | Water Research | 164 114917 |
| 2019 | 10.3390/genes10120996 | Cliff, A., J. Romero, D. Kainer, A. Walker, A. Furches and D. Jacobson | A High-Performance Computing Implementation of Iterative Random Forest for the Creation of Predictive Expression Networks | Genes | 10(12) |
| 2019 | 10.1016/j.sbi.2019.03.008 | Cannon, K. A., J. M. Ochoa and T. O. Yeates | High-symmetry protein assemblies: patterns and emerging applications | Current Opinion in Structural Biology | 55 77–84 |
| 2019 | 10.1126/sciadv.aaw9180 | O'Kane, P. T., Q. M. Dudley, A. K. McMillan, M. C. Jewett and M. Mrksich | High-throughput mapping of CoA metabolites by SAMDI-MS to optimize the cell-free biosynthesis of HMG-CoA | Science Advances | 5(6) eaaw9180 |
| 2019 | 10.1007/s00216-019-01658-9 | Sheflin, A. M., J. S. Kirkwood, L. M. Wolfe, C. E. Jahn, C. D. Broeckling, D. P. Schachtman and J. E. Prenni | High-throughput quantitative analysis of phytohormones in sorghum leaf and root tissue by ultra-performance liquid chromatography-mass spectrometry | Analytical and Bioanalytical Chemistry | 411(19) 4839–48 |
| 2019 | 10.1021/acssynbio.8b00480 | HamediRad, M., S. Weisberg, R. Chao, J. Lian and H. Zhao | Highly Efficient Single-Pot Scarless Golden Gate Assembly | Acs Synthetic Biology | 8(5) 1047–54 |
| 2019 | 10.7554/eLife.50747 | Cao, P., S. J. Kim, A. Xing, C. A. Schenck, L. Liu, N. Jiang, J. Wang, R. L. Last and F. Brandizzi | Homeostasis of branched-chain amino acids is critical for the activity of TOR signaling in Arabidopsis | eLife | 8 |
| 2019 | 10.1107/S2052252518017621 | Zee, C. T., C. Glynn, M. Gallagher-Jones, J. Miao, C. G. Santiago, D. Cascio, T. Gonen, M. R. Sawaya and J. A. Rodriguez | Homochiral and racemic MicroED structures of a peptide repeat from the ice-nucleation protein InaZ | IUCrJ | 6(Part 2) 197–205 |
| 2019 | 10.1111/mmi.14393 | Close, D. M., C. J. Cooper, X. Wang, P. Chirania, M. Gupta, J. R. Ossyra, R. J. Giannone, N. Engle, T. J. Tschaplinski, J. C. Smith, L. Hedstrom, J. M. Parks and J. K. Michener | Horizontal transfer of a pathway for coumarate catabolism unexpectedly inhibits purine nucleotide biosynthesis | Molecular Microbiology | 112(6) 1784–97 |
| 2019 | 10.1016/j.biombioe.2019.01.026 | Dulys-Nusbaum, E., S. S. H. Klammer and S. M. Swinton | How willing are different types of landowner to supply hardwood timber residues for bioenergy? | Biomass and Bioenergy | 122 45–52 |
| 2019 | 10.1194/jlr.M093534 | Tsui, H. S., N. V. B. Pham, B. R. Amer, M. C. Bradley, J. E. Gosschalk, M. Gallagher-Jones, H. Ibarra, R. T. Clubb, C. E. Blaby-Haas and C. F. Clarke | Human COQ10A and COQ10B are distinct lipid-binding START domain proteins required for coenzyme Q function | Journal of Lipid Research | 60(7) 1293–310 |
| 2019 | 10.1039/c9cp01431d | Paslack, C., J. C. Smith, M. Heyden and L. V. Schafer | Hydration-mediated stiffening of collective membrane dynamics by cholesterol | Physical Chemistry Chemical Physics | 21(20) 10370–6 |
| 2019 | 10.1038/s41467-018-08246-y | Matheus Carnevali, P. B., F. Schulz, C. J. Castelle, R. S. Kantor, P. M. Shih, et al. | Hydrogen-based metabolism as an ancestral trait in lineages sibling to the Cyanobacteria | Nature Communications | 10(1) 463 |
| 2019 | 10.1104/pp.19.00344 | Rencoret, J., D. Neiva, G. Marques, A. Gutierrez, H. Kim, J. Gominho, H. Pereira, J. Ralph and J. C. Del Rio | Hydroxystilbene Glucosides Are Incorporated into Norway Spruce Bark Lignin | Plant Physiology | 180(3) 1310–21 |
| 2019 | 10.3389/fbioe.2019.00030 | Wei, H., Y. Yang, M. E. Himmel, M. P. Tucker, S. Y. Ding, S. Yang and R. Arora | Identification and Characterization of Five Cold Stress-Related Rhododendron Dehydrin Genes: Spotlight on a FSK-Type Dehydrin With Multiple F-Segments | Frontiers in Bioengineering and Biotechnology | 7 30 |
| 2019 | 10.1007/s12042-019-09238-y | Lin, J. S., M. T. Zhu, M. X. Cai, W. P. Zhang, M. Fatima, H. F. Jia, F. F. Li and R. Ming | Identification and Expression Analysis of TCP Genes in Saccharum spontaneum L | Tropical Plant Biology | 12(3) 206–18 |
| 2019 | 10.3389/fmicb.2019.00515 | Mewalal, R., H. Yin, R. Hu, S. Jawdy, P. Vion, G. A. Tuskan, F. Le Tacon, J. L. Labbe and X. Yang | Identification of Populus Small RNAs Responsive to Mutualistic Interactions With Mycorrhizal Fungi, Laccaria bicolor and Rhizophagus irregularis | Frontiers in Microbiology | 10 515 |
| 2019 | 10.1038/s41598-019-54802-x | Kimball, J., Y. Cui, D. Chen, P. Brown, W. L. Rooney, G. Stacey and P. J. Balint-Kurti | Identification of QTL for Target Leaf Spot resistance in Sorghum bicolor and investigation of relationships between disease resistance and variation in the MAMP response | Scientific Reports | 9(1) 18285 |
| 2019 | 10.1007/s12155-019-09978-5 | Taylor, M., C.-E. Tornqvist, X. Zhao, R. W. Doerge, M. D. Casler and Y. Jiang | Identification of Quantitative Trait Loci for Plant Height, Crown Diameter, and Plant Biomass in a Pseudo-F2 Population of Switchgrass | BioEnergy Research | 12(2) 267–74 |
| 2019 | 10.1016/j.indcrop.2019.01.023 | Yang, X. P., J. Todd, R. Arundale, J. B. Binder, Z. L. Luo, M. S. Islam, S. Sood and J. P. Wang | Identifying loci controlling fiber composition in polyploid sugarcane (Saccharum spp.) through genome-wide association study | Industrial Crops and Products | 130 598–605 |
| 2019 | 10.1016/j.isci.2019.04.012 | Wu, W. and C. T. Maravelias | Identifying the Characteristics of Promising Renewable Replacement Chemicals | iScience | 15 136–46 |
| 2019 | 10.1016/j.str.2019.08.011 | Goodsell, D. S., L. Autin and A. J. Olson | Illustrate: Software for Biomolecular Illustration | Structure | 27(11) 1716–20.e1 |
| 2019 | 10.1021/acssuschemeng.9b01166 | Shen, W., C. Collings, M. Y. Li, J. Markovicz, J. Ralph, S. D. Mansfield and S. Y. Ding | Imaging Changes in Cell Walls of Engineered Poplar by Stimulated Raman Scattering and Atomic Force Microscopy | ACS Sustainable Chemistry & Engineering | 7(12) 10616–22 |
| 2019 | 10.1117/12.2531007 | Vasdekis, A. E., H. Alanazi, A. M. Silverman, A. J. Canul, A. C. Dohnalkova, J. B. Cliff and G. Stephanopoulos | Imaging the competition between growth and production of self-assembled lipid droplets at the single-cell level | Proceedings of SPIE - The International Society for Optical Engineering | 11060 |
| 2019 | 10.1016/j.fuel.2018.09.037 | Sakai, S. and D. Rothamer | Impact of ethanol blending on particulate emissions from a spark-ignition direct-injection engine | Fuel | 236 1548–58 |
| 2019 | 10.3390/pr7090578 | Kurambhatti, C., D. Kumar and V. Singh | Impact of Fractionation Process on the Technical and Economic Viability of Corn Dry Grind Ethanol Process | Processes | 7(9) |
| 2019 | 10.1186/s13068-019-1439-2 | Bhagia, S., C. E. Wyman and R. Kumar | Impacts of cellulase deactivation at the moving air-liquid interface on cellulose conversions at low enzyme loadings | Biotechnology for Biofuels | 12 96 |
| 2019 | 10.3389/fevo.2019.00191 | Haan, N. L. and D. A. Landis | The Importance of Shifting Disturbance Regimes in Monarch Butterfly Decline and Recovery | Frontiers in Ecology and Evolution | 7 |
| 2019 | 10.1128/MRA.00927-19 | Sahib, M. R., P. Yang, N. Bokros, N. Shapiro, T. Woyke, N. C. Kyrpides, Y. Xia and S. DeBolt | Improved Draft Genome Sequence of Microbacterium sp. Strain LKL04, a Bacterial Endophyte Associated with Switchgrass Plants | Microbiology Resource Announcements | 8(45) |
| 2019 | 10.1016/j.biortech.2019.02.123 | Wang, Z., B. S. Dien, K. D. Rausch, M. E. Tumbleson and V. Singh | Improving ethanol yields with deacetylated and two-stage pretreated corn stover and sugarcane bagasse by blending commercial xylose-fermenting and wild type Saccharomyces yeast | Bioresource Technology | 282 103–9 |
| 2019 | 10.1002/hyp.13370 | Yang, Q. C., X. S. Zhang, J. E. Almendinger, M. Y. Huang, G. Y. Leng, Y. Y. Zhou, K. G. Zhao, G. R. Asrar, X. Li and J. L. Qiu | Improving the SWAT forest module for enhancing water resource projections: A case study in the St. Croix River basin | Hydrological Processes | 33(5) 864–75 |
| 2019 | 10.1021/acs.est.9b00812 | Yeung, L. Y., J. A. Haslun, N. E. Ostrom, T. Sun, E. D. Young, M. van Kessel, S. Lucker and M. S. M. Jetten | In Situ Quantification of Biological N2 Production Using Naturally Occurring 15N15N | Environmental Science & Technology | 53(9) 5168–75 |
| 2019 | 10.1002/jbio.201800185 | Chen, S. J., N. Sinsuebphon, A. Rudkouskaya, M. Barroso, X. Intes and X. Michalet | In vitro and in vivo phasor analysis of stoichiometry and pharmacokinetics using short-lifetime near-infrared dyes and time-gated imaging | Journal of Biophotonics | 12(3) e201800185 |
| 2019 | 10.1016/j.biortech.2018.10.049 | Mokomele, T., L. da Costa Sousa, V. Balan, E. van Rensburg, B. E. Dale and J. F. Gorgens | Incorporating anaerobic co-digestion of steam exploded or ammonia fiber expansion pretreated sugarcane residues with manure into a sugarcane-based bioenergy-livestock nexus | Bioresource Technology | 272 326–36 |
| 2019 | 10.1016/j.scitotenv.2019.07.127 | Bladon, K. D., S. Bywater-Reyes, J. M. LeBoldus, S. Kerio, C. Segura, G. Ritokova and D. C. Shaw | Increased streamflow in catchments affected by a forest disease epidemic | Science of the Total Environment | 691 112–23 |
| 2019 | 10.1186/s40694-019-0071-z | Millet, L. J., J. Aufrecht, J. Labbe, J. Uehling, R. Vilgalys, M. L. Estes, C. Miquel Guennoc, A. Deveau, S. Olsson, G. Bonito, M. J. Doktycz and S. T. Retterer | Increasing access to microfluidics for studying fungi and other branched biological structures | Fungal Biology and Biotechnology | 6 1 |
| 2019 | 10.1016/j.joule.2019.05.011 | Johnson, C. W., D. Salvachua, N. A. Rorrer, B. A. Black, D. R. Vardon, et al. | Innovative Chemicals and Materials from Bacterial Aromatic Catabolic Pathways | Joule | 3(6) 1523–37 |
| 2019 | Germer, S., E. Alexopoulou, I. V. Concha, P. Grundmann, H. R. Van, R. Janssen, C. Khawaja, F. Kiourtsis, A. Monti, K. Sailer, O. Tryboi, M. Wagner and W. Zegada-Lizarazu | Innovative lignocellulosic cropping systems in Europe: Combining knowledge from several eu-projects | European Biomass Conference and Exhibition Proceedings | 84-89 | |
| 2019 | 10.1186/s12864-019-5522-7 | Kolbe, A. R., A. J. Studer, O. E. Cornejo and A. B. Cousins | Insights from transcriptome profiling on the non-photosynthetic and stomatal signaling response of maize carbonic anhydrase mutants to low CO2 | BMC Genomics | 20(1) 138 |
| 2019 | 10.1105/tpc.18.00930 | Sekhon, R. S., C. Saski, R. Kumar, B. S. Flinn, F. Luo, T. M. Beissinger, A. J. Ackerman, M. W. Breitzman, W. C. Bridges, N. de Leon and S. M. Kaeppler | Integrated Genome-Scale Analysis Identifies Novel Genes and Networks Underlying Senescence in Maize | The Plant Cell | 31(9) 1968–89 |
| 2019 | 10.3389/fmicb.2019.02594 | Poudel, S., R. J. Giannone, A. T. Farmer, S. R. Campagna, A. N. Bible, J. L. Morrell-Falvey, J. G. Elkins and R. L. Hettich | Integrated Proteomics and Lipidomics Reveal That the Swarming Motility of Paenibacillus polymyxa Is Characterized by Phospholipid Modification, Surfactant Deployment, and Flagellar Specialization Relative to Swimming Motility | Frontiers in Microbiology | 10 2594 |
| 2019 | 10.1021/acs.iecr.9b01124 | Singh, S. K., A. W. Savoy, Z. Y. Yuan, H. Luo, S. S. Stahl, E. L. Hegg and D. B. Hodge | Integrated Two-Stage Alkaline-Oxidative Pretreatment of Hybrid Poplar. Part 1: Impact of Alkaline Pre-Extraction Conditions on Process Performance and Lignin Properties | Industrial & Engineering Chemistry Research | 58(35) 15989–99 |
| 2019 | 10.1111/gcbb.12613 | Kim, S., B. E. Dale, M. Jin, K. D. Thelen, X. Zhang, P. Meier, A. D. Reddy, C. D. Jones, R. C. Izaurralde, V. Balan, T. Runge and M. Sharara | Integration in a depot-based decentralized biorefinery system: Corn stover-based cellulosic biofuel | GCB Bioenergy | 11(7) 871–82 |
| 2019 | 10.3389/fenrg.2018.00133 | Williams, D. L., R. G. Ong, J. E. Mullet and D. B. Hodge | Integration of Pretreatment With Simultaneous Counter-Current Extraction of Energy Sorghum for High-Titer Mixed Sugar Production | Frontiers in Energy Research | 6 |
| 2019 | 10.1073/pnas.1904636116 | Kim, K. H., A. Eudes, K. Jeong, C. G. Yoo, C. S. Kim and A. Ragauskas | Integration of renewable deep eutectic solvents with engineered biomass to achieve a closed-loop biorefinery | Proceedings of the National Academy of Sciences of the United States of America | 116(28) 13816–24 |
| 2019 | 10.1042/BCJ20180615 | Hartman, K. and S. G. Tringe | Interactions between plants and soil shaping the root microbiome under abiotic stress | Biochemical Journal | 476(19) 2705–24 |
| 2019 | 10.1038/s41396-019-0356-5 | Yu, X., M. F. Polz and E. J. Alm | Interactions in self-assembled microbial communities saturate with diversity | The ISME Journal | 13(6) 1602–17 |
| 2019 | 10.1074/mcp.TIR118.001209 | Brademan, D. R., N. M. Riley, N. W. Kwiecien and J. J. Coon | Interactive Peptide Spectral Annotator: A Versatile Web-based Tool for Proteomic Applications | Molecular & Cellular Proteomics | 18(8 Supplement 1) S193–201 |
| 2019 | 10.1073/pnas.1904154116 | Batista, C. E., J. Ye, I. O. Ribeiro, P. C. Guimaraes, A. S. S. Medeiros, et al. | Intermediate-scale horizontal isoprene concentrations in the near-canopy forest atmosphere and implications for emission heterogeneity | Proceedings of the National Academy of Sciences of the United States of America | 116(39) 19318–23 |
| 2019 | 10.1038/s41477-018-0350-3 | Oyarce, P., B. De Meester, F. Fonseca, L. de Vries, G. Goeminne, A. Pallidis, R. De Rycke, Y. Tsuji, Y. Li, S. Van den Bosch, B. Sels, J. Ralph, R. Vanholme and W. Boerjan | Introducing curcumin biosynthesis in Arabidopsis enhances lignocellulosic biomass processing | Nature Plants | 5(2) 225–37 |
| 2019 | 10.1016/j.biortech.2019.121589 | Lu, K., N. Hao, X. Meng, Z. Luo, G. A. Tuskan and A. J. Ragauskas | Investigating the correlation of biomass recalcitrance with pyrolysis oil using poplar as the feedstock | Bioresource Technology | 289 121589 |
| 2019 | 10.3389/ffgc.2019.00008 | Lantz, A. T., C. Solomon, L. Gog, A. M. McClain, S. M. Weraduwage, J. A. Cruz and T. D. Sharkey | Isoprene Suppression by CO2 Is Not Due to Triose Phosphate Utilization (TPU) Limitation | Frontiers in Forests and Global Change | 2 |
| 2019 | 10.1111/pce.13629 | Lantz, A. T., J. Allman, S. M. Weraduwage and T. D. Sharkey | Isoprene: New insights into the control of emission and mediation of stress tolerance by gene expression | Plant, Cell & Environment | 42(10) 2808–26 |
| 2019 | 10.1016/j.soilbio.2018.11.006 | Roley, S. S., C. Xue, S. K. Hamilton, J. M. Tiedje and G. P. Robertson | Isotopic evidence for episodic nitrogen fixation in switchgrass (Panicum virgatum L.) | Soil Biology and Biochemistry | 129 90–8 |
| 2019 | 10.1093/aob/mcz047 | Carlson, C. H., F. E. Gouker, C. R. Crowell, L. Evans, S. P. DiFazio, C. D. Smart and L. B. Smart | Joint linkage and association mapping of complex traits in shrub willow (Salix purpurea L.) | Annals of Botany | 124(4) 701–16 |
| 2019 | 10.1039/c9gc00986h | Li, Y. D., B. Demir, L. M. V. Ramos, M. J. Chen, J. A. Dumesice and O. Ralph | Kinetic and mechanistic insights into hydrogenolysis of lignin to monomers in a continuous flow reactor | Green Chemistry | 21(13) 3561–72 |
| 2019 | 10.1038/s41598-019-46538-5 | Patabadige, D. E. W., L. J. Millet, J. A. Aufrecht, P. G. Shankles, R. F. Standaert, S. T. Retterer and M. J. Doktycz | Label-free time- and space-resolved exometabolite sampling of growing plant roots through nanoporous interfaces | Scientific Reports | 9 |
| 2019 | 10.5194/tc-13-647-2019 | Chang, K. Y., W. J. Riley, P. M. Crill, R. F. Grant, V. I. Rich and S. R. Saleska | Large carbon cycle sensitivities to climate across a permafrost thaw gradient in subarctic Sweden | Cryosphere | 13(2) 647–63 |
| 2019 | 10.1128/mBio.02899-18 | Kothari, A., Y. W. Wu, J. M. Chandonia, M. Charrier, L. Rajeev, A. M. Rocha, D. C. Joyner, T. C. Hazen, S. W. Singer and A. Mukhopadhyay | Large Circular Plasmids from Groundwater Plasmidomes Span Multiple Incompatibility Groups and Are Enriched in Multimetal Resistance Genes | mBio | 10(1) |
| 2019 | 10.3389/fpls.2019.00101 | Lim, S. D., S. Lee, W. G. Choi, W. C. Yim and J. C. Cushman | Laying the Foundation for Crassulacean Acid Metabolism (CAM) Biodesign: Expression of the C4 Metabolism Cycle Genes of CAM in Arabidopsis | Frontiers in Plant Science | 10 101 |
| 2019 | 10.1038/s41592-019-0616-3 | Morton, J. T., A. A. Aksenov, L. F. Nothias, J. R. Foulds, R. A. Quinn, et al. | Learning representations of microbe-metabolite interactions | Nature Methods | 16(12) 1306–14 |
| 2019 | 10.1186/s12864-019-5629-x | Armaleo, D., O. Muller, F. Lutzoni, O. S. Andresson, G. Blanc, et al. | The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata | BMC Genomics | 20(1) 605 |
| 2019 | 10.1016/j.copbio.2019.02.018 | Vanholme, R., B. De Meester, J. Ralph and W. Boerjan | Lignin biosynthesis and its integration into metabolism | Current Opinion in Biotechnology | 56 230–9 |
| 2019 | 10.1016/j.indcrop.2018.11.033 | Dou, J., H. Bian, D. J. Yelle, M. Ago, K. Vajanto, T. Vuorinen and J. Zhu | Lignin containing cellulose nanofibril production from willow bark at 80 °C using a highly recyclable acid hydrotrope | Industrial Crops and Products | 129 15–23 |
| 2019 | 10.1016/j.copbio.2019.02.019 | Ralph, J., C. Lapierre and W. Boerjan | Lignin structure and its engineering | Current Opinion in Biotechnology | 56 240–9 |
| 2019 | 10.15252/embj.2019101948 | Lee, M. H., H. S. Jeon, S. H. Kim, J. H. Chung, D. Roppolo, H. J. Lee, H. J. Cho, Y. Tobimatsu, J. Ralph and O. K. Park | Lignin-based barrier restricts pathogens to the infection site and confers resistance in plants | The EMBO Journal | 38(23) e101948 |
| 2019 | 10.1002/bit.26993 | Straub, C. T., P. A. Khatibi, J. K. Otten, M. W. W. Adams and R. M. Kelly | Lignocellulose solubilization and conversion by extremely thermophilic Caldicellulosiruptor bescii improves by maintaining metabolic activity | Biotechnology and Bioengineering | 116(8) 1901–8 |
| 2019 | 10.1007/s10980-019-00928-2 | Chen, J. Q., P. Sciusco, Z. T. Ouyang, R. Zhang, G. M. Henebry, R. John and D. P. Roy | Linear downscaling from MODIS to landsat: connecting landscape composition with ecosystem functions | Landscape Ecology | 34(12) 2917–34 |
| 2019 | 10.1016/j.carbpol.2019.115119 | Sowinski, E. E., S. Gilbert, E. Lam and N. C. Carpita | Linkage structure of cell-wall polysaccharides from three duckweed species | Carbohydrate Polymers | 223 115119 |
| 2019 | 10.1007/s10533-019-00564-7 | von Haden, A. C., C. J. Kucharik, R. D. Jackson and E. Marín-Spiotta | Litter quantity, litter chemistry, and soil texture control changes in soil organic carbon fractions under bioenergy cropping systems of the North Central U.S | Biogeochemistry | 143(3) 313-326 |
| 2019 | 10.1029/2018jg004786 | Burke, S. A., M. Wik, A. Lang, A. R. Contosta, M. Palace, M. Crill and R. K. Varner | Long-Term Measurements of Methane Ebullition From Thaw Ponds | Journal of Geophysical Research: Biogeosciences | 124(7) 2208–21 |
| 2019 | 10.1128/mBio.02521-18 | Feng, J., C. R. Penton, Z. He, J. D. Van Nostrand, M. M. Yuan, et al. | Long-Term Warming in Alaska Enlarges the Diazotrophic Community in Deep Soils | mBio | 10(1) |
| 2019 | 10.1016/j.bbamem.2019.05.009 | Kumar, S. V., G. Taylor, S. Hasim, C. P. Collier, A. T. Farmer, S. R. Campagna, A. N. Bible, M. J. Doktycz and J. Morrell-Falvey | Loss of carotenoids from membranes of Pantoea sp. YR343 results in altered lipid composition and changes in membrane biophysical properties | Biochimica et Biophysica Acta (BBA) - Biomembranes | 1861(7) 1338–45 |
| 2019 | 10.1063/1.5080158 | Daloglu, M. U., A. Ray, M. J. Collazo, C. Brown, D. Tseng, B. Chocarro-Ruiz, L. M. Lechuga, D. Cascio and A. Ozcan | Low-cost and portable UV holographic microscope for high-contrast protein crystal imaging | APL Photonics | 4(3) |
| 2019 | 10.1371/journal.pone.0214960 | Rajeev, L., E. G. Luning, G. M. Zane, T. R. Juba, A. E. Kazakov, P. S. Novichkov, J. D. Wall and A. Mukhopadhyay | LurR is a regulator of the central lactate oxidation pathway in sulfate-reducing Desulfovibrio species | PLoS One | 14(4) e0214960 |
| 2019 | 10.1371/journal.pone.0210558 | Oyetunde, T., D. Liu, H. G. Martin and Y. J. Tang | Machine learning framework for assessment of microbial factory performance | PLoS One | 14(1) e0210558 |
| 2019 | 10.1007/978-1-4939-8757-3_17 | Heinemann, J. | Machine Learning in Untargeted Metabolomics Experiments | Microbial Metabolomics: Methods and Protocols | 1859 287–99 |
| 2019 | 10.1371/journal.pone.0215502 | Thompson, J., R. Johansen, J. Dunbar and B. Munsky | Machine learning to predict microbial community functions: An analysis of dissolved organic carbon from litter decomposition | PLoS One | 14(7) e0215502 |
| 2019 | 10.1021/acschembio.8b01107 | Erbilgin, O., O. Rubel, K. B. Louie, M. Trinh, M. Raad, T. Wildish, D. Udwary, C. Hoover, S. Deutsch, T. R. Northen and B. P. Bowen | MAGI: A Method for Metabolite Annotation and Gene Integration | ACS Chemical Biology | 14(4) 704–14 |
| 2019 | 10.1128/mBio.02361-19 | Chase, A. B., P. Arevalo, E. L. Brodie, M. F. Polz, U. Karaoz and J. B. H. Martiny | Maintenance of Sympatric and Allopatric Populations in Free-Living Terrestrial Bacteria | mBio | 10(5) |
| 2019 | 10.1186/s12864-019-6329-2 | Nguyen, N. D., I. K. Blaby and D. Wang | ManiNetCluster: a novel manifold learning approach to reveal the functional links between gene networks | BMC Genomics | 20(Supplement 12) 1003 |
| 2019 | 10.1007/s13361-018-02125-y | Hutchins, P. D., J. D. Russell and J. J. Coon | Mapping Lipid Fragmentation for Tailored Mass Spectral Libraries | Journal of the American Society for Mass Spectrometry | 30(4) 659–68 |
| 2019 | 10.1007/s00122-019-03371-8 | King, K., H. Li, J. Kang and C. Lu | Mapping quantitative trait loci for seed traits in Camelina sativa | Theoretical and Applied Genetics | 132(9) 2567–77 |
| 2019 | 10.3389/fmicb.2019.02216 | Lal, P. B., F. M. Wells, Y. Lyu, I. N. Ghosh, R. Landick and P. J. Kiley | A Markerless Method for Genome Engineering in Zymomonas mobilis ZM4 | Frontiers in Microbiology | 10 2216 |
| 2019 | 10.1007/978-1-4939-8757-3_2 | Baidoo, E. E. K. and V. Teixeira Benites | Mass Spectrometry-Based Microbial Metabolomics: Techniques, Analysis, and Applications | Microbial Metabolomics: Methods and Protocols | 1859 11–69 |
| 2019 | 10.1021/acs.analchem.9b02979 | Trujillo, E. A., A. S. Hebert, D. R. Brademan and J. J. Coon | Maximizing Tandem Mass Spectrometry Acquisition Rates for Shotgun Proteomics | Analytical Chemistry | 91(20) 12625–9 |
| 2019 | 10.1042/BCJ20180021 | Chapman, K. D., M. Aziz, J. M. Dyer and R. T. Mullen | Mechanisms of lipid droplet biogenesis | Biochemical Journal | 476(13) 1929–42 |
| 2019 | 10.1038/s41477-019-0469-x | Labbe, J., W. Muchero, O. Czarnecki, J. Wang, X. Wang, et al. | Mediation of plant-mycorrhizal interaction by a lectin receptor-like kinase | Nature Plants | 5(7) 676–80 |
| 2019 | 10.7185/geochemlet.1922 | Fahnestock, M. F., J. G. Bryce, C. K. McCalley, M. Montesdeoca, S. Bai, Y. Li, C. T. Driscoll, P. M. Crill, V. I. Rich and R. K. Varner | Mercury reallocation in thawing subarctic peatlands | Geochemical Perspectives Letters | 11 33–8 |
| 2019 | 10.1186/s13068-019-1524-6 | Tian, L., P. M. Conway, N. D. Cervenka, J. Cui, M. Maloney, D. G. Olson and L. R. Lynd | Metabolic engineering of Clostridium thermocellum for n-butanol production from cellulose | Biotechnology for Biofuels | 12 186 |
| 2019 | 10.7554/eLife.39733 | Bernstein, D. B., F. E. Dewhirst and D. Segre | Metabolic network percolation quantifies biosynthetic capabilities across the human oral microbiome | eLife | 8 |
| 2019 | 10.7554/eLife.39733.001 | Bernstein, D. B., F. E. Dewhirst and D. Segrè | Metabolic network percolation quantifies biosynthetic capabilities across the human oral microbiome | eLife | 8 |
| 2019 | 10.5194/bg-16-4875-2019 | Pold, G., S. A. Sistla and K. M. DeAngelis | Metabolic tradeoffs and heterogeneity in microbial responses to temperature determine the fate of litter carbon in simulations of a warmer world | Biogeosciences | 16(24) 4875–88 |
| 2019 | 10.1002/pld3.122 | Sheflin, A. M., D. Chiniquy, C. Yuan, E. Goren, I. Kumar, M. Braud, T. Brutnell, A. L. Eveland, S. Tringe, P. Liu, S. Kresovich, E. L. Marsh, D. P. Schachtman and J. E. Prenni | Metabolomics of sorghum roots during nitrogen stress reveals compromised metabolic capacity for salicylic acid biosynthesis | Plant Direct | 3(3) e00122 |
| 2019 | 10.1007/978-1-4939-8757-3_3 | Joshua, C. J. | Metabolomics: A Microbial Physiology and Metabolism Perspective | Microbial Metabolomics: Methods and Protocols | 1859 71–94 |
| 2019 | 10.1093/bioinformatics/btz021 | Banf, M., K. Zhao and S. Y. Rhee | METACLUSTER-an R package for context-specific expression analysis of metabolic gene clusters | Bioinformatics | 35(17) 3178–80 |
| 2019 | 10.1128/MRA.01178-19 | Rusley, C., T. C. Onstott, T. A. Vishnivetskaya, A. Layton, A. Chauhan, S. M. Pfiffner, L. G. Whyte and M. C. Y. Lau | Metagenome-Assembled Genome of USCα AHI, a Potential High-Affinity Methanotroph from Axel Heiberg Island, Canadian High Arctic | Microbiology Resource Announcements | 8(46) |
| 2019 | 10.1186/s12864-019-5591-7 | Das, P., P. Babaei and J. Nielsen | Metagenomic analysis of microbe-mediated vitamin metabolism in the human gut microbiome | BMC Genomics | 20(1) 208 |
| 2019 | 10.1073/pnas.1908291116 | Starr, E. P., E. E. Nuccio, J. Pett-Ridge, J. F. Banfield and M. K. Firestone | Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil | Proceedings of the National Academy of Sciences of the United States of America | 116(51) 25900–8 |
| 2019 | 10.1029/2019jg005355 | Chang, K. Y., W. J. Riley, E. L. Brodie, C. K. McCalley, P. M. Crill and R. F. Grant | Methane Production Pathway Regulated Proximally by Substrate Availability and Distally by Temperature in a High-Latitude Mire Complex | Journal of Geophysical Research: Biogeosciences | 124(10) 3057–74 |
| 2019 | 10.1111/nph.15346 | Yip, D. Z., A. M. Veach, Z. K. Yang, M. A. Cregger and C. W. Schadt | Methanogenic Archaea dominate mature heartwood habitats of Eastern Cottonwood (Populus deltoides) | New Phytologist | 222(1) 115–21 |
| 2019 | 10.1007/978-3-030-17083-7_5 | Gong, B. and E. Purdom | MethCP: Differentially Methylated Region Detection with Change Point Models | Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | 11467 LNBI 68-84 |
| 2019 | 10.1021/acssuschemeng.9b04981 | Ando, D. and J. Ralph | Method to Regioselectively Iodine-Tag Free-Phenolic Aromatic End-Groups in Lignin for 113C-HSQC NMR Analysis | ACS Sustainable Chemistry & Engineering | 7(22) 18624–9 |
| 2019 | 10.1021/acssynbio.9b00230 | Eiben, C. B., T. de Rond, C. Bloszies, J. Gin, J. Chiniquy, E. E. K. Baidoo, C. J. Petzold, N. J. Hillson, O. Fiehn and J. D. Keasling | Mevalonate Pathway Promiscuity Enables Noncanonical Terpene Production | ACS Synthetic Biology | 8(10) 2238–47 |
| 2019 | 10.1038/s41467-019-11488-z | Saifuddin, M., J. M. Bhatnagar, D. Segrè and A. C. Finzi | Microbial carbon use efficiency predicted from genome-scale metabolic models | Nature Communications | 10(1) |
| 2019 | 10.3389/feart.2019.00059 | Wilson, R. M., R. B. Neumann, K. B. Crossen, N. M. Raab, S. B. Hodgkins, S. R. Saleska, B. Bolduc, B. Woodcroft, G. W. Tyson, J. P. Chanton and V. I. Rich | Microbial Community Analyses Inform Geochemical Reaction Network Models for Predicting Pathways of Greenhouse Gas Production | Frontiers in Earth Science | 7 |
| 2019 | 10.1002/ece3.5670 | Escalas, A., L. Hale, J. W. Voordeckers, Y. Yang, M. K. Firestone, L. Alvarez-Cohen and J. Zhou | Microbial functional diversity: From concepts to applications | Ecology and Evolution | 9(20) 12000–16 |
| 2019 | 10.1111/1462-2920.14507 | He, X., G. Chadwick, C. Kempes, Y. Shi, S. McGlynn, V. Orphan and C. Meile | Microbial interactions in the anaerobic oxidation of methane: model simulations constrained by process rates and activity patterns | Environmental Microbiology | 21(2) 631–47 |
| 2019 | 10.1007/978-1-4939-8757-3_1 | Baidoo, E. E. K. | Microbial Metabolomics: A General Overview | Microbial Metabolomics: Methods and Protocols | 1859 1–8 |
| 2019 | 10.1038/s41598-019-43026-8 | Woolf, D. and J. Lehmann | Microbial models with minimal mineral protection can explain long-term soil organic carbon persistence | Scientific Reports | 9(1) 6522 |
| 2019 | 10.1038/s41467-019-11057-4 | Kravchenko, A. N., A. K. Guber, B. S. Razavi, J. Koestel, M. Y. Quigley, G. P. Robertson and Y. Kuzyakov | Microbial spatial footprint as a driver of soil carbon stabilization | Nature Communications | 10(1) 3121 |
| 2019 | 10.1007/978-1-4939-9721-3_11 | Finley, B. K., M. Hayer, R. L. Mau, A. M. Purcell, B. J. Koch, N. C. van Gestel, E. Schwartz and B. A. Hungate | Microbial Taxon-Specific Isotope Incorporation with DNA Quantitative Stable Isotope Probing | Methods in Molecular Biology | 2046 137–49 |
| 2019 | 10.3389/fmicb.2019.02163 | Uehling, J. K., M. R. Entler, H. R. Meredith, L. J. Millet, C. M. Timm, et al. | Microfluidics and Metabolomics Reveal Symbiotic Bacterial-Fungal Interactions Between Mortierella elongata and Burkholderia Include Metabolite Exchange | Frontiers in Microbiology | 10 2163 |
| 2019 | 10.1094/PHYTO-03-19-0105-R | Abraham, N., P. Chitrampalam, B. Nelson, Jr., R. Sharma Poudel, K. Chittem, P. Borowicz, R. Brueggeman, S. Jain and J. M. LeBoldus | Microscopic, Biochemical, and Molecular Comparisons of Moderately Resistant and Susceptible Populus Genotypes Inoculated with Sphaerulina musiva | Phytopathology | 109(12) 2074–86 |
| 2019 | 10.1021/acssuschemeng.9b02800 | Liu, X. R., Y. D. Li, C. M. Ewulonu, J. Ralph, F. Xu, Q. L. Zhang, M. Wu and Y. Huang | Mild Alkaline Pretreatment for Isolation of Native-Like Lignin and Lignin-Containing Cellulose Nanofibers (LCNF) from Crop Waste | ACS Sustainable Chemistry & Engineering | 7(16) 14135–42 |
| 2019 | 10.1128/mSystems.00170-18 | Bradley, P. H., P. A. Gibney, D. Botstein, O. G. Troyanskaya and J. D. Rabinowitz | Minor Isozymes Tailor Yeast Metabolism to Carbon Availability | mSystems | 4(1) |
| 2019 | 10.1126/sciadv.aav1848 | Li, X. C., D. Peris, C. T. Hittinger, E. A. Sia and J. C. Fay | Mitochondria-encoded genes contribute to evolution of heat and cold tolerance in yeast | Science Advances | 5(1) eaav1848 |
| 2019 | 10.1126/sciadv.aav1869 | Baker, E. P., D. Peris, R. V. Moriarty, X. C. Li, J. C. Fay and C. T. Hittinger | Mitochondrial DNA and temperature tolerance in lager yeasts | Science Advances | 5(1) eaav1869 |
| 2019 | 10.1016/j.ecolmodel.2019.05.007 | Cheng, Y. W., N. J. Bouskill and E. L. Brodie | Model exploration of interactions between algal functional diversity and productivity in chemostats to represent open ponds systems across climate gradients | Ecological Modelling | 406 121–32 |
| 2019 | 10.1038/s41396-018-0288-5 | Xu, X., R. Zarecki, S. Medina, S. Ofaim, X. Liu, C. Chen, S. Hu, D. Brom, D. Gat, S. Porob, H. Eizenberg, Z. Ronen, J. Jiang and S. Freilich | Modeling microbial communities from atrazine contaminated soils promotes the development of biostimulation solutions | The ISME Journal | 13(2) 494–508 |
| 2019 | 10.1016/j.biotechadv.2019.06.002 | Garcia, S. and C. T. Trinh | Modular design: Implementing proven engineering principles in biotechnology | Biotechnology Advances | 37(7) 107403 |
| 2019 | 10.3390/pr7040230 | Chaves, J. E., G. N. Presley and J. K. Michener | Modular Engineering of Biomass Degradation Pathways | Processes | 7(4) |
| 2019 | 10.3389/fpls.2019.00165 | Lakusta, A. M., M. Kwon, E. G. Kwon, S. Stonebloom, H. V. Scheller and D. K. Ro | Molecular Studies of the Protein Complexes Involving Cis-Prenyltransferase in Guayule (Parthenium argentatum), an Alternative Rubber-Producing Plant | Frontiers in Plant Science | 10 165 |
| 2019 | 10.1146/annurev-arplant-050718-100114 | VanWallendael, A., A. Soltani, N. C. Emery, M. M. Peixoto, J. Olsen and D. B. Lowry | A Molecular View of Plant Local Adaptation: Incorporating Stress-Response Networks | Annual Review of Plant Biology | 70 559–83 |
| 2019 | 10.1094/Pbiomes-12-18-0058-P | Craven, K. D. and P. Ray | More than Serendipity: The Potential to Manage Soil Carbon and Emissions While Promoting Low-Input Agriculture with Serendipitoid Mycorrhizae | Phytobiomes Journal | 3(3) 161–4 |
| 2019 | 10.1016/j.soilbio.2018.12.016 | Papp, K., B. A. Hungate and E. Schwartz | mRNA, rRNA and DNA quantitative stable isotope probing with H218O indicates use of old rRNA among soil Thaumarchaeota | Soil Biology and Biochemistry | 130 159–66 |
| 2019 | 10.1038/s41467-019-13621-4 | Lian, J., C. Schultz, M. Cao, M. HamediRad and H. Zhao | Multi-functional genome-wide CRISPR system for high throughput genotype–phenotype mapping | Nature Communications | 10(1) |
| 2019 | 10.1007/s00253-019-10111-x | Shi, L. D., M. Wang, Y. L. Han, C. Y. Lai, J. P. Shapleigh and H. P. Zhao | Multi-omics reveal various potential antimonate reductases from phylogenetically diverse microorganisms | Applied Microbiology and Biotechnology | 103(21–2) 9119–29 |
| 2019 | 10.3389/fgene.2019.00417 | Weighill, D., P. Jones, C. Bleker, P. Ranjan, M. Shah, N. Zhao, M. Martin, S. DiFazio, D. Macaya-Sanz, J. Schmutz, A. Sreedasyam, T. Tschaplinski, G. Tuskan and D. Jacobson | Multi-Phenotype Association Decomposition: Unraveling Complex Gene-Phenotype Relationships | Frontiers in Genetics | 10 417 |
| 2019 | 10.1007/s12155-019-09985-6 | Tejera, M., N. Boersma, A. Vanloocke, S. Archontoulis, P. Dixon, F. Miguez and E. Heaton | Multi-year and Multi-site Establishment of the Perennial Biomass Crop Miscanthus x giganteus Using a Staggered Start Design to Elucidate N Response | BioEnergy Research | 12(3) 471–83 |
| 2019 | 10.1093/femsle/fnz125 | Pacheco, A. R. and D. Segre | A multidimensional perspective on microbial interactions | FEMS Microbiology Letters | 366(11) |
| 2019 | 10.1021/jacs.8b10242 | Patri, A. S., B. Mostofian, Y. Q. Pu, N. Ciaffone, M. Soliman, M. D. Smith, R. Kumar, X. L. Cheng, C. E. Wyrnan, L. Tetard, A. J. Ragauskas, J. C. Smith, L. Petridis and C. M. Cai | A Multifunctional Cosolvent Pair Reveals Molecular Principles of Biomass Deconstruction | Journal of the American Chemical Society | 141(32) 12545–57 |
| 2019 | 10.1111/nph.15662 | Sasse, J., J. Kant, B. J. Cole, A. P. Klein, B. Arsova, et al. | Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass | New Phytologist | 222(2) 1149–60 |
| 2019 | 10.1016/j.ymben.2018.09.003 | Garcia, S. and C. T. Trinh | Multiobjective strain design: A framework for modular cell engineering | Metabolic Engineering | 51 110–20 |
| 2019 | 10.3389/fmicb.2019.02596 | Zhang, Y., J. M. Vera, D. Xie, J. Serate, E. Pohlmann, J. D. Russell, A. S. Hebert, J. J. Coon, T. K. Sato and R. Landick | Multiomic Fermentation Using Chemically Defined Synthetic Hydrolyzates Revealed Multiple Effects of Lignocellulose-Derived Inhibitors on Cell Physiology and Xylose Utilization in Zymomonas mobilis | Frontiers in Microbiology | 10 2596 |
| 2019 | 10.1073/pnas.1815238116 | Strenkert, D., S. Schmollinger, S. D. Gallaher, P. A. Salome, S. O. Purvine, C. D. Nicora, T. Mettler-Altmann, E. Soubeyrand, A. P. M. Weber, M. S. Lipton, G. J. Basset and S. S. Merchant | Multiomics resolution of molecular events during a day in the life of Chlamydomonas | Proceedings of the National Academy of Sciences of the United States of America | 116(6) 2374–83 |
| 2019 | 10.1186/s13068-019-1353-7 | Holwerda, E. K., R. S. Worthen, N. Kothari, R. C. Lasky, B. H. Davison, et al. | Multiple levers for overcoming the recalcitrance of lignocellulosic biomass | Biotechnology for Biofuels | 12 15 |
| 2019 | 10.3835/plantgenome2018.09.0069 | Gage, J. L., B. Vaillancourt, J. P. Hamilton, N. C. Manrique-Carpintero, T. J. Gustafson, K. Barry, A. Lipzen, W. F. Tracy, M. A. Mikel, S. M. Kaeppler, C. R. Buell and N. de Leon | Multiple Maize Reference Genomes Impact the Identification of Variants by Genome-Wide Association Study in a Diverse Inbred Panel | Plant Genome | 12(2) |
| 2019 | 10.1016/j.cub.2019.06.056 | Krassowski, T., J. Kominek, X. X. Shen, D. A. Opulente, X. Zhou, A. Rokas, C. T. Hittinger and K. H. Wolfe | Multiple Reinventions of Mating-type Switching during Budding Yeast Evolution | Current Biology | 29(15) 2555–62.e8 |
| 2019 | 10.1016/j.ymben.2018.07.007 | Liu, R., L. Liang, A. Choudhury, A. D. Garst, C. A. Eckert, E. J. Oh, J. Winkler and R. T. Gill | Multiplex navigation of global regulatory networks (MINR) in yeast for improved ethanol tolerance and production | Metabolic Engineering | 51 50–8 |
| 2019 | 10.1016/j.molcel.2018.10.037 | Cheung, R., K. D. Insigne, D. Yao, C. P. Burghard, J. Wang, Y. E. Hsiao, E. M. Jones, D. B. Goodman, X. Xiao and S. Kosuri | A Multiplexed Assay for Exon Recognition Reveals that an Unappreciated Fraction of Rare Genetic Variants Cause Large-Effect Splicing Disruptions | Molecular Cell | 73(1) 183–94.e8 |
| 2019 | 10.1038/s41598-019-53188-0 | Gardner, J. J., B. S. Hodge and N. R. Boyle | Multiscale Multiobjective Systems Analysis (MiMoSA): an advanced metabolic modeling framework for complex systems | Scientific Reports | 9(1) 16948 |
| 2019 | 10.1111/nph.15777 | Chhetri, H. B., D. Macaya-Sanz, D. Kainer, A. K. Biswal, L. M. Evans, et al. | Multitrait genome-wide association analysis of Populus trichocarpa identifies key polymorphisms controlling morphological and physiological traits | New Phytologist | 223(1) 293–309 |
| 2019 | 10.1038/s41598-018-37979-5 | Tian, L., N. D. Cervenka, A. M. Low, D. G. Olson and L. R. Lynd | A mutation in the AdhE alcohol dehydrogenase of Clostridium thermocellum increases tolerance to several primary alcohols, including isobutanol, n-butanol and ethanol | Scientific Reports | 9(1) 1736 |
| 2019 | 10.1093/jxb/erz369 | Park, S., B. Song, W. Shen and S. Y. Ding | A mutation in the catalytic domain of cellulose synthase 6 halts its transport to the Golgi apparatus | Journal of Experimental Botany | 70(21) 6071–83 |
| 2019 | 10.1038/s42003-018-0263-8 | Gallagher-Jones, M., C. Ophus, K. C. Bustillo, D. R. Boyer, O. Panova, C. Glynn, C. T. Zee, J. Ciston, K. C. Mancia, A. M. Minor and J. A. Rodriguez | Nanoscale mosaicity revealed in peptide microcrystals by scanning electron nanodiffraction | Communications Biology | 2 26 |
| 2019 | 10.1073/pnas.1912498116 | Chadwick, G. L., F. Jimenez Otero, J. A. Gralnick, D. R. Bond and V. J. Orphan | NanoSIMS imaging reveals metabolic stratification within current-producing biofilms | Proceedings of the National Academy of Sciences of the United States of America | 116(41) 20716–24 |
| 2019 | 10.1021/acs.analchem.9b00062 | Campuzano, I. D. G., J. H. Robinson, J. O. Hui, S. D. H. Shi, C. Netirojjanakul, M. Nshanian, P. F. Egea, J. L. Lippens, D. Bagal, J. A. Loo and M. Bern | Native and denaturing ms protein deconvolution for biopharma: monoclonal antibodies and antibody-drug conjugates to polydisperse membrane proteins and beyond | Analytical Chemistry | 91(15) 9472-9480 |
| 2019 | 10.1128/mSystems.00588-19 | Kothari, A., D. Soneja, A. Tang, H. K. Carlson, A. M. Deutschbauer and A. Mukhopadhyay | Native Plasmid-Encoded Mercury Resistance Genes Are Functional and Demonstrate Natural Transformation in Environmental Bacterial Isolates | mSystems | 4(6) |
| 2019 | 10.1007/s13361-018-2027-6 | Nshanian, M., C. Lantz, P. Wongkongkathep, T. Schrader, F. G. Klarner, A. Blumke, C. Despres, M. Ehrmann, C. Smet-Nocca, G. Bitan and J. A. Loo | Native Top-Down Mass Spectrometry and Ion Mobility Spectrometry of the Interaction of Tau Protein with a Molecular Tweezer Assembly Modulator | Journal of the American Society for Mass Spectrometry | 30(1) 16–23 |
| 2019 | 10.1093/aob/mcz002 | Tschaplinski, T. J., P. E. Abraham, S. S. Jawdy, L. E. Gunter, M. Z. Martin, N. L. Engle, X. Yang and G. A. Tuskan | The nature of the progression of drought stress drives differential metabolomic responses in Populus deltoides | Annals of Botany | 124(4) 617–26 |
| 2019 | 10.1038/s41589-019-0364-9 | Park, J. O., L. B. Tanner, M. H. Wei, D. B. Khana, T. B. Jacobson, Z. Y. Zhang, S. A. Rubin, S. H. J. Li, M. B. Higgins, D. M. Stevenson, D. Amador-Noguez and J. D. Rabinowitz | Near-equilibrium glycolysis supports metabolic homeostasis and energy yield | Nature Chemical Biology | 15(10) 1001–8 |
| 2019 | 10.1371/journal.pone.0210243 | Leynaud-Kieffer, L. M. C., S. C. Curran, I. Kim, J. K. Magnuson, J. M. Gladden, S. E. Baker and B. A. Simmons | A new approach to Cas9-based genome editing in Aspergillus niger that is precise, efficient and selectable | PLoS One | 14(1) e0210243 |
| 2019 | 10.1096/fasebj.2019.33.1_supplement.216.2 | Mohnen, D. A., R. A. Amos, A. K. Biswal, K. A. Engle, D. K. Ryno, S. S. Mohanty and M. A. Atmodjo | A new model for the biochemistry of pectin synthesis: GAUTs synthesize diverse HG glycans in structurally and functionally distinct plant cell wall polymers | The FASEB Journal | 33 |
| 2019 | 10.1038/s41598-018-37025-4 | Corts, A. D., L. C. Thomason, R. T. Gill and J. A. Gralnick | A new recombineering system for precise genome-editing in Shewanella oneidensis strain MR-1 using single-stranded oligonucleotides | Scientific Reports | 9(1) 39 |
| 2019 | 10.1186/s12864-019-5734-x | Cooper, E. A., Z. W. Brenton, B. S. Flinn, J. Jenkins, S. Shu, et al. | A new reference genome for Sorghum bicolor reveals high levels of sequence similarity between sweet and grain genotypes: implications for the genetics of sugar metabolism | BMC Genomics | 20(1) 420 |
| 2019 | 10.2134/jeq2019.04.0156 | Hussain, M. Z., A. K. Bhardwaj, B. Basso, G. P. Robertson and S. K. Hamilton | Nitrate Leaching from Continuous Corn, Perennial Grasses, and Poplar in the US Midwest | Journal of Environmental Quality | 48(6) 1849–55 |
| 2019 | 10.1128/AEM.00896-19 | Thorgersen, M. P., X. Ge, F. L. Poole, 2nd, M. N. Price, A. P. Arkin and M. W. W. Adams | Nitrate-Utilizing Microorganisms Resistant to Multiple Metals from the Heavily Contaminated Oak Ridge Reservation | Applied and Environmental Microbiology | 85(17) |
| 2019 | 10.1007/s10021-019-00363-z | Shcherbak, I. and G. P. Robertson | Nitrous Oxide (N2O) Emissions from Subsurface Soils of Agricultural Ecosystems | Ecosystems | 22(7) 1650–63 |
| 2019 | 10.1111/1758-2229.12790 | Pannu, M. W., K. A. Meinhardt, A. Bertagnolli, S. C. Fransen, D. A. Stahl and S. E. Strand | Nitrous oxide emissions associated with ammonia-oxidizing bacteria abundance in fields of switchgrass with and without intercropped alfalfa | Environmental Microbiology Reports | 11(5) 727–35 |
| 2019 | 10.1103/RevModPhys.91.045004 | Fang, X., K. Kruse, T. Lu and J. Wang | Nonequilibrium physics in biology | Reviews of Modern Physics | 91(4) |
| 2019 | 10.1128/mSystems.00016-19 | Martino, C., J. T. Morton, C. A. Marotz, L. R. Thompson, A. Tripathi, R. Knight and K. Zengler | A Novel Sparse Compositional Technique Reveals Microbial Perturbations | mSystems | 4(1) |
| 2019 | 10.1016/j.mec.2019.e00098 | Thompson, M. G., L. E. Valencia, J. M. Blake-Hedges, P. Cruz-Morales, A. E. Velasquez, A. N. Pearson, L. N. Sermeno, W. A. Sharpless, V. T. Benites, Y. Chen, E. E. K. Baidoo, C. J. Petzold, A. M. Deutschbauer and J. D. Keasling | Omics-driven identification and elimination of valerolactam catabolism in Pseudomonas putida KT2440 for increased product titer | Metabolic Engineering Communications | 9 e00098 |
| 2019 | 10.1016/j.biortech.2019.122214 | Carrozza, C. F., G. Papa, A. Citterio, R. Sebastiano, B. A. Simmons and S. Singh | One-pot bio-derived ionic liquid conversion followed by hydrogenolysis reaction for biomass valorization: A promising approach affecting the morphology and quality of lignin of switchgrass and poplar | Bioresource Technology | 294 122214 |
| 2019 | 10.1016/j.fuel.2019.03.094 | Groendyk, M. and D. A. Rothamer | Optical investigation of mixing-controlled combustion using a novel transgenic plant oil | Fuel | 252 675–98 |
| 2019 | 10.1128/mSphere.00435-19 | Khalili, B., C. Weihe, S. Kimball, K. T. Schmidt and J. B. H. Martiny | Optimization of a Method To Quantify Soil Bacterial Abundance by Flow Cytometry | mSphere | 4(5) |
| 2019 | 10.1007/s11104-019-04307-3 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Optimization of the 15N2 incorporation and acetylene reduction methods for free-living nitrogen fixation | Plant and Soil | 445(1–2) 595–611 |
| 2019 | 10.1016/j.ymben.2019.09.003 | Kang, A., D. Mendez-Perez, E. B. Goh, E. E. K. Baidoo, V. T. Benites, H. R. Beller, J. D. Keasling, P. D. Adams, A. Mukhopadhyay and T. S. Lee | Optimization of the IPP-bypass mevalonate pathway and fed-batch fermentation for the production of isoprenol in Escherichia coli | Metabolic Engineering | 56 85–96 |
| 2019 | 10.7717/peerj.6902 | Roux, S., G. Trubl, D. Goudeau, N. Nath, E. Couradeau, et al. | Optimizing de novo genome assembly from PCR-amplified metagenomes | PeerJ | 7 e6902 |
| 2019 | 10.1016/j.ymben.2018.12.008 | Ghosh, I. N., J. Martien, A. S. Hebert, Y. Zhang, J. J. Coon, D. Amador-Noguez and R. Landick | OptSSeq explores enzyme expression and function landscapes to maximize isobutanol production rate | Metabolic Engineering | 52 324–40 |
| 2019 | 10.1038/s41598-019-47957-0 | Lam, P. Y., Y. Tobimatsu, N. Matsumoto, S. Suzuki, W. Lan, Y. Takeda, M. Yamamura, M. Sakamoto, J. Ralph, C. Lo and T. Umezawa | OsCAldOMT1 is a bifunctional O-methyltransferase involved in the biosynthesis of tricin-lignins in rice cell walls | Scientific Reports | 9(1) 11597 |
| 2019 | 10.1007/s11627-019-09993-3 | Kannan, B., A. Altpeter, T. H. Nguyen, P. South, S. Long and F. Altpeter | Over-expression of Miscanthus Pyruvate Orthophosphate Dikinase (PPDK) in Energycane for Improving Cold Tolerance and Biomass Yield. | In Vitro Cellular & Developmental Biology-Plant | 55(4) 486 |
| 2019 | 10.1038/s41467-019-09288-6 | Liu, J. J., G. C. Zhang, S. Kwak, E. J. Oh, E. J. Yun, K. Chomvong, J. H. D. Cate and Y. S. Jin | Overcoming the thermodynamic equilibrium of an isomerization reaction through oxidoreductive reactions for biotransformation | Nature Communications | 10(1) 1356 |
| 2019 | 10.1039/c8se00471d | Zhang, J., M. Li, A. C. Bryan, C. G. Yoo, W. Rottmann, et al. | Overexpression of a serine hydroxymethyltransferase increases biomass production and reduces recalcitrance in the bioenergy crop Populus | Sustainable Energy & Fuels | 3(1) 195–207 |
| 2019 | 10.1016/j.jbiotec.2018.12.013 | Oh, E. J., N. Wei, S. Kwak, H. Kim and Y. S. Jin | Overexpression of RCK1 improves acetic acid tolerance in Saccharomyces cerevisiae | Journal of Biotechnology | 292 1–4 |
| 2019 | 10.1016/bs.aambs.2018.10.001 | Palmieri, F., A. Estoppey, G. L. House, A. Lohberger, S. Bindschedler, P. S. G. Chain and P. Junier | Oxalic acid, a molecule at the crossroads of bacterial-fungal interactions | Advances in Applied Microbiology | 106 49–77 |
| 2019 | 10.1128/mSystems.00297-18 | Price, M. N., J. Ray, A. T. Iavarone, H. K. Carlson, E. M. Ryan, R. R. Malmstrom, A. P. Arkin and A. M. Deutschbauer | Oxidative Pathways of Deoxyribose and Deoxyribonate Catabolism | mSystems | 4(1) |
| 2019 | 10.1038/s41598-019-38836-9 | Ng, C. Y., L. Wang, A. Chowdhury and C. D. Maranas | Pareto Optimality Explanation of the Glycolytic Alternatives in Nature | Scientific Reports | 9(1) 2633 |
| 2019 | 10.1089/crispr.2019.29076.rba | Barrangou, R. | Partnering with bioRxiv | The CRISPR Journal | 2(6) 342 |
| 2019 | 10.1073/pnas.1904643116 | Vermaas, J. V., R. A. Dixon, F. Chen, S. D. Mansfield, W. Boerjan, J. Ralph, M. F. Crowley and G. T. Beckham | Passive membrane transport of lignin-related compounds | Proceedings of the National Academy of Sciences of the United States of America | 116(46) 23117–23 |
| 2019 | 10.1093/femsyr/foz032 | Opulente, D. A., Q. K. Langdon, K. V. Buh, M. A. B. Haase, K. Sylvester, R. V. Moriarty, M. Jarzyna, S. L. Considine, R. M. Schneider and C. T. Hittinger | Pathogenic budding yeasts isolated outside of clinical settings | FEMS Yeast Research | 19(3) |
| 2019 | 10.1186/s12870-019-2111-5 | Yang, Y., C. G. Yoo, W. Rottmann, K. A. Winkeler, C. M. Collins, L. E. Gunter, S. S. Jawdy, X. Yang, Y. Pu, A. J. Ragauskas, G. A. Tuskan and J. G. Chen | PdWND3A, a wood-associated NAC domain-containing protein, affects lignin biosynthesis and composition in Populus | BMC Plant Biology | 19(1) 486 |
| 2019 | 10.1021/acs.analchem.8b03132 | Wang, L., X. Xing, L. Chen, L. Yang, X. Su, H. Rabitz, W. Lu and J. D. Rabinowitz | Peak Annotation and Verification Engine for Untargeted LC-MS Metabolomics | Analytical Chemistry | 91(3) 1838–46 |
| 2019 | 10.1007/s12155-019-10072-z | Wang, S., G. R. Sanford, G. P. Robertson, R. D. Jackson and K. D. Thelen | Perennial Bioenergy Crop Yield and Quality Response to Nitrogen Fertilization | BioEnergy Research | 13(1) 157–66 |
| 2019 | 10.1186/s13068-019-1546-0 | Bhalla, A., C. M. Cai, F. Xu, S. K. Singh, N. Bansal, T. Phongpreecha, T. Dutta, C. E. Foster, R. Kumar, B. A. Simmons, S. Singh, C. E. Wyman, E. L. Hegg and D. B. Hodge | Performance of three delignifying pretreatments on hardwoods: hydrolysis yields, comprehensive mass balances, and lignin properties | Biotechnology for Biofuels | 12 213 |
| 2019 | 10.1080/15592324.2018.1561121 | Yu, L., J. Fan and C. Xu | Peroxisomal fatty acid β-oxidation negatively impacts plant survival under salt stress | Plant Signaling & Behavior | 14(2) 1561121 |
| 2019 | 10.3389/fpsyg.2019.01625 | Roman, M., C. M. Bostan, L. R. Diaconu-Gherasim and T. Constantin | Personality traits and postnatal depression: The mediated role of postnatal anxiety and moderated role of type of birth | Frontiers in Psychology | 10(JULY) |
| 2019 | 10.1016/j.jbiotec.2018.10.012 | Zhang, S., S. S. Jagtap, A. Deewan and C. V. Rao | pH selectively regulates citric acid and lipid production in Yarrowia lipolytica W29 during nitrogen-limited growth on glucose | Journal of Biotechnology | 290 10–5 |
| 2019 | 10.1039/c9sc04773e | Hong, S., X. Zhang, R. J. Lake, G. T. Pawel, Z. Guo, R. Pei and Y. Lu | A photo-regulated aptamer sensor for spatiotemporally controlled monitoring of ATP in the mitochondria of living cells | Chemical Science | 11(3) 713–20 |
| 2019 | 10.1016/j.ifacol.2019.06.179 | Badr, K., M. Hilliard, N. Roberts, Q. P. He and J. Wang | Photoautotroph-Methanotroph Coculture - A Flexible Platform for Efficient Biological CO2-CH4 Co-utilization | IFAC-PapersOnLine | 52(1) 916–21 |
| 2019 | 10.1128/AEM.00048-19 | Govindaraju, A., J. B. McKinlay and B. LaSarre | Phototrophic Lactate Utilization by Rhodopseudomonas palustris Is Stimulated by Coutilization with Additional Substrates | Applied and Environmental Microbiology | 85(11) |
| 2019 | 10.1038/s41467-019-10390-y | Isobe, K., S. D. Allison, B. Khalili, A. C. Martiny and J. B. H. Martiny | Phylogenetic conservation of bacterial responses to soil nitrogen addition across continents | Nature Communications | 10(1) 2499 |
| 2019 | 10.15376/biores.14.4.9658-9676 | Yao, L., C. G. Yoo, Y. Q. Pu, X. Z. Meng, W. Muchero, G. A. Tuskan, T. J. Tschaplinski, A. J. Ragauskas and H. T. Yang | Physicochemical Changes of Cellulose and Their Influences on Populus trichocarpa Digestibility after Different Pretreatments | BioResources | 14(4) 9658–76 |
| 2019 | 10.1016/j.pbi.2019.05.004 | Muller, L. M. and M. J. Harrison | Phytohormones, miRNAs, and peptide signals integrate plant phosphorus status with arbuscular mycorrhizal symbiosis | Current Opinion in Plant Biology | 50 132–9 |
| 2019 | 10.1371/journal.pone.0212389 | Wagner, E. R., K. S. Myers, N. M. Riley, J. J. Coon and A. P. Gasch | PKA and HOG signaling contribute separable roles to anaerobic xylose fermentation in yeast engineered for biofuel production | PLoS One | 14(5) e0212389 |
| 2019 | 10.1111/1758-2229.12727 | Singer, E., J. Bonnette, S. C. Kenaley, T. Woyke and T. E. Juenger | Plant compartment and genetic variation drive microbiome composition in switchgrass roots | Environmental Microbiology Reports | 11(2) 185–95 |
| 2019 | 10.3389/fpls.2019.00862 | Jones, P., B. J. Garcia, A. Furches, G. A. Tuskan and D. Jacobson | Plant Host-Associated Mechanisms for Microbial Selection | Frontiers in Plant Science | 10 862 |
| 2019 | 10.1002/ecm.1367 | Duhamel, M., J. Wan, L. M. Bogar, R. M. Segnitz, N. C. Duncritts and K. G. Peay | Plant selection initiates alternative successional trajectories in the soil microbial community after disturbance | Ecological Monographs | 89(3) |
| 2019 | 10.1177/1535370218793890 | Mortimer, J. C. | Plant synthetic biology could drive a revolution in biofuels and medicine | Experimental Biology and Medicine | 244(4) 323–31 |
| 2019 | 10.1038/s41598-018-36971-3 | Ulrich, D. E. M., S. Sevanto, M. Ryan, M. B. N. Albright, R. B. Johansen and J. M. Dunbar | Plant-microbe interactions before drought influence plant physiological responses to subsequent severe drought | Scientific Reports | 9(1) 249 |
| 2019 | 10.1111/ppa.13099 | Kabbage, M., J. S. Piotrowski, E. Thill, N. M. Westrick, J. Ralph, K. Hockemeyer and P. L. Koch | Poacic acid suppresses dollar spot and snow mould in amenity turfgrass | Plant Pathology | 69(1) 112–9 |
| 2019 | 10.1093/aob/mcy161 | Clark, L. V., X. Jin, K. K. Petersen, K. G. Anzoua, L. Bagmet, et al. | Population structure of Miscanthus sacchariflorus reveals two major polyploidization events, tetraploid-mediated unidirectional introgression from diploid M. sinensis, and diversity centred around the Yellow Sea | Annals of Botany | 124(4) 731–48 |
| 2019 | 10.1016/j.copbio.2019.02.017 | Tuskan, G. A., W. Muchero, T. J. Tschaplinski and A. J. Ragauskas | Population-level approaches reveal novel aspects of lignin biosynthesis, content, composition and structure | Current Opinion in Biotechnology | 56 250–7 |
| 2019 | 10.1371/journal.pone.0218316 | Aufrecht, J. A., J. D. Fowlkes, A. N. Bible, J. Morrell-Falvey, M. J. Doktycz and S. T. Retterer | Pore-scale hydrodynamics influence the spatial evolution of bacterial biofilms in a microfluidic porous network | PLoS One | 14(6) e0218316 |
| 2019 | 10.1007/s11627-019-09993-3 | Altpeter, F., T. M. Oz, A. Altpeter, R. Karan and A. Merotto | Precision Nucleotide Editing in Sugarcane Following Homology Directed Repair of Targeted DNA Breaks | In Vitro Cellular & Developmental Biology-Plant | 55(4) 485 |
| 2019 | 10.1038/s41598-019-50737-5 | Hermann, S. L., C. Blackledge, N. L. Haan, A. T. Myers and D. A. Landis | Predators of monarch butterfly eggs and neonate larvae are more diverse than previously recognised | Scientific Reports | 9(1) 14304 |
| 2019 | 10.1371/journal.pcbi.1006848 | Liu, J. K., C. Lloyd, M. M. Al-Bassam, A. Ebrahim, J. N. Kim, C. Olson, A. Aksenov, P. Dorrestein and K. Zengler | Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen | PLoS Computational Biology | 15(3) e1006848 |
| 2019 | 10.3390/pr7070394 | Chan, S. H. J., E. S. Friedman, G. D. Wu and C. D. Maranas | Predicting the Longitudinally and Radially Varying Gut Microbiota Composition using Multi-Scale Microbial Metabolic Modeling | Processes | 7(7) |
| 2019 | 10.1016/j.ymben.2018.11.001 | Broddrick, J. T., D. G. Welkie, D. Jallet, S. S. Golden, G. Peers and B. O. Palsson | Predicting the metabolic capabilities of Synechococcus elongatus PCC 7942 adapted to different light regimes | New Phytologist | 52 42–56 |
| 2019 | 10.1038/s41396-019-0422-z | Li, J., R. L. Mau, P. Dijkstra, B. J. Koch, E. Schwartz, X. A. Liu, E. M. Morrissey, S. J. Blazewicz, J. Pett-Ridge, B. W. Stone, M. Hayer and B. A. Hungate | Predictive genomic traits for bacterial growth in culture versus actual growth in soil | The ISME Journal | 13(9) 2162–72 |
| 2019 | 10.1016/j.funbio.2019.09.006 | Deaver, N. R., C. Hesse, C. R. Kuske and A. Porras-Alfaro | Presence and distribution of insect-associated and entomopathogenic fungi in a temperate pine forest soil: An integrated approach | Fungal Biology | 123(12) 864–74 |
| 2019 | 10.1038/s41467-019-10542-0 | Couradeau, E., J. Sasse, D. Goudeau, N. Nath, T. C. Hazen, B. P. Bowen, R. Chakraborty, R. R. Malmstrom and T. R. Northen | Probing the active fraction of soil microbiomes using BONCAT-FACS | Nature Communications | 10(1) 2770 |
| 2019 | 10.1016/j.apenergy.2019.01.143 | Fasahati, P., J. J. Liu, J. B. Ohlrogge and C. M. Saffron | Process design and economics for production of advanced biofuels from genetically modified lipid-producing sorghum | Applied Energy | 239 1459–70 |
| 2019 | 10.1016/j.biotechadv.2018.12.003 | Kwak, S., J. H. Jo, E. J. Yun, Y. S. Jin and J. H. Seo | Production of biofuels and chemicals from xylose using native and engineered yeast strains | Biotechnology Advances | 37(2) 271–83 |
| 2019 | 10.1007/s00425-019-03097-3 | Evans, B. R., M. Foston, H. M. O'Neill, D. Reeves, C. Rempe, K. McGrath, A. J. Ragauskas and B. H. Davison | Production of deuterated biomass by cultivation of Lemna minor (duckweed) in D2O | Planta | 249(5) 1465–75 |
| 2019 | 10.1186/s13068-019-1586-5 | Jagtap, S. S., A. A. Bedekar, J. J. Liu, Y. S. Jin and C. V. Rao | Production of galactitol from galactose by the oleaginous yeast Rhodosporidium toruloides IFO0880 | Biotechnology for Biofuels | 12 250 |
| 2019 | 10.1111/nph.15778 | Johnson, S. R., W. W. Bhat, R. Sadre, G. P. Miller, A. S. Garcia and B. Hamberger | Promiscuous terpene synthases from Prunella vulgaris highlight the importance of substrate and compartment switching in terpene synthase evolution | New Phytologist | 223(1) 323–35 |
| 2019 | 10.1002/pld3.181 | Mei, Y., B. M. Beernink, E. E. Ellison, E. Konecna, A. K. Neelakandan, D. F. Voytas and S. A. Whitham | Protein expression and gene editing in monocots using foxtail mosaic virus vectors | Plant Direct | 3(11) e00181 |
| 2019 | 10.7554/eLife.43002 | Tye, B. W., N. Commins, L. V. Ryazanova, M. Wuhr, M. Springer, D. Pincus and L. S. Churchman | Proteotoxicity from aberrant ribosome biogenesis compromises cell fitness | eLife | 8 |
| 2019 | 10.1073/pnas.1821543116 | Lowry, D. B., J. T. Lovell, L. Zhang, J. Bonnette, P. A. Fay, et al. | QTL × environment interactions underlie adaptive divergence in switchgrass across a large latitudinal gradient | Proceedings of the National Academy of Sciences of the United States of America | 116(26) 12933-12941 |
| 2019 | 10.21769/BioProtoc.3304 | Samira, R., X. Zhang, J. Kimball, Y. Cui, G. Stacey and P. Balint-Kurti | Quantifying MAMP-induced Production of Reactive Oxygen Species in Sorghum and Maize | Bio-Protocol | 9(14) |
| 2019 | 10.1038/s41467-019-11376-6 | Straub, C. T., P. A. Khatibi, J. P. Wang, J. M. Conway, A. M. Williams-Rhaesa, I. M. Peszlen, V. L. Chiang, M. W. W. Adams and R. M. Kelly | Quantitative fermentation of unpretreated transgenic poplar by Caldicellulosiruptor bescii | Nature Communications | 10(1) 3548 |
| 2019 | 10.1016/j.agwat.2019.04.008 | Stenjem, R. S., A. M. Thompson, K. G. Karthikeyan, B. J. Lepore, A. D. Kendall and D. W. Hyndman | Quantity and quality of water percolating below the root zone of three biofuel feedstock crop systems | Agricultural Water Management | 221 109–19 |
| 2019 | 10.1007/s12539-018-0293-4 | Yang, H., H. D. Watts, V. Gibilterra, T. B. Weiss, L. Petridis, D. J. Cosgrove and J. D. Kubicki | Quantum Calculations on Plant Cell Wall Component Interactions | Interdisciplinary Sciences: Computational Life Sciences | 11(3) 485–95 |
| 2019 | 10.1016/j.phytochem.2019.04.003 | Elder, T., J. Carlos Del Rio, J. Ralph, J. Rencoret, H. Kim and G. T. Beckham | Radical coupling reactions of piceatannol and monolignols: A density functional theory study | Phytochemistry | 164 12–23 |
| 2019 | 10.1007/s10530-019-02011-y | Helms, J. A., S. E. Ijelu and N. M. Haddad | Range expansion in an introduced social parasite-host species pair | Biological Invasions | 21(8) 2751–9 |
| 2019 | 10.1371/journal.pone.0211582 | Chen, Y., J. Vu, M. G. Thompson, W. A. Sharpless, L. J. G. Chan, J. W. Gin, J. D. Keasling, P. D. Adams and C. J. Petzold | A rapid methods development workflow for high-throughput quantitative proteomic applications | PLoS One | 14(2) e0211582 |
| 2019 | 10.1007/s10295-019-02218-x | Riley, L. A., L. Ji, R. J. Schmitz, J. Westpheling and A. M. Guss | Rational development of transformation in Clostridium thermocellum ATCC 27405 via complete methylome analysis and evasion of native restriction-modification systems | Journal of Industrial Microbiology and Biotechnology | 46(9–10) 1435–43 |
| 2019 | 10.2138/gselements.15.2.111 | Meile, C. and T. D. Scheibe | Reactive Transport Modeling of Microbial Dynamics | Elements | 15(2) 111–6 |
| 2019 | 10.13335/j.1000-3673.pst.2018.2221 | Wang, C., J. Zhu, Y. Xia, Y. Guo, X. Mo and T. Luo | A real-time decentralized robust dispatch approach of multi-area power system | Dianwang Jishu/Power System Technology | 43(12) 4478-4485 |
| 2019 | 10.2174/0929866526666181128125725 | Morton, S. A., S. Gupta, C. J. Petzold and C. Y. Ralston | Recent Advances in X-Ray Hydroxyl Radical Footprinting at the Advanced Light Source Synchrotron | Protein & Peptide Letters | 26(1) 70–5 |
| 2019 | 10.1111/pbi.12962 | Zhang, J., Q. Zhang, L. Li, H. Tang, Q. Zhang, Y. Chen, J. Arrow, X. Zhang, A. Wang, C. Miao and R. Ming | Recent polyploidization events in three Saccharum founding species | Plant Biotechnology Journal | 17(1) 264–74 |
| 2019 | 10.1021/acssynbio.8b00429 | Tian, T., J. W. Kang, A. Kang and T. S. Lee | Redirecting Metabolic Flux via Combinatorial Multiplex CRISPRi-Mediated Repression for Isopentenol Production in Escherichia coli | ACS Synthetic Biology | 8(2) 391–402 |
| 2019 | 10.1111/gcb.14517 | Li, J., G. Wang, M. A. Mayes, S. D. Allison, S. D. Frey, Z. Shi, X. M. Hu, Y. Luo and J. M. Melillo | Reduced carbon use efficiency and increased microbial turnover with soil warming | Global Change Biology | 25(3) 900–10 |
| 2019 | 10.1093/ee/nvz127 | Wills, B., T. Kim, A. Fox, C. Gratton and D. Landis | Reducing Native Ant Abundance Decreases Predation Rates in Midwestern Grasslands | Environmental Entomology | 48(6) 1360–8 |
| 2019 | 10.1073/pnas.1907234116 | Coale, T. H., M. Moosburner, A. Horák, M. Oborník, K. A. Barbeau and A. E. Allen | Reduction-dependent siderophore assimilation in a model pennate diatom | Proceedings of the National Academy of Sciences of the United States of America | 116(47) 23609-23617 |
| 2019 | 10.1016/j.fgb.2018.11.005 | Zhang, J., H. D. Mitchell, L. M. Markillie, M. J. Gaffrey, G. Orr and J. Schilling | Reference genes for accurate normalization of gene expression in wood-decomposing fungi | Fungal Genetics and Biology | 123 33–40 |
| 2019 | 10.1128/mSystems.00349-18 | Dunivin, T. K., J. Choi, A. Howe and A. Shade | RefSoil+: a Reference Database for Genes and Traits of Soil Plasmids | mSystems | 4(1) |
| 2019 | 10.1105/tpc.18.00742 | Roth, M. S., S. D. Gallaher, D. J. Westcott, M. Iwai, K. B. Louie, et al. | Regulation of Oxygenic Photosynthesis during Trophic Transitions in the Green Alga Chromochloris zofingiensis | The Plant Cell | 31(3) 579–601 |
| 2019 | 10.1021/acssynbio.8b00485 | Liu, Y., R. Landick and S. Raman | A Regulatory NADH/NAD+ Redox Biosensor for Bacteria | ACS Synthetic Biology | 8(2) 264–73 |
| 2019 | 10.1002/ajb2.1373 | Henning, J. A., D. J. Weston, D. A. Pelletier, C. M. Timm, S. S. Jawdy and A. T. Classen | Relatively rare root endophytic bacteria drive plant resource allocation patterns and tissue nutrient concentration in unpredictable ways | American Journal of Botany | 106(11) 1423–34 |
| 2019 | 10.1021/acs.est.8b02808 | Kim, S., B. E. Dale, X. Zhang, C. D. Jones, A. D. Reddy and R. C. Izaurralde | The Renewable Fuel Standard May Limit Overall Greenhouse Gas Savings by Corn Stover-Based Cellulosic Biofuels in the U.S. Midwest: Effects of the Regulatory Approach on Projected Emissions | Environmental Science & Technology | 53(5) 2288–94 |
| 2019 | 10.3389/fmicb.2019.00003 | Vuono, D. C., R. W. Read, J. Hemp, B. W. Sullivan, J. A. Arnone, 3rd, I. Neveux, R. R. Blank, E. Loney, D. Miceli, M. H. Winkler, R. Chakraborty, D. A. Stahl and J. J. Grzymski | Resource Concentration Modulates the Fate of Dissimilated Nitrogen in a Dual-Pathway Actinobacterium | Frontiers in Microbiology | 10 3 |
| 2019 | 10.1073/pnas.1901307116 | Johnston, E. R., J. K. Hatt, Z. He, L. Wu, X. Guo, Y. Luo, E. A. G. Schuur, J. M. Tiedje, J. Zhou and K. T. Konstantinidis | Responses of tundra soil microbial communities to half a decade of experimental warming at two critical depths | Proceedings of the National Academy of Sciences of the United States of America | 116(30) 15096–105 |
| 2019 | 10.1002/cbic.201800650 | Pappireddi, N., L. Martin and M. Wuhr | A Review on Quantitative Multiplexed Proteomics | ChemBioChem | 20(10) 1210–24 |
| 2019 | 10.3389/fgene.2019.00957 | Guo, J., J. F. Quensen, Y. Sun, Q. Wang, C. T. Brown, J. R. Cole and J. M. Tiedje | Review, Evaluation, and Directions for Gene-Targeted Assembly for Ecological Analyses of Metagenomes | Frontiers in Genetics | 10 957 |
| 2019 | 10.1029/2018wr024447 | Yang, P., T. L. Ng and X. M. Cai | Reward-Based Participant Management for Crowdsourcing Rainfall Monitoring: An Agent-Based Model Simulation | Water Resources Research | 55(10) 8122–41 |
| 2019 | 10.1371/journal.pgen.1008037 | Myers, K. S., N. M. Riley, M. E. MacGilvray, T. K. Sato, M. McGee, J. Heilberger, J. J. Coon and A. P. Gasch | Rewired cellular signaling coordinates sugar and hypoxic responses for anaerobic xylose fermentation in yeast | PLoS Genetics | 15(3) e1008037 |
| 2019 | 10.1002/mbo3.639 | Sander, K., D. Chung, D. Hyatt, J. Westpheling, D. M. Klingeman, M. Rodriguez, Jr., N. L. Engle, T. J. Tschaplinski, B. H. Davison and S. D. Brown | Rex in Caldicellulosiruptor bescii: Novel regulon members and its effect on the production of ethanol and overflow metabolites | MicrobiologyOpen | 8(2) e00639 |
| 2019 | 10.1186/s40168-019-0668-8 | Veach, A. M., R. Morris, D. Z. Yip, Z. K. Yang, N. L. Engle, M. A. Cregger, T. J. Tschaplinski and C. W. Schadt | Rhizosphere microbiomes diverge among Populus trichocarpa plant-host genotypes and chemotypes, but it depends on soil origin | Microbiome | 7(1) 76 |
| 2019 | 10.3389/fpls.2019.01275 | Zhao, K., F. Lin, S. P. Romero-Gamboa, P. Saha, H. J. Goh, G. An, K. H. Jung, S. P. Hazen and L. E. Bartley | Rice Genome-Scale Network Integration Reveals Transcriptional Regulators of Grass Cell Wall Synthesis | Frontiers in Plant Science | 10 1275 |
| 2019 | 10.1111/pbi.13001 | Daly, P., C. McClellan, M. Maluk, H. Oakey, C. Lapierre, et al. | RNAi-suppression of barley caffeic acid O-methyltransferase modifies lignin despite redundancy in the gene family | Plant Biotechnology Journal | 17(3) 594–607 |
| 2019 | 10.1021/acssynbio.9b00255 | Thompson, M. G., Z. Costello, N. F. C. Hummel, P. Cruz-Morales, J. M. Blake-Hedges, R. N. Krishna, W. Skyrud, A. N. Pearson, M. R. Incha, P. M. Shih, H. Garcia-Martin and J. D. Keasling | Robust Characterization of Two Distinct Glutarate Sensing Transcription Factors of Pseudomonas putida l-Lysine Metabolism | ACS Synthetic Biology | 8(10) 2385–96 |
| 2019 | 10.1073/pnas.1817074116 | Moore, B. M., P. Wang, P. Fan, B. Leong, C. A. Schenck, J. P. Lloyd, M. D. Lehti-Shiu, R. L. Last, E. Pichersky and S. H. Shiu | Robust predictions of specialized metabolism genes through machine learning | Proceedings of the National Academy of Sciences of the United States of America | 116(6) 2344–53 |
| 2019 | 10.1021/acs.est.9b03763 | Breunig, H. M., J. Amirebrahimi, S. Smith and C. D. Scown | Role of Digestate and Biochar in Carbon-Negative Bioenergy | Environmental Science & Technology | 53(22) 12989–98 |
| 2019 | 10.1177/0022034519831671 | Bor, B., J. K. Bedree, W. Shi, J. S. McLean and X. He | Saccharibacteria (TM7) in the Human Oral Microbiome | Journal of Dental Research | 98(5) 500–9 |
| 2019 | 10.1111/gcbb.12632 | Kar, S., N. Zhang, T. Nakashima, A. Villanueva-Morales, J. R. Stewart, E. J. Sacks, Y. Terajima and T. Yamada | Saccharum × Miscanthus intergeneric hybrids (miscanes) exhibit greater chilling tolerance of C4 photosynthesis and postchilling recovery than sugarcane (Saccharum spp. hybrids) | GCB Bioenergy | 11(11) 1318-1333 |
| 2019 | 10.1016/j.gee.2018.07.002 | Liang, L., J. Yan, Q. He, T. Luong, T. R. Pray, B. A. Simmons and N. Sun | Scale-up of biomass conversion using 1-ethyl-3-methylimidazolium acetate as the solvent | Green Energy & Environment | 4(4) 432–8 |
| 2019 | 10.1111/1758-2229.12757 | Ray, P., P. E. Abraham, Y. Guo, R. J. Giannone, N. L. Engle, Z. K. Yang, D. Jacobson, R. L. Hettich, T. J. Tschaplinski and K. D. Craven | Scavenging organic nitrogen and remodelling lipid metabolism are key survival strategies adopted by the endophytic fungi, Serendipita vermifera and Serendipita bescii to alleviate nitrogen and phosphorous starvation in vitro | Environmental Microbiology Reports | 11(4) 548–57 |
| 2019 | 10.1038/s41579-019-0222-5 | Cavicchioli, R., W. J. Ripple, K. N. Timmis, F. Azam, L. R. Bakken, et al. | Scientists' warning to humanity: microorganisms and climate change | Nature Reviews Microbiology | 17(9) 569–86 |
| 2019 | 10.1080/15427528.2019.1566186 | Obeng, E., A. K. Obour, N. O. Nelson, J. A. Moreno, I. A. Ciampitti, D. H. Wang and T. P. Durrett | Seed yield and oil quality as affected by Camelina cultivar and planting date | Journal of Crop Improvement | 33(2) 202–22 |
| 2019 | 10.1002/mbo3.742 | Adeniji, A. A., O. S. Aremu and O. O. Babalola | Selecting lipopeptide-producing, Fusarium-suppressing Bacillus spp.: Metabolomic and genomic probing of Bacillus velezensis NWUMFkBS10.5 | MicrobiologyOpen | 8(6) e00742 |
| 2019 | doi:10.1128/msystems.00055-19 | Zegeye, E. K., C. J. Brislawn, Y. Farris, S. J. Fansler, K. S. Hofmockel, J. K. Jansson, A. T. Wright, E. B. Graham, D. Naylor, R. S. McClure and H. C. Bernstein | Selection, Succession, and Stabilization of Soil Microbial Consortia | mSystems | 4(4) 10.1128/msystems.00055-19 |
| 2019 | 10.1093/molbev/msz185 | Priyam, A., B. J. Woodcroft, V. Rai, I. Moghul, A. Munagala, et al. | Sequenceserver: A Modern Graphical User Interface for Custom BLAST Databases | Molecular Biology and Evolution | 36(12) 2922–4 |
| 2019 | 10.1105/tpc.18.00952 | Salome, P. A. and S. S. Merchant | A Series of Fortunate Events: Introducing Chlamydomonas as a Reference Organism | The Plant Cell | 31(8) 1682–707 |
| 2019 | 10.1111/mmi.14280 | Donohue, T. J. | Shedding light on a Group IV (ECF11) alternative σ factor | Molecular Microbiology | 112(2) 374–84 |
| 2019 | 10.1111/gcbb.12599 | Pignon, C. P., I. Spitz, E. J. Sacks, U. Jorgensen, K. Korup and S. P. Long | Siberian Miscanthus sacchariflorus accessions surpass the exceptional chilling tolerance of the most widely cultivated clone of Miscanthus x giganteus | GCB Bioenergy | 11(7) 883–94 |
| 2019 | 10.1002/ecs2.2687 | Kuske, C. R., R. L. Sinsabaugh, L. Gallegos-Graves, M. B. N. Albright, R. Mueller and J. Dunbar | Simple measurements in a complex system: soil community responses to nitrogen amendment in a Pinus taeda forest | Ecosphere | 10(4) |
| 2019 | 10.1038/s41587-019-0286-9 | Reis, A. C., S. M. Halper, G. E. Vezeau, D. P. Cetnar, A. Hossain, P. R. Clauer and H. M. Salis | Simultaneous repression of multiple bacterial genes using nonrepetitive extra-long sgRNA arrays | Nature Biotechnology | 37(11) 1294–301 |
| 2019 | 10.2174/1574893614666190204151746 | Gao, Y. B., F. H. Xi, H. X. Zhang, X. Q. Liu, H. Y. Wang, L. Z. Zhao, A. S. N. Reddy and L. F. Gu | Single-Molecule Real-Time (SMRT) Isoform Sequencing (Iso-Seq) in Plants: The Status of the Bioinformatics Tools to Unravel the Transcriptome Complexity | Current Bioinformatics | 14(7) 566–73 |
| 2019 | 10.3791/59035 | Tfaily, M. M., R. M. Wilson, H. M. Brewer, R. K. Chu, H. M. Heyman, D. W. Hoyt, J. E. Kyle and S. O. Purvine | Single-throughput Complementary High-resolution Analytical Techniques for Characterizing Complex Natural Organic Matter Mixtures | Journal of Visualized Experiments | (143) e59035 |
| 2019 | 10.1016/j.soilbio.2019.107571 | Whitman, T., E. Whitman, J. Woolet, M. D. Flannigan, D. K. Thompson and M. A. Parisien | Soil bacterial and fungal response to wildfires in the Canadian boreal forest across a burn severity gradient | Soil Biology and Biochemistry | 138 |
| 2019 | 10.1016/j.soilbio.2019.01.025 | Malik, A. A., J. Puissant, T. Goodall, S. D. Allison and R. I. Griffiths | Soil microbial communities with greater investment in resource acquisition have lower growth yield | Soil Biology and Biochemistry | 132 36-39 |
| 2019 | 10.1016/j.agrformet.2019.107731 | von Haden, A. C., E. Marín-Spiotta, R. D. Jackson and C. J. Kucharik | Soil microclimates influence annual carbon loss via heterotrophic soil respiration in maize and switchgrass bioenergy cropping systems | Agricultural and Forest Meteorology | 279 |
| 2019 | 10.1016/j.rhisph.2019.100161 | Razavi, B. S., X. Zhang, N. Bilyera, A. Guber and M. Zarebanadkouki | Soil zymography: Simple and reliable? Review of current knowledge and optimization of the method | Rhizosphere | 11 |
| 2019 | 10.1039/c9ee00447e | Motagamwala, A. H., K. F. Huang, C. T. Maravelias and J. A. Dumesic | Solvent system for effective near-term production of hydroxymethylfurfural (HMF) with potential for long-term process improvement | Energy & Environmental Science | 12(7) 2212–22 |
| 2019 | 10.1016/j.soilbio.2019.06.002 | Kravchenko, A. N., A. K. Guber, B. S. Razavi, J. Koestel, E. V. Blagodatskaya and Y. Kuzyakov | Spatial patterns of extracellular enzymes: Combining X-ray computed micro-tomography and 2D zymography | Soil Biology and Biochemistry | 135 411–19 |
| 2019 | 10.1002/jpln.201800301 | Denis, E. H., P. D. Ilhardt, A. E. Tucker, N. L. Huggett, J. J. Rosnow and J. J. Moran | Spatially tracking carbon through the root-rhizosphere-soil system using laser ablation-IRMS | Journal of Plant Nutrition and Soil Science | 182(3) 401–10 |
| 2019 | 10.1007/978-1-4939-9721-3_10 | Schwartz, E., M. Hayer, B. A. Hungate and R. L. Mau | Stable Isotope Probing of Microorganisms in Environmental Samples with H218O | Methods in Molecular Biology | 2046 129–36 |
| 2019 | 10.1038/s41396-018-0264-0 | Gao, C., L. Montoya, L. Xu, M. Madera, J. Hollingsworth, E. Purdom, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Strong succession in arbuscular mycorrhizal fungal communities | The ISME Journal | 13(1) 214–26 |
| 2019 | 10.1128/AEM.00622-19 | Streett, H. E., K. M. Kalis and E. T. Papoutsakis | A Strongly Fluorescing Anaerobic Reporter and Protein-Tagging System for Clostridium Organisms Based on the Fluorescence-Activating and Absorption-Shifting Tag Protein (FAST) | Applied and Environmental Microbiology | 85(14) |
| 2019 | 10.1093/bib/bby022 | Li, G., H. Cao and Y. Xu | Structural and functional analyses of microbial metabolic networks reveal novel insights into genome-scale metabolic fluxes | Briefings in Bioinformatics | 20(4) 1590–603 |
| 2019 | 10.1002/cssc.201802016 | Jiang, H. J., S. Imberti, B. A. Simmons, R. Atkin and G. G. Warr | Structural Design of Ionic Liquids for Optimizing Aromatic Dissolution | ChemSusChem | 12(1) 270–4 |
| 2019 | 10.1016/j.plantsci.2019.02.004 | Grabber, J. H., C. Davidson, Y. Tobimatsu, H. Kim, F. Lu, Y. Zhu, M. Opietnik, N. Santoro, C. E. Foster, F. Yue, D. Ress, X. Pan and J. Ralph | Structural features of alternative lignin monomers associated with improved digestibility of artificially lignified maize cell walls | Plant Science | 287 110070 |
| 2019 | 10.1021/acs.biochem.9b00617 | Satagopan, S., J. A. North, M. A. Arbing, V. A. Varaljay, S. N. Haines, J. A. Wildenthal, K. M. Byerly, A. Shin and F. R. Tabita | Structural Perturbations of Rhodopseudomonas palustris Form II RuBisCO Mutant Enzymes That Affect CO2 Fixation | Biochemistry | 58(37) 3880–92 |
| 2019 | 10.1016/j.jmb.2018.11.003 | Tuukkanen, A. T., D. Freire, S. Chan, M. A. Arbing, R. W. Reed, et al. | Structural Variability of EspG Chaperones from Mycobacterial ESX-1, ESX-3, and ESX-5 Type VII Secretion Systems | Journal of Molecular Biology | 431(2) 289–307 |
| 2019 | 10.1128/mBio.01580-18 | Siegel, S. D., B. R. Amer, C. Wu, M. R. Sawaya, J. E. Gosschalk, R. T. Clubb and H. Ton-That | Structure and Mechanism of LcpA, a Phosphotransferase That Mediates Glycosylation of a Gram-Positive Bacterial Cell Wall-Anchored Protein | mBio | 10(1) |
| 2019 | 10.1038/s41594-019-0322-y | Boyer, D. R., B. Li, C. Sun, W. Fan, M. R. Sawaya, L. Jiang and D. S. Eisenberg | Structures of fibrils formed by α-synuclein hereditary disease mutant H50Q reveal new polymorphs | Nature Structural and Molecular Biology | 26(11) 1044–52 |
| 2019 | 10.1016/j.biortech.2019.121663 | Cheng, M. H., B. S. Dien, D. K. Lee and V. Singh | Sugar production from bioenergy sorghum by using pilot scale continuous hydrothermal pretreatment combined with disk refining | Bioresource Technology | 289 121663 |
| 2019 | 10.3390/e21060591 | Guo, H. B., Y. Ma, G. A. Tuskan, H. Qin, X. Yang and H. Guo | A Suggestion of Converting Protein Intrinsic Disorder to Structural Entropy Using Shannon's Information Theory | Entropy | 21(6) |
| 2019 | 10.1016/j.ymben.2019.05.006 | Jacobson, T. B., P. A. Adamczyk, D. M. Stevenson, M. Regner, J. Ralph, J. L. Reed and D. Amador-Noguez | 2H and 13C metabolic flux analysis elucidates in vivo thermodynamics of the ED pathway in Zymomonas mobilis | Metabolic Engineering | 54 301–16 |
| 2019 | 10.1039/c9gc00589g | McClelland, D. J., P. H. Galebach, A. H. Motagamwala, A. M. Wittrig, S. D. Karlen, J. S. Buchanan, J. A. Dumesic and G. W. Huber | Supercritical methanol depolymerization and hydrodeoxygenation of lignin and biomass over reduced copper porous metal oxides | Green Chemistry | 21(11) 2988–3005 |
| 2019 | 10.1002/bbb.1975 | Baral, N. R., R. Davis and T. H. Bradley | Supply and value chain analysis of mixed biomass feedstock supply system for lignocellulosic sugar production | Biofuels, Bioproducts and Biorefining | 13(3) 635–59 |
| 2019 | 10.1021/bk-2019-1338.ch005 | Chundawat, S. P. S. and U. P. Agarwal | Swelling by hydrochloric acid partially retains cellulose-I type allomorphic ultrastructure but enhances susceptibility toward cellulase hydrolysis such as highly amorphous cellulose | ACS Symposium Series | 1338 69-88 |
| 2019 | 10.3390/insects10040087 | da Costa, R. R., H. Hu, H. Li and M. Poulsen | Symbiotic Plant Biomass Decomposition in Fungus-Growing Termites | Insects | 10(4) |
| 2019 | 10.3390/sym11091170 | Goodsell, D. S. | Symmetry at the Cellular Mesoscale | Symmetry | 11(9) |
| 2019 | 10.1038/s42003-019-0481-8 | Hestrin, R., E. C. Hammer, C. W. Mueller and J. Lehmann | Synergies between mycorrhizal fungi and soil microbial communities increase plant nitrogen acquisition | Communications Biology | 2 233 |
| 2019 | 10.1038/s42255-019-0077-0 | Park, J. O., N. Liu, K. M. Holinski, D. F. Emerson, K. J. Qiao, B. M. Woolston, J. Y. Xu, Z. Lazar, M. A. Islam, C. Vidoudez, P. R. Girguis and G. Stephanopoulos | Synergistic substrate cofeeding stimulates reductive metabolism | Nature Metabolism | 1(6) 643–51 |
| 2019 | 10.1186/s42480-019-0022-8 | Wu, W., K. M. Yenkie and C. T. Maravelias | Synthesis and analysis of separation processes for extracellular chemicals generated from microbial conversions | BMC Chemical Engineering | 1(1) |
| 2019 | 10.1039/c9gc01859j | Chang, H., A. H. Motagamwala, G. W. Huber and J. A. Dumesic | Synthesis of biomass-derived feedstocks for the polymers and fuels industries from 5-(hydroxymethyl)furfural (HMF) and acetone | Green Chemistry | 21(20) 5532–40 |
| 2019 | 10.1002/bit.26976 | McTaggart, T. L., D. Bever, S. Bassett and N. A. Da Silva | Synthesis of polyketides from low cost substrates by the thermotolerant yeast Kluyveromyces marxianus | Biotechnology and Bioengineering | 116(7) 1721–30 |
| 2019 | 10.1021/acs.biochem.8b00915 | Budin, I. and J. D. Keasling | Synthetic Biology for Fundamental Biochemical Discovery | Biochemistry | 58(11) 1464–9 |
| 2019 | 10.1038/s41467-019-13500-y | Liu, R. M., L. L. Liang, E. Freed, H. Chang, E. Oh, Z. Y. Liu, A. Garst, C. A. Eckert and R. T. Gill | Synthetic chimeric nucleases function for efficient genome editing | Nature Communications | 10(1) 5524 |
| 2019 | 10.1021/acssynbio.9b00110 | Liu, F., J. Mao, T. Lu and Q. Hua | Synthetic, Context-Dependent Microbial Consortium of Predator and Prey | ACS Synthetic Biology | 8(8) 1713–22 |
| 2019 | 10.1186/s12859-019-2844-z | Navid, A., Y. Jiao, S. E. Wong and J. Pett-Ridge | System-level analysis of metabolic trade-offs during anaerobic photoheterotrophic growth in Rhodopseudomonas palustris | BMC Bioinformatics | 20(1) 233 |
| 2019 | 10.1186/s40168-019-0689-3 | Heinken, A., D. A. Ravcheev, F. Baldini, L. Heirendt, R. M. T. Fleming and I. Thiele | Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease | Microbiome | 7(1) 75 |
| 2019 | 10.1021/acs.biochem.7b01069 | Urtecho, G., A. D. Tripp, K. D. Insigne, H. Kim and S. Kosuri | Systematic Dissection of Sequence Elements Controlling σ70 Promoters Using a Genomically Encoded Multiplexed Reporter Assay in Escherichia coli | Biochemistry | 58(11) 1539–51 |
| 2019 | 10.1039/c8gc03209b | Vermaas, J. V., L. Petridis, J. Ralph, M. F. Crowley and G. T. Beckham | Systematic parameterization of lignin for the CHARMM force field | Green Chemistry | 21(1) 109–22 |
| 2019 | 10.1002/biot.201800441 | Kim, J., M. Tremaine, J. A. Grass, H. M. Purdy, R. Landick, P. J. Kiley and J. L. Reed | Systems Metabolic Engineering of Escherichia coli Improves Coconversion of Lignocellulose-Derived Sugars | Biotechnology Journal | 14(9) e1800441 |
| 2019 | 10.1128/mSystems.00284-18 | Martien, J. I., A. S. Hebert, D. M. Stevenson, M. R. Regner, D. B. Khana, J. J. Coon and D. Amador-Noguez | Systems-Level Analysis of Oxygen Exposure in Zymomonas mobilis: Implications for Isoprenoid Production | mSystems | 4(1) |
| 2019 | 10.1016/j.copbio.2018.10.014 | Mahon, E. L. and S. D. Mansfield | Tailor-made trees: engineering lignin for ease of processing and tomorrow's bioeconomy | Current Opinion in Biotechnology | 56 147–55 |
| 2019 | 10.1111/pbi.12992 | Yang, X., J. Song, J. Todd, Z. Peng, D. Paudel, Z. Luo, X. Ma, Q. You, E. Hanson, Z. Zhao, Y. Zhao, J. Zhang, R. Ming and J. Wang | Target enrichment sequencing of 307 germplasm accessions identified ancestry of ancient and modern hybrids and signatures of adaptation and selection in sugarcane (Saccharum spp.), a 'sweet' crop with 'bitter' genomes | Plant Biotechnology Journal | 17(2) 488–98 |
| 2019 | 10.1002/prot.25805 | Lepore, R., A. Kryshtafovych, M. Alahuhta, H. A. Veraszto, Y. J. Bomble, et al. | Target highlights in CASP13: Experimental target structures through the eyes of their authors | Proteins | 87(12) 1037–57 |
| 2019 | 10.3389/fmicb.2019.02170 | Chevrette, M. G., C. Carlos-Shanley, K. B. Louie, B. P. Bowen, T. R. Northen and C. R. Currie | Taxonomic and Metabolic Incongruence in the Ancient Genus Streptomyces | Frontiers in Microbiology | 10 2170 |
| 2019 | 10.1038/s41587-019-0100-8 | Bin Jang, H., B. Bolduc, O. Zablocki, J. H. Kuhn, S. Roux, E. M. Adriaenssens, J. R. Brister, A. M. Kropinski, M. Krupovic, R. Lavigne, D. Turner and M. B. Sullivan | Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks | Nature Biotechnology | 37(6) 632–9 |
| 2019 | 10.1039/c8ee03266a | Baral, N. R., O. Kavvada, D. Mendez-Perez, A. Mukhopadhyay, T. S. Lee, B. A. Simmons and C. D. Scown | Techno-economic analysis and life-cycle greenhouse gas mitigation cost of five routes to bio-jet fuel blendstocks | Energy & Environmental Science | 12(3) 807–24 |
| 2019 | 10.1038/s41467-019-10258-1 | Lee, H. H., R. Kalhor, N. Goela, J. Bolot and G. M. Church | Terminator-free template-independent enzymatic DNA synthesis for digital information storage | Nature Communications | 10(1) 2383 |
| 2019 | 10.1038/s41598-019-45532-1 | Jia, Q., X. Chen, T. G. Kollner, J. Rinkel, J. Fu, J. Labbe, W. Xiong, J. S. Dickschat, J. Gershenzon and F. Chen | Terpene Synthase Genes Originated from Bacteria through Horizontal Gene Transfer Contribute to Terpenoid Diversity in Fungi | Scientific Reports | 9(1) 9223 |
| 2019 | 10.3389/fpls.2019.01166 | Karunanithi, P. S. and P. Zerbe | Terpene Synthases as Metabolic Gatekeepers in the Evolution of Plant Terpenoid Chemical Diversity | Frontiers in Plant Science | 10 1166 |
| 2019 | 10.1029/2018jg004779 | Tang, J. Y. and W. J. Riley | A Theory of Effective Microbial Substrate Affinity Parameters in Variably Saturated Soils and an Example Application to Aerobic Soil Heterotrophic Respiration | Journal of Geophysical Research: Biogeosciences | 124(4) 918–40 |
| 2019 | 10.1016/j.ymben.2019.06.006 | Dash, S., D. G. Olson, S. H. Joshua Chan, D. Amador-Noguez, L. R. Lynd and C. D. Maranas | Thermodynamic analysis of the pathway for ethanol production from cellobiose in Clostridium thermocellum | Metabolic Engineering | 55 161–9 |
| 2019 | 10.1074/jbc.RA118.007120 | Scott, I. M., G. M. Rubinstein, F. L. Poole, 2nd, G. L. Lipscomb, G. J. Schut, A. M. Williams-Rhaesa, D. M. Stevenson, D. Amador-Noguez, R. M. Kelly and M. W. W. Adams | The thermophilic biomass-degrading bacterium Caldicellulosiruptor bescii utilizes two enzymes to oxidize glyceraldehyde 3-phosphate during glycolysis | Journal of Biological Chemistry | 294(25) 9995–10005 |
| 2019 | 10.1016/j.algal.2019.101598 | Gaidarenko, O., C. Sathoff, K. Staub, M. H. Huesemann, M. Vernet and M. Hildebrand | Timing is everything: Diel metabolic and physiological changes in the diatom Cyclotella cryptica grown in simulated outdoor conditions | Algal Research | 42 |
| 2019 | 10.1021/acssynbio.8b00432 | diCenzo, G. C., A. Mengoni and M. Fondi | Tn-Core: A Toolbox for Integrating Tn-seq Gene Essentiality Data and Constraint-Based Metabolic Modeling | ACS Synthetic Biology | 8(1) 158–69 |
| 2019 | 10.1128/AEM.02546-18 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | To Fix or Not To Fix: Controls on Free-Living Nitrogen Fixation in the Rhizosphere | Applied and Environmental Microbiology | 85(6) |
| 2019 | 10.1021/acssuschemeng.8b05144 | Wang, S. Z., G. Cheng, J. Dong, T. Tian, T. S. Lee, A. Multhopadhyay, B. A. Simmons, Q. P. Yuan and S. W. Singer | Tolerance Characterization and Isoprenol Production of Adapted Escherichia coli in the Presence of Ionic Liquids | ACS Sustainable Chemistry & Engineering | 7(1) 1457–63 |
| 2019 | 10.1021/acssynbio.9b00271 | Gilmore, S. P., T. S. Lankiewicz, S. E. Wilken, J. L. Brown, J. A. Sexton, J. K. Henske, M. K. Theodorou, D. L. Valentine and M. A. O'Malley | Top-Down Enrichment Guides in Formation of Synthetic Microbial Consortia for Biomass Degradation | ACS Synthetic Biology | 8(9) 2174–85 |
| 2019 | 10.1126/science.aaw1280 | Amann, R. I., S. Baichoo, B. J. Blencowe, P. Bork, M. Borodovsky, et al. | Toward unrestricted use of public genomic data | Science | 363(6425) 350–2 |
| 2019 | 10.1038/s41467-019-13189-z | HamediRad, M., R. Chao, S. Weisberg, J. Lian, S. Sinha and H. Zhao | Towards a fully automated algorithm driven platform for biosystems design | Nature Communications | 10(1) 5150 |
| 2019 | 10.1016/j.tplants.2019.01.006 | Rhee, S. Y., K. D. Birnbaum and D. W. Ehrhardt | Towards Building a Plant Cell Atlas | Trends in Plant Science | 24(4) 303–10 |
| 2019 | 10.7717/peerj.7265 | Trubl, G., S. Roux, N. Solonenko, Y. F. Li, B. Bolduc, J. Rodriguez-Ramos, E. A. Eloe-Fadrosh, V. I. Rich and M. B. Sullivan | Towards optimized viral metagenomes for double-stranded and single-stranded DNA viruses from challenging soils | PeerJ | 7 e7265 |
| 2019 | 10.1039/c8cc07482h | Nagy, G., D. Velickovic, R. K. Chu, A. A. Carrell, D. J. Weston, Y. M. Ibrahim, C. R. Anderton and R. D. Smith | Towards resolving the spatial metabolome with unambiguous molecular annotations in complex biological systems by coupling mass spectrometry imaging with structures for lossless ion manipulations | Chemical Communications | 55(3) 306–9 |
| 2019 | 10.1007/s00248-019-01368-w | Johansen, R., M. Albright, V. Gallegos-Graves, D. Lopez, A. Runde, T. Yoshida and J. Dunbar | Tracking Replicate Divergence in Microbial Community Composition and Function in Experimental Microcosms | Microbial Ecology | 78(4) 1035–9 |
| 2019 | 10.1186/s12870-019-1669-2 | Stonebloom, S. H. and H. V. Scheller | Transcriptome analysis of rubber biosynthesis in guayule (Parthenium argentatum gray) | BMC Plant Biology | 19(1) 71 |
| 2019 | 10.1371/journal.pone.0222080 | Palmer, N. A., R. V. Chowda-Reddy, A. A. Muhle, S. Tatineni, G. Yuen, S. J. Edm, R. B. Mitchell and G. Sarath | Transcriptome divergence during leaf development in two contrasting switchgrass (Panicum virgatum L.) cultivars | PLoS One | 14(9) |
| 2019 | 10.1073/pnas.1907500116 | Varoquaux, N., B. Cole, C. Gao, G. Pierroz, C. R. Baker, et al. | Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses | Proceedings of the National Academy of Sciences of the United States of America | 116(52) 27124-27132 |
| 2019 | 10.1016/bs.aecr.2019.06.009 | Manning, P., J. Loos, A. D. Barnes, P. Batáry, F. J. J. A. Bianchi, et al. | Transferring biodiversity-ecosystem function research to the management of ‘real-world’ ecosystems | Advances in Ecological Research | 61 323-356 |
| 2019 | 10.1016/j.copbio.2018.09.011 | Perkins, M., R. A. Smith and L. Samuels | The transport of monomers during lignification in plants: anything goes but how? | Current Opinion in Biotechnology | 56 69–74 |
| 2019 | 10.2144/btn-2018-0192 | Marotz, C., A. Sharma, G. Humphrey, N. Gottel, C. Daum, J. A. Gilbert, E. Eloe-Fadrosh and R. Knight | Triplicate PCR reactions for 16S rRNA gene amplicon sequencing are unnecessary | BioTechniques | 67(1) 29–32 |
| 2019 | 10.1038/s41396-019-0485-x | Hale, L., W. Feng, H. Yin, X. Guo, X. Zhou, et al. | Tundra microbial community taxa and traits predict decomposition parameters of stable, old soil organic carbon | The ISME Journal | 13(12) 2901–15 |
| 2019 | 10.1038/s41598-019-42469-3 | Stone, K. A., Q. P. He and J. Wang | Two Experimental Protocols for Accurate Measurement of Gas Component Uptake and Production Rates in Bioconversion Processes | Scientific Reports | 9(1) 5899 |
| 2019 | 10.1094/MPMI-09-18-0247-R | Chowda-Reddy, R. V., N. Palmer, S. Edme, G. Sarath, F. Kovacs, G. Yuen, R. Mitchell and S. Tatineni | A Two-Amino Acid Difference in the Coat Protein of Satellite panicum mosaic virus Isolates Is Responsible for Differential Synergistic Interactions with Panicum mosaic virus | Molecular Plant-Microbe Interactions | 32(4) 479–90 |
| 2019 | 10.1111/nph.15585 | Sonawane, B. V. and A. B. Cousins | Uncertainties and limitations of using carbon-13 and oxygen-18 leaf isotope exchange to estimate the temperature response of mesophyll CO2 conductance in C3 plants | New Phytologist | 222(1) 122–31 |
| 2019 | 10.1128/mSystems.00320-19 | Narrowe, A. B., M. A. Borton, D. W. Hoyt, G. J. Smith, R. A. Daly, J. C. Angle, E. K. Eder, A. R. Wong, R. A. Wolfe, A. Pappas, G. Bohrer, C. S. Miller and K. C. Wrighton | Uncovering the Diversity and Activity of Methylotrophic Methanogens in Freshwater Wetland Soils | mSystems | 4(6) |
| 2019 | 10.1094/MPMI-07-18-0185-R | Cecchini, N. M., S. Roychoudhry, D. J. Speed, K. Steffes, A. Tambe, K. Zodrow, K. Konstantinoff, H. W. Jung, N. L. Engle, T. J. Tschaplinski and J. T. Greenberg | Underground Azelaic Acid-Conferred Resistance to Pseudomonas syringae in Arabidopsis | Molecular Plant-Microbe Interactions | 32(1) 86–94 |
| 2019 | 10.1021/acs.accounts.9b00011 | Mirts, E. N., A. Bhagi-Damodaran and Y. Lu | Understanding and Modulating Metalloenzymes with Unnatural Amino Acids, Non-Native Metal Ions, and Non-Native Metallocofactors | Accounts of Chemical Research | 52(4) 935–44 |
| 2019 | 10.1016/j.pbi.2019.06.004 | Niechayev, N. A., P. N. Pereira and J. C. Cushman | Understanding trait diversity associated with crassulacean acid metabolism (CAM) | Current Opinion in Plant Biology | 49 74–85 |
| 2019 | 10.1093/jxb/erz223 | Davis, S. C., J. Simpson, K. D. C. Gil-Vega, N. A. Niechayev, E. V. Van Tongerlo, N. H. Castano, L. V. Dever and A. Búrquez | Undervalued potential of crassulacean acid metabolism for current and future agricultural production | Journal of Experimental Botany | 70(22) 6521-6537 |
| 2019 | 10.1038/s41477-019-0360-9 | Tuskan, G. A. | The unexpected malleability of lignin | Nature Plants | 5(2) 128 |
| 2019 | 10.1111/tpj.14184 | Hoopes, G. M., J. P. Hamilton, J. C. Wood, E. Esteban, A. Pasha, B. Vaillancourt, N. J. Provart and C. R. Buell | An updated gene atlas for maize reveals organ-specific and stress-induced genes | The Plant Journal | 97(6) 1154–67 |
| 2019 | 10.1016/j.jconhyd.2019.04.006 | Jung, H. and C. Meile | Upscaling of microbially driven first-order reactions in heterogeneous porous media | Journal of Contaminant Hydrology | 224 103483 |
| 2019 | 10.3389/fmolb.2019.00064 | Demerdash, O., U. R. Shrestha, L. Petridis, J. C. Smith, J. C. Mitchell and A. Ramanathan | Using Small-Angle Scattering Data and Parametric Machine Learning to Optimize Force Field Parameters for Intrinsically Disordered Proteins | Frontiers in Molecular Biosciences | 6 64 |
| 2019 | 10.1038/s41540-019-0110-7 | Li, C. T., J. Yelsky, Y. Chen, C. Zuniga, R. Eng, L. Jiang, A. Shapiro, K. W. Huang, K. Zengler and M. J. Betenbaugh | Utilizing genome-scale models to optimize nutrient supply for sustained algal growth and lipid productivity | npj Systems Biology and Applications | 5 33 |
| 2019 | 10.1016/j.apenergy.2019.03.020 | Ng, R. T. L., P. Fasahati, K. F. Huang and C. T. Maravelias | Utilizing stillage in the biorefinery: Economic, technological and energetic analysis | Applied Energy | 241 491–503 |
| 2019 | 10.1016/j.ibusrev.2018.05.009 | Rosca, E. and J. C. Bendul | Value chain integration of base of the pyramid consumers: An empirical study of drivers and performance outcomes | International Business Review | 28(1) 162-176 |
| 2019 | 10.1371/journal.pgen.1008304 | LaBella, A. L., D. A. Opulente, J. L. Steenwyk, C. T. Hittinger and A. Rokas | Variation and selection on codon usage bias across an entire subphylum | PLoS Genetics | 15(7) e1008304 |
| 2019 | 10.1093/nar/gkz085 | Egbert, R. G., H. S. Rishi, B. A. Adler, D. M. McCormick, E. Toro, R. T. Gill and A. P. Arkin | A versatile platform strain for high-fidelity multiplex genome editing | Nucleic Acids Research | 47(6) 3244–56 |
| 2019 | 10.1021/acssynbio.9b00217 | Sun, L., S. Kwak and Y. S. Jin | Vitamin A Production by Engineered Saccharomyces cerevisiae from Xylose via Two-Phase in Situ Extraction | ACS Synthetic Biology | 8(9) 2131–40 |
| 2019 | 10.1016/j.phytochem.2019.01.014 | Piva, L. R. O., K. J. Jardine, B. O. Gimenez, R. de Oliveira Perdiz, V. S. Menezes, F. M. Durgante, L. O. Cobello, N. Higuchi and J. Q. Chambers | Volatile monoterpene 'fingerprints' of resinous Protium tree species in the Amazon rainforest | Phytochemistry | 160 61–70 |
| 2019 | 10.1146/annurev-arplant-042817-040305 | Leakey, A. D. B., J. N. Ferguson, C. P. Pignon, A. Wu, Z. Jin, G. L. Hammer and D. B. Lobell | Water Use Efficiency as a Constraint and Target for Improving the Resilience and Productivity of C3 and C4 Crops | Annual Review of Plant Biology | 70 781–808 |
| 2019 | 10.3389/fgene.2019.00487 | Weighill, D., D. Macaya-Sanz, S. P. DiFazio, W. Joubert, M. Shah, J. Schmutz, A. Sreedasyam, G. Tuskan and D. Jacobson | Wavelet-Based Genomic Signal Processing for Centromere Identification and Hypothesis Generation | Frontiers in Genetics | 10 487 |
| 2019 | 10.1128/MRA.00362-19 | Alayande, K. A., O. A. Aiyegoro and C. N. Ateba | Whole-Genome Sequence of Lactobacillus acidophilus PNW3, Isolated from Weaned Piglets of the Indigenous South African Windsnyer Pig Breed | Microbiology Resource Announcements | 8(25) |
| 2019 | 10.1111/gcbb.12588 | Dong, H. X., S. V. Green, A. Nishiwaki, T. Yamada, J. R. Stewart, M. Deuter and E. J. Sacks | Winter hardiness of Miscanthus (I): Overwintering ability and yield of new Miscanthus x giganteus genotypes in Illinois and Arkansas | GCB Bioenergy | 11(5) 691–705 |
| 2019 | 10.1111/gcbb.12587 | Dong, H. X., S. Y. Liu, L. V. Clark, S. Sharma, J. M. Gifford, J. A. Juvik, A. E. Lipka and E. J. Sacks | Winter hardiness of Miscanthus (II): Genetic mapping for overwintering ability and adaptation traits in three interconnected Miscanthus populations | GCB Bioenergy | 11(5) 706–26 |
| 2019 | 10.1111/gcbb.12615 | Dong, H. X., L. V. Clark, A. E. Lipka, J. E. Brummer, K. Glowacka, et al. | Winter hardiness of Miscanthus (III): Genome-wide association and genomic prediction for overwintering ability in Miscanthus sinensis | GCB Bioenergy | 11(8) 930–55 |
| 2019 | 10.1002/ppp3.29 | Rodriguez‐Zaccaro, F. D. and A. Groover | Wood and water: How trees modify wood development to cope with drought | Plants, People, Planet | 1(4) 346–55 |
| 2019 | 10.1186/s13068-019-1560-2 | Zhang, Y., S. Lane, J. M. Chen, S. K. Hammer, J. Luttinger, L. Yang, Y. S. Jin and J. L. Avalos | Xylose utilization stimulates mitochondrial production of isobutanol and 2-methyl-1-butanol in Saccharomyces cerevisiae | Biotechnology for Biofuels | 12 223 |
| 2019 | 10.1038/s41598-019-42271-1 | Basso, B., G. Shuai, J. Zhang and G. P. Robertson | Yield stability analysis reveals sources of large-scale nitrogen loss from the US Midwest | Scientific Reports | 9(1) 5774 |
| 2019 | 10.1371/journal.pone.0218279 | Frausto, R. F., D. D. Chung, P. M. Boere, V. S. Swamy, H. N. V. Duong, et al. | ZEB1 insufficiency causes corneal endothelial cell state transition and altered cellular processing | PLoS One | 14(6) e0218279 |
| 2018 | 10.1105/tpc.18.00168 | Xie, M., W. Muchero, A. C. Bryan, K. Yee, H. B. Guo, et al. | A 5-Enolpyruvylshikimate 3-Phosphate Synthase Functions as a Transcriptional Repressor in Populus | The Plant Cell | 30(7) 1645–60 |
| 2018 | 10.1038/s41467-018-05738-9 | Walter Anthony, K., T. Schneider von Deimling, I. Nitze, S. Frolking, A. Emond, R. Daanen, P. Anthony, P. Lindgren, B. Jones and G. Grosse | 21st-century modeled permafrost carbon emissions accelerated by abrupt thaw beneath lakes | Nature Communications | 9(1) 3262 |
| 2018 | 10.3389/fpls.2018.00005 | Filichkin, S. A., M. Hamilton, P. D. Dharmawardhana, S. K. Singh, C. Sullivan, A. Ben-Hur, A. S. N. Reddy and P. Jaiswal | Abiotic Stresses Modulate Landscape of Poplar Transcriptome via Alternative Splicing, Differential Intron Retention, and Isoform Ratio Switching | Frontiers in Plant Science | 9 5 |
| 2018 | 10.1093/bioinformatics/bty446 | Chan, S. H. J., L. Wang, S. Dash and C. D. Maranas | Accelerating flux balance calculations in genome-scale metabolic models by localizing the application of loopless constraints | Bioinformatics | 34(24) 4248–55 |
| 2018 | 10.1021/acs.est.8b04481 | Satchwell, A. J., C. D. Scown, S. J. Smith, J. Amirebrahimi, L. Jin, T. W. Kirchstetter, N. J. Brown and C. V. Preble | Accelerating the Deployment of Anaerobic Digestion to Meet Zero Waste Goals | Environmental Science & Technology | 52(23) 13663–9 |
| 2018 | 10.1534/g3.118.200443 | Kainer, D., E. A. Stone, A. Padovan, W. J. Foley and C. Kulheim | Accuracy of Genomic Prediction for Foliar Terpene Traits in Eucalyptus polybractea | G3 Genes|Genomes|Genetics | 8(8) 2573–83 |
| 2018 | 10.1021/acs.analchem.7b04713 | Sonnett, M., E. Yeung and M. Wühr | Accurate, Sensitive, and Precise Multiplexed Proteomics Using the Complement Reporter Ion Cluster | Analytical Chemistry | 90(8) 5032-5039 |
| 2018 | 10.1073/pnas.1715530115 | Wannier, T. M., A. M. Kunjapur, D. P. Rice, M. J. McDonald, M. M. Desai and G. M. Church | Adaptive evolution of genomically recoded Escherichia coli | Proceedings of the National Academy of Sciences of the United States of America | 115(12) 3090–5 |
| 2018 | 10.1016/j.joule.2018.09.007 | Fasahati, P. and C. T. Maravelias | Advanced Biofuels of the Future: Atom-Economical or Energy-Economical? | Joule | 2(10) 1915–9 |
| 2018 | 10.1016/j.ymben.2018.04.001 | Wang, X., Q. He, Y. Yang, J. Wang, K. Haning, Y. Hu, B. Wu, M. He, Y. Zhang, J. Bao, L. M. Contreras and S. Yang | Advances and prospects in metabolic engineering of Zymomonas mobilis | Metabolic Engineering | 50 57–73 |
| 2018 | 10.1016/j.copbio.2017.12.012 | Pan, S. and J. L. Reed | Advances in gap-filling genome-scale metabolic models and model-driven experiments lead to novel metabolic discoveries | Current Opinion in Biotechnology | 51 103-108 |
| 2018 | 10.1186/s13068-018-1244-3 | Tibocha-Bonilla, J. D., C. Zuniga, R. D. Godoy-Silva and K. Zengler | Advances in metabolic modeling of oleaginous microalgae | Biotechnology for Biofuels | 11 241 |
| 2018 | 10.1002/biot.201700601 | Lian, J., M. HamediRad and H. Zhao | Advancing Metabolic Engineering of Saccharomyces cerevisiae Using the CRISPR/Cas System | Biotechnology Journal | 13(9) e1700601 |
| 2018 | 10.1038/s41588-018-0237-2 | Zhang, J., X. Zhang, H. Tang, Q. Zhang, X. Hua, et al. | Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. | Nature Genetics | 50(11) 1565–73 |
| 2018 | 10.1002/9781118968130.ch11 | Deeg, M. | Along the silk road: From Aleppo to Chang'an | A Companion to Religion in Late Antiquity | 233-253 |
| 2018 | 10.1111/1462-2920.14246 | Meinhardt, K. A., N. Stopnisek, M. W. Pannu, S. E. Strand, S. C. Fransen, K. L. Casciotti and D. A. Stahl | Ammonia-oxidizing bacteria are the primary N2O producers in an ammonia-oxidizing archaea dominated alkaline agricultural soil | Environmental Microbiology | 20(6) 2195–206 |
| 2018 | 10.1007/s10529-017-2467-2 | Oguntimein, G. B., M. Rodriguez, Jr., A. Dumitrache, T. Shollenberger, S. R. Decker, B. H. Davison and S. D. Brown | Anaerobic microplate assay for direct microbial conversion of switchgrass and Avicel using Clostridium thermocellum | Biotechnology Letters | 40(2) 303–8 |
| 2018 | 10.1186/s12864-018-4911-7 | Franke, K. R., S. A. Schmidt, S. Park, D. H. Jeong, M. Accerbi and P. J. Green | Analysis of Brachypodium miRNA targets: evidence for diverse control during stress and conservation in bioenergy crops | BMC Genomics | 19(1) 547 |
| 2018 | 10.1016/j.str.2018.03.021 | Hattne, J., D. Shi, C. Glynn, C. T. Zee, M. Gallagher-Jones, M. W. Martynowycz, J. A. Rodriguez and T. Gonen | Analysis of Global and Site-Specific Radiation Damage in Cryo-EM | Structure | 26(5) 759-766.e4 |
| 2018 | 10.1002/cbic.201700638 | Ruprecht, C., P. Dallabernardina, P. J. Smith, B. R. Urbanowicz and F. Pfrengle | Analyzing Xyloglucan Endotransglycosylases by Incorporating Synthetic Oligosaccharides into Plant Cell Walls | ChemBioChem | 19(8) 793–8 |
| 2018 | 10.1038/s41437-018-0058-1 | Butler, J. B., J. S. Freeman, B. M. Potts, R. E. Vaillancourt, D. Grattapaglia, et al. | Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus | Heredity | 121(1) 87–104 |
| 2018 | 10.1128/AEM.02816-17 | Entwistle, E. M., K. J. Romanowicz, W. A. Argiroff, Z. B. Freedman, J. J. Morris and D. R. Zak | Anthropogenic N deposition alters the composition of expressed class II fungal peroxidases | Applied and Environmental Microbiology | 84(9) |
| 2018 | 10.1002/ecy.2095 | Ibáñez, I., D. R. Zak, A. J. Burton and K. S. Pregitzer | Anthropogenic nitrogen deposition ameliorates the decline in tree growth caused by a drier climate | Ecology | 99(2) 411-420 |
| 2018 | 10.1371/journal.pone.0199681 | Hu, G., Y. Liu, T. Duo, B. Zhao, G. Cui, J. Ji, X. Kuang, E. H. Ervin and X. Zhang | Antioxidant metabolism variation associated with alkali-salt tolerance in thirty switchgrass (Panicum virgatum) lines | PLoS One | 13(6) e0199681 |
| 2018 | 10.1111/1365-2745.12919 | Treseder, K. K., E. B. Allen, L. M. Egerton-Warburton, M. M. Hart, J. N. Klironomos, H. Maherali and L. Tedersoo | Arbuscular mycorrhizal fungi as mediators of ecosystem responses to nitrogen deposition: A trait-based predictive framework | Journal of Ecology | 106(2) 480–9 |
| 2018 | 10.1073/pnas.1808351115 | Liao, L., A. L. Schaefer, B. G. Coutinho, P. J. B. Brown and E. P. Greenberg | An aryl-homoserine lactone quorum-sensing signal produced by a dimorphic prosthecate bacterium | Proceedings of the National Academy of Sciences of the United States of America | 115(29) 7587–92 |
| 2018 | 10.1073/pnas.1804428115 | Muchero, W., K. L. Sondreli, J. G. Chen, B. R. Urbanowicz, J. Zhang, et al. | Association mapping, transcriptomics, and transient expression identify candidate genes mediating plant-pathogen interactions in a tree | Proceedings of the National Academy of Sciences of the United States of America | 115(45) 11573–8 |
| 2018 | 10.1111/1462-2920.14357 | Samo, T. J., J. A. Kimbrel, D. J. Nilson, J. Pett-Ridge, P. K. Weber and X. Mayali | Attachment between heterotrophic bacteria and microalgae influences symbiotic microscale interactions | Environmental Microbiology | 20(12) 4385–400 |
| 2018 | 10.1109/SC.2018.00060 | Joubert, W., D. Weighill, D. Kainer, S. Climer, A. Justice, K. Fagnan and D. Jacobson | Attacking the Opioid Epidemic: Determining the Epistatic and Pleiotropic Genetic Architectures for Chronic Pain and Opioid Addiction | Proceedings of the International Conference for High Performance Computing, Networking, Storage, and Analysis (SC’18) | |
| 2018 | 10.1038/s41593-018-0125-1 | Zheng, Y., W. Shen, J. Zhang, B. Yang, Y. N. Liu, H. Qi, X. Yu, S. Y. Lu, Y. Chen, Y. Z. Xu, Y. Li, F. H. Gage, S. Mi and J. Yao | Author Correction: CRISPR interference-based specific and efficient gene inactivation in the brain | Nature Neuroscience | 21(6) 894 |
| 2018 | 10.7717/peerj.5727 | Berry, J. C., N. Fahlgren, A. A. Pokorny, R. S. Bart and K. M. Veley | An automated, high-throughput method for standardizing image color profiles to improve image-based plant phenotyping | PeerJ | 6 e5727 |
| 2018 | 10.1093/femsec/fiy093 | Miquel Guennoc, C., C. Rose, J. Labbe and A. Deveau | Bacterial biofilm formation on the hyphae of ectomycorrhizal fungi: a widespread ability under controls? | FEMS Microbiology Ecology | 94(7) |
| 2018 | 10.1002/ecs2.2079 | Curd, E. E., J. B. H. Martiny, H. Li and T. B. Smith | Bacterial diversity is positively correlated with soil heterogeneity | Ecosphere | 9(1) |
| 2018 | 10.1038/s41560-018-0197-x | Zhou, Y. J., E. J. Kerkhoven and J. Nielsen | Barriers and opportunities in bio-based production of hydrocarbons | Nature Energy | 3(11) 925–35 |
| 2018 | 10.1111/rec.12655 | Lettow, M. C., L. A. Brudvig, C. A. Bahlai, J. Gibbs, R. P. Jean and D. A. Landis | Bee community responses to a gradient of oak savanna restoration practices | Restoration Ecology | 26(5) 882-890 |
| 2018 | 10.1111/tpj.13860 | Laursen, T., S. H. Stonebloom, V. R. Pidatala, D. S. Birdseye, M. H. Clausen, J. C. Mortimer and H. V. Scheller | Bifunctional glycosyltransferases catalyze both extension and termination of pectic galactan oligosaccharides | The Plant Journal | 94(2) 340–51 |
| 2018 | 10.1093/bioinformatics/bty227 | Goren, E., P. Liu, C. Wang and C. Wang | BinQuasi: a peak detection method for ChIP-sequencing data with biological replicates | Bioinformatics | 34(17) 2909–17 |
| 2018 | 10.1126/sciadv.aat5105 | Huang, A., P. Q. Nguyen, J. C. Stark, M. K. Takahashi, N. Donghia, T. Ferrante, A. J. Dy, K. J. Hsu, R. S. Dubner, K. Pardee, M. C. Jewett and J. J. Collins | BioBits Explorer: A modular synthetic biology education kit | Science Advances | 4(8) eaat5105 |
| 2018 | 10.1126/sciadv.aat5107 | Stark, J. C., A. Huang, P. Q. Nguyen, R. S. Dubner, K. J. Hsu, et al. | BioBits™ Bright: A fluorescent synthetic biology education kit | Science Advances | 4(8) |
| 2018 | 10.1071/FP17265 | Kolbe, A. R., A. J. Studer and A. B. Cousins | Biochemical and transcriptomic analysis of maize diversity to elucidate drivers of leaf carbon isotope composition | Functional Plant Biology | 45(5) 489–500 |
| 2018 | 10.1021/acssuschemeng.8b01271 | Xu, F., J. Sun, M. Wehrs, K. H. Kim, S. S. Rau, A. M. Chan, B. A. Simmons, A. Mukhopadhyay and S. Singh | Biocompatible Choline-Based Deep Eutectic Solvents Enable One-Pot Production of Cellulosic Ethanol | ACS Sustainable Chemistry & Engineering | 6(7) 8914–9 |
| 2018 | 10.1021/acssuschemeng.8b03794 | Villegas Calvo, M., B. Colombo, L. Corno, G. Eisele, C. Cosentino, G. Papa, B. Scaglia, R. Pilu, B. Simmons and F. Adani | Bioconversion of Giant Cane for Integrated Production of Biohydrogen, Carboxylic Acids, and Polyhydroxyalkanoates (PHAs) in a Multistage Biorefinery Approach | ACS Sustainable Chemistry & Engineering | 6(11) 15361–73 |
| 2018 | 10.3389/fenrg.2018.00129 | Dien, B. S., R. B. Mitchell, M. J. Bowman, V. L. Jin, J. Quarterman, M. R. Schmer, V. Singh and P. J. Slininger | Bioconversion of Pelletized Big Bluestem, Switchgrass, and Low-Diversity Grass Mixtures Into Sugars and Bioethanol | Frontiers in Energy Research | 6 |
| 2018 | 10.1186/s13068-018-1216-7 | Kothari, N., E. K. Holwerda, C. M. Cai, R. Kumar and C. E. Wyman | Biomass augmentation through thermochemical pretreatments greatly enhances digestion of switchgrass by Clostridium thermocellum | Biotechnology for Biofuels | 11 219 |
| 2018 | 10.1039/c7gc03029k | Kim, K. H., T. Dutta, J. Sun, B. Simmons and S. Singh | Biomass pretreatment using deep eutectic solvents from lignin derived phenols | Green Chemistry | 20(4) 809–15 |
| 2018 | 10.1002/aic.16395 | Henske, J. K., S. P. Gilmore, C. H. Haitjema, K. V. Solomon and M. A. O'Malley | Biomass-degrading enzymes are catabolite repressed in anaerobic gut fungi | AIChE Journal | 64(12) 4263–70 |
| 2018 | 10.1038/s41467-018-05525-6 | Juarez, J. F., B. Lecube-Azpeitia, S. L. Brown, C. D. Johnston and G. M. Church | Biosensor libraries harness large classes of binding domains for construction of allosteric transcriptional regulators | Nature Communications | 9(1) 3101 |
| 2018 | 10.1126/science.aau0382 | Brunson, J. K., S. M. K. McKinnie, J. R. Chekan, J. P. McCrow, Z. D. Miles, E. M. Bertrand, V. A. Bielinski, H. Luhavaya, M. Obornik, G. J. Smith, D. A. Hutchins, A. E. Allen and B. S. Moore | Biosynthesis of the neurotoxin domoic acid in a bloom-forming diatom | Science | 361(6409) 1356–8 |
| 2018 | 10.1111/gcb.14325 | Liang, J., J. Xia, Z. Shi, L. Jiang, S. Ma, et al. | Biotic responses buffer warming-induced soil organic carbon loss in Arctic tundra | Global Change Biology | 24(10) 4946–59 |
| 2018 | 10.1186/s12864-018-4609-x | Khosravi, C., E. Battaglia, R. S. Kun, S. Dalhuijsen, J. Visser, M. V. Aguilar-Pontes, M. Zhou, H. M. Heyman, Y. M. Kim, S. E. Baker and R. P. de Vries | Blocking hexose entry into glycolysis activates alternative metabolic conversion of these sugars and upregulates pentose metabolism in Aspergillus nidulans | BMC Genomics | 19(1) 214 |
| 2018 | 10.1007/s12155-017-9867-y | Casler, M. D. and G. P. Ramstein | Breeding for Biomass Yield in Switchgrass Using Surrogate Measures of Yield | Bioenergy Research | 11(1) 45303 |
| 2018 | 10.1128/mSphere.00148-18 | Glassman, S. I. and J. B. H. Martiny | Broadscale Ecological Patterns Are Robust to Use of Exact Sequence Variants versus Operational Taxonomic Units | mSphere | 3(4) |
| 2018 | 10.1155/2018/4961726 | Presley, G. N., B. K. Ndimba and J. S. Schilling | Brown Rot-Type Fungal Decomposition of Sorghum Bagasse: Variable Success and Mechanistic Implications | International Journal of Microbiology | 2018 4961726 |
| 2018 | 10.1002/bit.26727 | Freed, E., J. Fenster, S. L. Smolinski, J. Walker, C. A. Henard, R. Gill and C. A. Eckert | Building a genome engineering toolbox in nonmodel prokaryotic microbes | Biotechnology and Bioengineering | 115(9) 2120–38 |
| 2018 | 10.1002/jcc.25192 | Johnson, Q. R., R. J. Lindsay and T. Shen | CAMERRA: An analysis tool for the computation of conformational dynamics by evaluating residue-residue associations | Journal of Computational Chemistry | 39(20) 1568–78 |
| 2018 | 10.3835/plantgenome2018.01.0002 | Ramstein, G. P., J. Evans, A. Nandety, M. C. Saha, E. C. Brummer, S. M. Kaeppler, C. R. Buell and M. D. Casler | Candidate variants for additive and interactive effects on bioenergy traits in switchgrass (Panicum virgatum L.) identified by genome-wide association analyses | Plant Genome | 11 |
| 2018 | 10.1111/gcb.13979 | Wieder, W. R., M. D. Hartman, B. N. Sulman, Y. P. Wang, C. D. Koven and G. B. Bonan | Carbon cycle confidence and uncertainty: Exploring variation among soil biogeochemical models | Global Change Biology | 24(4) 1563–79 |
| 2018 | 10.1007/s00442-017-4036-8 | Spiesman, B. J., H. Kummel and R. D. Jackson | Carbon storage potential increases with increasing ratio of C4 to C3 grass cover and soil productivity in restored tallgrass prairies | Oecologia | 186(2) 565-576 |
| 2018 | 10.1038/nature25982 | McQuaid, J. B., A. B. Kustka, M. Obornik, A. Horak, J. P. McCrow, B. J. Karas, H. Zheng, T. Kindeberg, A. J. Andersson, K. A. Barbeau and A. E. Allen | Carbonate-sensitive phytotransferrin controls high-affinity iron uptake in diatoms | Nature | 555(7697) 534–7 |
| 2018 | 10.1002/cssc.201701902 | Liu, D., K. H. Kim, J. Sun, B. A. Simmons and S. Singh | Cascade Production of Lactic Acid from Universal Types of Sugars Catalyzed by Lanthanum Triflate | ChemSusChem | 11(3) 598–604 |
| 2018 | 10.1016/j.fgb.2018.09.004 | Solomon, K. V., J. K. Henske, S. P. Gilmore, A. Lipzen, I. V. Grigoriev, D. Thompson and M. A. O'Malley | Catabolic repression in early-diverging anaerobic fungi is partially mediated by natural antisense transcripts | Fungal Genetics and Biology | 121 1–9 |
| 2018 | 10.1111/nph.15173 | Ellsworth, P. V., P. Z. Ellsworth, N. K. Koteyeva and A. B. Cousins | Cell wall properties in Oryza sativa influence mesophyll CO2 conductance | New Phytologist | 219(1) 66–76 |
| 2018 | 10.1038/s41477-018-0222-x | Ulvskov, P. and H. V. Scheller | Cell walls have a new family | Nature Plants | 4(9) 635–6 |
| 2018 | 10.1016/j.coche.2018.10.003 | Bundy, B. C., J. P. Hunt, M. C. Jewett, J. R. Swartz, D. W. Wood, D. D. Frey and G. Rao | Cell-free biomanufacturing | Current Opinion in Chemical Engineering | 22 177–83 |
| 2018 | 10.1016/bs.mie.2018.04.029 | Karim, A. S. and M. C. Jewett | Cell-Free Synthetic Biology for Pathway Prototyping | Methods in Enzymology | 608 31-57 |
| 2018 | 10.1039/c7gc03518g | Kumar, R., S. Bhagia, M. D. Smith, L. Petridis, R. G. Ong, C. M. Cai, A. Mittal, M. H. Himmel, V. Balan, B. E. Dale, A. J. Ragauskas, J. C. Smith and C. E. Wyman | Cellulose-hemicellulose interactions at elevated temperatures increase cellulose recalcitrance to biological conversion | Green Chemistry | 20(4) 921-934 |
| 2018 | 10.13031/trans.12945 | Kim, S. M., D. K. Lee, S. Thapa, B. S. Dien, M. E. Tumbleson, K. D. Rausch and V. Singh | Cellulosic ethanol potential of feedstocks grown on marginal lands | Transactions of the ASABE | 61(6) 1775-1782 |
| 2018 | 10.1111/ppl.12684 | Nuoendagula, Y. Tsuji, N. Takata, S. Sakamoto, A. Nakagawa-Izumi, T. Taniguchi, J. Ralph, N. Mitsuda and S. Kajita | Change in lignin structure, but not in lignin content, in transgenic poplar overexpressing the rice master regulator of secondary cell wall biosynthesis | Physiologia Plantarum | 163(2) 170-182 |
| 2018 | 10.1016/bs.coac.2018.06.006 | de Raad, M., T. R. Northen and B. P. Bowen | Chapter Thirteen - Analysis and Interpretation of Mass Spectrometry Imaging Datasets | Comprehensive Analytical Chemistry | 82 369–86 |
| 2018 | 10.1021/acssuschemeng.8b00498 | Dou, J., W. Xu, J. J. Koivisto, J. K. Mobley, D. Padmakshan, M. Kögler, C. Xu, S. Willför, J. Ralph and T. Vuorinen | Characteristics of Hot Water Extracts from the Bark of Cultivated Willow (Salix sp.) | ACS Sustainable Chemistry and Engineering | 6(4) 5566-5573 |
| 2018 | 10.3389/fenrg.2018.00001 | Yao, L., H. T. Yang, C. G. Yoo, X. Z. Meng, Y. Q. Pu, N. J. Hao and A. J. Ragauskas | Characteristics of Lignin Fractions from Dilute Acid Pretreated Switchgrass and Their Effect on Cellobiohydrolase from Trichoderma longibrachiatum | Frontiers in Energy Research | 6 |
| 2018 | 10.1021/acssuschemeng.8b01763 | Das, L., M. Li, J. Stevens, W. Q. Li, Y. Q. Pu, A. J. Ragauskas and J. Shi | Characterization and Catalytic Transfer Hydrogenolysis of Deep Eutectic Solvent Extracted Sorghum Lignin to Phenolic Compounds | ACS Sustainable Chemistry & Engineering | 6(8) 10408–20 |
| 2018 | 10.1007/s10570-017-1542-0 | Kruer-Zerhusen, N., B. Cantero-Tubilla and D. B. Wilson | Characterization of cellulose crystallinity after enzymatic treatment using Fourier transform infrared spectroscopy (FTIR) | Cellulose | 25(1) 37–48 |
| 2018 | 10.1021/acs.jproteome.7b00708 | Estenson, K., G. B. Hurst, R. F. Standaert, A. N. Bible, D. Garcia, K. Chourey, M. J. Doktycz and J. L. Morrell-Falvey | Characterization of Indole-3-acetic Acid Biosynthesis and the Effects of This Phytohormone on the Proteome of the Plant-Associated Microbe Pantoea sp. YR343 | Journal of Proteome Research | 17(4) 1361–74 |
| 2018 | 10.1021/acssuschemeng.7b02991 | Dutta, T., G. Papa, E. Wang, J. Sun, N. G. Isern, J. R. Cort, B. A. Simmons and S. Singh | Characterization of Lignin Streams during Bionic Liquid-Based Pretreatment from Grass, Hardwood, and Softwood | ACS Sustainable Chemistry & Engineering | 6(3) 3079–90 |
| 2018 | 10.1371/journal.pone.0204525 | Pozzo, T., S. M. Higdon, S. Pattathil, M. G. Hahn and A. B. Bennett | Characterization of novel glycosyl hydrolases discovered by cell wall glycan directed monoclonal antibody screening and metagenome analysis of maize aerial root mucilage | PLoS One | 13(9) e0204525 |
| 2018 | 10.1073/pnas.1811971115 | Brunk, E., R. L. Chang, J. Xia, H. Hefzi, J. T. Yurkovich, D. Kim, E. Buckmiller, H. H. Wang, B. K. Cho, C. Yang, B. O. Palsson, G. M. Church and N. E. Lewis | Characterizing posttranslational modifications in prokaryotic metabolism using a multiscale workflow | Proceedings of the National Academy of Sciences of the United States of America | 115(43) 11096–101 |
| 2018 | 10.1063/1.5004141 | Lindsay, R. J., J. Siess, D. P. Lohry, T. S. McGee, J. S. Ritchie, Q. R. Johnson and T. Shen | Characterizing protein conformations by correlation analysis of coarse-grained contact matrices | Journal of Chemical Physics | 148(2) 025101 |
| 2018 | 10.1002/cpch.38 | Lubner, J. M., J. L. Balsbaugh, G. M. Church, M. F. Chou and D. Schwartz | Characterizing Protein Kinase Substrate Specificity Using the Proteomic Peptide Library (ProPeL) Approach | Current Protocols in Chemical Biology | 10(2) e38 |
| 2018 | 10.1093/nar/gky604 | Lindsay, R. J., B. Pham, T. Shen and R. P. McCord | Characterizing the 3D structure and dynamics of chromosomes and proteins in a common contact matrix framework | Nucleic Acids Research | 46(16) 8143–52 |
| 2018 | 10.1186/s12934-017-0848-9 | Bottoms, S., Q. Dickinson, M. McGee, L. Hinchman, A. Higbee, A. Hebert, J. Serate, D. Xie, Y. Zhang, J. J. Coon, C. L. Myers, R. Landick and J. S. Piotrowski | Chemical genomic guided engineering of gamma-valerolactone tolerant yeast | Microbial Cell Factories | 17(1) |
| 2018 | 10.1021/acssuschemeng.8b01028 | Meng, X. Z., A. Parikh, B. Seemala, R. Kumar, Y. Q. Pu, P. Christopher, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Chemical Transformations of Poplar Lignin during Cosolvent Enhanced Lignocellulosic Fractionation Process | ACS Sustainable Chemistry & Engineering | 6(7) 8711–8 |
| 2018 | 10.3389/fmicb.2018.02382 | Steven, B., J. Belnap and C. R. Kuske | Chronic Physical Disturbance Substantially Alters the Response of Biological Soil Crusts to a Wetting Pulse, as Characterized by Metatranscriptomic Sequencing | Frontiers in Microbiology | 9 2382 |
| 2018 | 10.1155/2018/9784161 | Guo, H. B., Y. Ma, G. A. Tuskan, X. Yang and H. Guo | Classification of Complete Proteomes of Different Organisms and Protein Sets Based on Their Protein Distributions in Terms of Some Key Attributes of Proteins | International Journal of Genomics | 2018 9784161 |
| 2018 | 10.1038/s41558-018-0254-2 | Guo, X., J. J. Feng, Z. Shi, X. S. Zhou, M. T. Yuan, et al. | Climate warming leads to divergent succession of grassland microbial communities | Nature Climate Change | 8(9) 813–8 |
| 2018 | 10.1093/jxb/ery213 | Jansson, C., J. Vogel, S. Hazen, T. Brutnell and T. Mockler | Climate-smart crops with enhanced photosynthesis | Journal of Experimental Botany | 69(16) 3801–9 |
| 2018 | 10.1007/978-1-4939-7877-9_10 | Reilly, M. C., S. Amaike Campen, B. A. Simmons, S. E. Baker, J. M. Gladden and J. K. Magnuson | Cloning and Expression of Heterologous Cellulases and Enzymes in Aspergillus niger | Cellulases: Methods and Protocols | 1796 123–33 |
| 2018 | 10.1002/yea.3292 | Dossani, Z. Y., A. Reider Apel, H. Szmidt-Middleton, N. J. Hillson, S. Deutsch, J. D. Keasling and A. Mukhopadhyay | A combinatorial approach to synthetic transcription factor-promoter combinations for yeast strain engineering | Yeast | 35(3) 273–80 |
| 2018 | 10.1002/bit.26589 | Tarasava, K., R. Liu, A. Garst and R. T. Gill | Combinatorial pathway engineering using type I-E CRISPR interference | Biotechnology and Bioengineering | 115(7) 1878–83 |
| 2018 | 10.1007/978-3-319-44535-9_5-1 | Hazen, T. C. | Cometabolic Bioremediation | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Biodegradation and Bioremediation | 1–15 |
| 2018 | 10.1104/pp.18.00298 | Karlen, S. D., H. C. A. Free, D. Padmakshan, B. G. Smith, J. Ralph and P. J. Harris | Commelinid monocotyledon lignins are acylated by p-coumarate | Plant Physiology | 177(2) 513-521 |
| 2018 | 10.1016/bs.mie.2018.04.027 | Yuzawa, S., A. Zargar, B. Pang, L. Katz and J. D. Keasling | Commodity Chemicals From Engineered Modular Type I Polyketide Synthases | Methods in Enzymology | 608 393–415 |
| 2018 | 10.1091/mbc.E17-11-0666 | Gibney, P. A., A. Schieler, J. C. Chen, J. M. Bacha-Hummel, M. Botstein, M. Volpe, S. J. Silverman, Y. Xu, B. D. Bennett, J. D. Rabinowitz and D. Botstein | Common and divergent features of galactose-1-phosphate and fructose-1-phosphate toxicity in yeast | Molecular Biology of the Cell | 29(8) 897–910 |
| 2018 | 10.1111/1462-2920.14309 | Wilhelm, R. C., B. T. Hanson, S. Chandra and E. Madsen | Community dynamics and functional characteristics of naphthalene-degrading populations in contaminated surface sediments and hypoxic/anoxic groundwater | Environmental Microbiology | 20(10) 3543–59 |
| 2018 | 10.1016/j.algal.2018.01.018 | McKie-Krisberg, Z. M., L. M. L. Laurens, A. Huang and J. E. W. Polle | Comparative energetics of carbon storage molecules in green algae | Algal Research | 31 326-333 |
| 2018 | 10.3389/fmicb.2018.02917 | Yu, H., D. Susanti, S. E. McGlynn, C. T. Skennerton, K. Chourey, R. Iyer, S. Scheller, P. L. Tavormina, R. L. Hettich, B. Mukhopadhyay and V. J. Orphan | Comparative Genomics and Proteomic Analysis of Assimilatory Sulfate Reduction Pathways in Anaerobic Methanotrophic Archaea | Frontiers in Microbiology | 9 2917 |
| 2018 | 10.1534/g3.118.200700 | Gage, J. L., N. De Leon and M. K. Clayton | Comparing genome-wide association study results from different measurements of an underlying phenotype | G3: Genes, Genomes, Genetics | 8(11) 3715-3722 |
| 2018 | 10.1111/1462-2920.14104 | Tsementzi, D., J. Castro Gordillo, M. Mahagna, Y. Gottlieb and K. T. Konstantinidis | Comparison of closely related, uncultivated Coxiella tick endosymbiont population genomes reveals clues about the mechanisms of symbiosis | Environmental Microbiology | 20(5) 1751–64 |
| 2018 | 10.1038/s41396-018-0086-0 | Smith, G. R., B. S. Steidinger, T. D. Bruns and K. G. Peay | Competition-colonization tradeoffs structure fungal diversity | The ISME Journal | 12(7) 1758–67 |
| 2018 | 10.1186/s13068-018-1116-x | Yang, S., J. M. Vera, J. Grass, G. Savvakis, O. V. Moskvin, et al. | Complete genome sequence and the expression pattern of plasmids of the model ethanologen Zymomonas mobilis ZM4 and its xylose-utilizing derivatives 8b and 2032 | Biotechnology for Biofuels | 11 125 |
| 2018 | 10.1128/genomeA.00337-18 | Liao, Y. T., F. Liu, X. Sun, R. W. Li and V. C. H. Wu | Complete Genome Sequence of Escherichia coli Phage vB_EcoS Sa179lw, Isolated from Surface Water in a Produce-Growing Area in Northern California | Genome Announcements | 6(27) |
| 2018 | 10.1128/MRA.01047-18 | O'Dell, K. B., E. A. Hatmaker, A. M. Guss and M. R. Mormile | Complete Genome Sequence of Salinisphaera sp. Strain LB1, a Moderately Halo-Acidophilic Bacterium Isolated from Lake Brown, Western Australia | Microbiology Resource Announcements | 7(13) |
| 2018 | 10.1128/genomeA.01411-17 | Biswas, R., M. Huntemann, A. Clum, M. Pillay, K. Palaniappan, et al. | Complete Genome Sequence of Thermoanaerobacterium sp. Strain RBIITD, a Butyrate- and Butanol-Producing Thermophile | Genome Announcements | 6(2) |
| 2018 | 10.1111/mmi.13903 | Blake, A. D., N. R. Beri, H. S. Guttman, R. Cheng and J. G. Gardner | The complex physiology of Cellvibrio japonicus xylan degradation relies on a single cytoplasmic β-xylosidase for xylo-oligosaccharide utilization | Molecular Microbiology | 107(5) 610–22 |
| 2018 | 10.1104/pp.18.00146 | Feldman, M. J., P. Z. Ellsworth, N. Fahlgren, M. A. Gehan, A. B. Cousins and I. Baxter | Components of Water Use Efficiency Have Unique Genetic Signatures in the Model C4 Grass Setaria | Plant Physiology | 178(2) 699–715 |
| 2018 | 10.1021/acs.analchem.8b02233 | Hebert, A. S., S. Prasad, M. W. Belford, D. J. Bailey, G. C. McAlister, S. E. Abbatiello, R. Huguet, E. R. Wouters, J. J. Dunyach, D. R. Brademan, M. S. Westphall and J. J. Coon | Comprehensive Single-Shot Proteomics with FAIMS on a Hybrid Orbitrap Mass Spectrometer | Analytical Chemistry | 90(15) 9529–37 |
| 2018 | 10.1371/journal.pone.0195980 | Pi, M., K. Kapoor, R. Ye, D. J. Hwang, D. D. Miller, J. C. Smith, J. Baudry and L. D. Quarles | Computationally identified novel agonists for GPRC6A | PLoS One | 13(4) e0195980 |
| 2018 | 10.3389/fpls.2018.01757 | Moseley, R. C., R. Mewalal, F. Motta, G. A. Tuskan, S. Haase and X. Yang | Conservation and diversification of circadian rhythmicity between a model crassulacean acid metabolism plant kalanchoë fedtschenkoi and a model C3 photosynthesis plant arabidopsis thaliana | Frontiers in Plant Science | 871 |
| 2018 | 10.1111/1758-2229.12619 | Flowers, J. J., M. A. Richards, N. Baliga, B. Meyer and D. A. Stahl | Constraint-based modelling captures the metabolic versatility of Desulfovibrio vulgaris | Environmental Microbiology Reports | 10(2) 190–201 |
| 2018 | 10.1073/pnas.1802191115 | Lin, P. P., A. J. Jaeger, T. Y. Wu, S. C. Xu, A. S. Lee, F. Gao, P. W. Chen and J. C. Liao | Construction and evolution of an Escherichia coli strain relying on nonoxidative glycolysis for sugar catabolism | Proceedings of the National Academy of Sciences of the United States of America | 115(14) 3538–46 |
| 2018 | 10.1016/j.ymben.2017.11.005 | Karim, A. S., J. T. Heggestad, S. A. Crowe and M. C. Jewett | Controlling cell-free metabolism through physiochemical perturbations | Metabolic Engineering | 45 86–94 |
| 2018 | 10.1038/s41396-018-0210-1 | Chadwick, G. L., J. Hemp, W. W. Fischer and V. J. Orphan | Convergent evolution of unusual complex I homologs with increased proton pumping capacity: energetic and ecological implications | The ISME Journal | 12(11) 2668–80 |
| 2018 | 10.1186/s13068-017-0995-6 | Flores-Gómez, C. A., E. M. Escamilla Silva, C. Zhong, B. E. Dale, L. Da Costa Sousa and V. Balan | Conversion of lignocellulosic agave residues into liquid biofuels using an AFEX™-based biorefinery | Biotechnology for Biofuels | 11(1) |
| 2018 | 10.1038/s41586-018-0413-7 | Litman, Z. C., Y. Wang, H. Zhao and J. F. Hartwig | Cooperative asymmetric reactions combining photocatalysis and enzymatic catalysis | Nature | 560(7718) 355–9 |
| 2018 | 10.1038/s41477-018-0139-4 | Toju, H., K. G. Peay, M. Yamamichi, K. Narisawa, K. Hiruma, et al. | Core microbiomes for sustainable agroecosystems | Nature Plants | 4(5) 247–57 |
| 2018 | 10.1002/bbb.1830 | Kim, S., X. Zhang, B. Dale, A. D. Reddy, C. D. Jones, K. Cronin, R. C. Izaurralde, T. Runge and M. Sharara | Corn stover cannot simultaneously meet both the volume and GHG reduction requirements of the renewable fuel standard | Biofuels, Bioproducts and Biorefining | 12(2) 203-212 |
| 2018 | 10.1128/AEM.00159-18 | Presley, G. N., E. Panisko, S. O. Purvine and J. S. Schilling | Coupling Secretomics with Enzyme Activities To Compare the Temporal Processes of Wood Metabolism among White and Brown Rot Fungi | Applied and Environmental Microbiology | 84(16) |
| 2018 | 10.1007/s00253-017-8724-4 | Franco, L. C., S. Steinbeisser, G. M. Zane, J. D. Wall and M. W. Fields | Cr(VI) reduction and physiological toxicity are impacted by resource ratio in Desulfovibrio vulgaris/em> | Applied Microbiology and Biotechnology | 102(6) 2839–50 |
| 2018 | 10.3389/fpls.2018.00985 | Jaganathan, D., K. Ramasamy, G. Sellamuthu, S. Jayabalan and G. Venkataraman | CRISPR for Crop Improvement: An Update Review | Frontiers in Plant Science | 9 985 |
| 2018 | 10.1002/biot.201700586 | Tarasava, K., E. J. Oh, C. A. Eckert and R. T. Gill | CRISPR-Enabled Tools for Engineering Microbial Genomes and Phenotypes | Biotechnology Journal | 13(9) e1700586 |
| 2018 | 10.1021/acscentsci.8b00760 | Jones, C. G., M. W. Martynowycz, J. Hattne, T. J. Fulton, B. M. Stoltz, J. A. Rodriguez, H. M. Nelson and T. Gonen | The CryoEM Method MicroED as a Powerful Tool for Small Molecule Structure Determination | ACS Central Science | 4(11) 1587-1592 |
| 2018 | 10.1016/j.str.2017.12.002 | Rothé, B., C. N. Leettola, L. Leal-Esteban, D. Cascio, S. Fortier, M. Isenschmid, J. U. Bowie and D. B. Constam | Crystal Structure of Bicc1 SAM Polymer and Mapping of Interactions between the Ciliopathy-Associated Proteins Bicc1, ANKS3, and ANKS6 | Structure | 26(2) 209-224.e6 |
| 2018 | 10.1002/pro.3420 | Saelices, L., S. A. Sievers, M. R. Sawaya and D. S. Eisenberg | Crystal structures of amyloidogenic segments of human transthyretin | Protein Science | 27(7) 1295-1303 |
| 2018 | 10.3389/fpls.2018.00399 | Rao, X. and R. A. Dixon | Current Models for Transcriptional Regulation of Secondary Cell Wall Biosynthesis in Grasses | Frontiers in Plant Science | 9 399 |
| 2018 | 10.1038/s41598-018-19848-3 | Bhagia, S., R. Dhir, R. Kumar and C. E. Wyman | Deactivation of Cellulase at the Air-Liquid Interface Is the Main Cause of Incomplete Cellulose Conversion at Low Enzyme Loadings | Scientific Reports | 8(1) 1350 |
| 2018 | 10.1073/pnas.1811269115 | Glassman, S. I., C. Weihe, J. Li, M. B. N. Albright, C. I. Looby, A. C. Martiny, K. K. Treseder, S. D. Allison and J. B. H. Martiny | Decomposition responses to climate depend on microbial community composition | Proceedings of the National Academy of Sciences of the United States of America | 115(47) 11994–9 |
| 2018 | 10.1007/s13399-018-0330-x | Bär, J., T. Phongpreecha, S. K. Singh, M. Kral Yilmaz, C. E. Foster, J. D. Crowe and D. B. Hodge | Deconstruction of hybrid poplar to monomeric sugars and aromatics using ethanol organosolv fractionation | Biomass Conversion and Biorefinery | 8(4) 813-824 |
| 2018 | 10.15252/msb.20188371 | Bassalo, M. C., A. D. Garst, A. Choudhury, W. C. Grau, E. J. Oh, E. Spindler, T. Lipscomb and R. T. Gill | Deep scanning lysine metabolism in Escherichia coli | Molecular Systems Biology | 14(11) e8371 |
| 2018 | 10.1371/journal.pone.0202519 | Tuskan, G. A., R. Mewalal, L. E. Gunter, K. J. Palla, K. Carter, et al. | Defining the genetic components of callus formation: A GWAS approach | PLoS One | 13(8) e0202519 |
| 2018 | 10.1186/s13068-018-1266-x | Russell, J., S. K. Kim, J. Duma, H. Nothaft, M. E. Himmel, Y. J. Bomble, C. M. Szymanski and J. Westpheling | Deletion of a single glycosyltransferase in Caldicellulosiruptor bescii eliminates protein glycosylation and growth on crystalline cellulose | Biotechnology for Biofuels | 11 259 |
| 2018 | 10.1007/s10295-018-2049-x | Groom, J., D. Chung, S. K. Kim, A. Guss and J. Westpheling | Deletion of the Clostridium thermocellum recA gene reveals that it is required for thermophilic plasmid replication but not plasmid integration at homologous DNA sequences | Journal of Industrial Microbiology and Biotechnology | 45(8) 753–63 |
| 2018 | 10.1039/c8gc00518d | Sundstrom, E., J. Yaegashi, J. P. Yan, F. Masson, G. Papa, et al. | Demonstrating a separation-free process coupling ionic liquid pretreatment, saccharification, and fermentation with Rhodosporidium toruloides to produce advanced biofuels | Green Chemistry | 20(12) 2870–9 |
| 2018 | 10.1371/journal.pbio.2003962 | Herrera Paredes, S., T. Gao, T. F. Law, O. M. Finkel, T. Mucyn, P. Teixeira, I. Salas Gonzalez, M. E. Feltcher, M. J. Powers, E. A. Shank, C. D. Jones, V. Jojic, J. L. Dangl and G. Castrillo | Design of synthetic bacterial communities for predictable plant phenotypes | PLoS Biology | 16(2) e2003962 |
| 2018 | 10.1126/science.aat8474 | Mirts, E. N., I. D. Petrik, P. Hosseinzadeh, M. J. Nilges and Y. Lu | A designed heme-[4Fe-4S] metalloenzyme catalyzes sulfite reduction like the native enzyme | Science | 361(6407) 1098–101 |
| 2018 | 10.1016/j.bpj.2018.02.024 | Vural, D., J. C. Smith and H. R. Glyde | Determination of Dynamical Heterogeneity from Dynamic Neutron Scattering of Proteins | Biophysical Journal | 114(10) 2397–407 |
| 2018 | 10.1186/s13068-018-1238-1 | Liang, X., J. M. Whitham, E. K. Holwerda, X. Shao, L. Tian, et al. | Development and characterization of stable anaerobic thermophilic methanogenic microbiomes fermenting switchgrass at decreasing residence times | Biotechnology for Biofuels | 11 243 |
| 2018 | 10.1021/acs.jctc.7b01236 | Pavlova, A., J. M. Parks and J. C. Gumbart | Development of CHARMM-Compatible Force-Field Parameters for Cobalamin and Related Cofactors from Quantum Mechanical Calculations | Journal of Chemical Theory and Computation | 14(2) 784–98 |
| 2018 | 10.1021/acssynbio.7b00287 | Kasey, C. M., M. Zerrad, Y. Li, T. A. Cropp and G. J. Williams | Development of Transcription Factor-Based Designer Macrolide Biosensors for Metabolic Engineering and Synthetic Biology | ACS Synthetic Biology | 7(1) 227–39 |
| 2018 | 10.1002/pld3.74 | McKinley, B. A., A. L. Casto, W. L. Rooney and J. E. Mullet | Developmental dynamics of stem starch accumulation in Sorghum bicolor | Plant Direct | 2(8) e00074 |
| 2018 | 10.1186/s12864-018-4964-7 | Yin, H., H. B. Guo, D. J. Weston, A. M. Borland, P. Ranjan, et al. | Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave | BMC Genomics | 19(1) 588 |
| 2018 | 10.1007/s10681-018-2137-z | Zhu, F., C. M. Wai, J. S. Zhang, T. C. Jones, C. Nagai and R. Ming | Differential expression of hormone related genes between extreme segregants of a Saccharum interspecific F2 population | Euphytica | 214(3) |
| 2018 | 10.1021/acssuschemeng.7b04908 | Wang, S. Z., W. W. Zhao, T. S. Lee, S. W. Singer, B. A. Simmons, S. Singh, Q. P. Yuan and G. Cheng | Dimethyl Sulfoxide Assisted Ionic Liquid Pretreatment of Switchgrass for Isoprenol Production | ACS Sustainable Chemistry & Engineering | 6(3) 4354–61 |
| 2018 | 10.1021/acschembio.8b00804 | Xu, Y. F., W. Lu, J. C. Chen, S. A. Johnson, P. A. Gibney, D. G. Thomas, G. Brown, A. L. May, S. R. Campagna, A. F. Yakunin, D. Botstein and J. D. Rabinowitz | Discovery and Functional Characterization of a Yeast Sugar Alcohol Phosphatase | ACS Chemical Biology | 13(10) 3011–20 |
| 2018 | 10.1038/s41589-018-0017-4 | Beller, H. R., A. V. Rodrigues, K. Zargar, Y. W. Wu, A. K. Saini, R. M. Saville, J. H. Pereira, P. D. Adams, S. G. Tringe, C. J. Petzold and J. D. Keasling | Discovery of enzymes for toluene synthesis from anoxic microbial communities | Nature Chemical Biology | 14(5) 451–7 |
| 2018 | 10.1186/s13068-018-1342-2 | Meadows, C. W., F. Mingardon, B. M. Garabedian, E. E. K. Baidoo, V. T. Benites, A. V. Rodrigues, R. Abourjeily, A. Chanal and T. S. Lee | Discovery of novel geranylgeranyl reductases and characterization of their substrate promiscuity | Biotechnology for Biofuels | 11 340 |
| 2018 | 10.1093/nar/gky041 | Gordon, G. C., J. C. Cameron and B. F. Pfleger | Distinct and redundant functions of three homologs of RNase III in the cyanobacterium Synechococcus sp. strain PCC 7002 | Nucleic Acids Research | 46(4) 1984-1997 |
| 2018 | 10.1111/tpj.13831 | Petzold, H. E., B. Chanda, C. Zhao, S. B. Rigoulot, E. P. Beers and A. M. Brunner | Divaricata and radilas interacting factor (DRIF) also interacts with WOX and KNOX proteins associated with wood formation in Populus trichocarpa | The Plant Journal | 93(6) 1076–87 |
| 2018 | 10.1111/gcbb.12533 | Zhang, Y. P., L. G. Oates, J. Serate, D. Xie, E. Pohlmann, et al. | Diverse lignocellulosic feedstocks can achieve high field-scale ethanol yields while providing flexibility for the biorefinery and landscape-level environmental benefits | GCB Bioenergy | 10(11) 825–40 |
| 2018 | 10.1016/j.copbio.2017.10.004 | Hittinger, C. T., J. L. Steele and D. S. Ryder | Diverse yeasts for diverse fermented beverages and foods | Current Opinion in Biotechnology | 49 199-206 |
| 2018 | 10.1186/s13068-018-1076-1 | Poudel, S., R. J. Giannone, M. Basen, I. Nookaew, F. L. Poole, 2nd, R. M. Kelly, M. W. W. Adams and R. L. Hettich | The diversity and specificity of the extracellular proteome in the cellulolytic bacterium Caldicellulosiruptor bescii is driven by the nature of the cellulosic growth substrate | Biotechnology for Biofuels | 11 80 |
| 2018 | 10.1111/1477-9552.12233 | Skevas, T., I. Skevas and S. M. Swinton | Does Spatial Dependence Affect the Intention to Make Land Available for Bioenergy Crops? | Journal of Agricultural Economics | 69(2) 393-412 |
| 2018 | 10.1111/tpj.13988 | Takeda, Y., Y. Tobimatsu, S. D. Karlen, T. Koshiba, S. Suzuki, M. Yamamura, S. Murakami, M. Mukai, T. Hattori, K. Osakabe, J. Ralph, M. Sakamoto and T. Umezawa | Downregulation of p-COUMAROYL ESTER 3-HYDROXYLASE in rice leads to altered cell wall structures and improves biomass saccharification | The Plant Journal | 95(5) 796–811 |
| 2018 | 10.1128/MRA.01040-18 | Walker, C., S. Ryu, H. Na, M. Zane, K. LaButti, A. Lipzen, S. Haridas, K. Barry, I. V. Grigoriev, J. Quarterman, P. Slininger, B. Dien and C. T. Trinh | Draft Genome Assemblies of Five Robust Yarrowia lipolytica Strains Exhibiting High Lipid Production, Pentose Sugar Utilization, and Sugar Alcohol Secretion from Undetoxified Lignocellulosic Biomass Hydrolysates | Microbiology Resource Announcements | 7(12) |
| 2018 | 10.1007/s00203-018-1490-6 | de los Santos-Villalobos, S., J. M. Kremer, F. I. Parra-Cota, A. C. Hayano-Kanashiro, L. F. García-Ortega, S. K. Gunturu, J. M. Tiedje, S. Y. He and J. J. Peña-Cabriales | Draft genome of the fungicidal biological control agent Burkholderia anthina strain XXVI | Archives of Microbiology | 200(5) 803-810 |
| 2018 | 10.1128/genomeA.01452-17 | Pold, G., M. Huntemann, M. Pillay, N. Mikhailova, D. Stamatis, T. B. K. Reddy, C. Daum, N. Shapiro, N. Kyrpides, T. Woyke and K. M. DeAngelis | Draft Genome Sequences of Three Strains of a Novel Rhizobiales Species Isolated from Forest Soil | Genome Announcements | 6(5) |
| 2018 | 10.1073/pnas.1717308115 | Xu, L., D. Naylor, Z. Dong, T. Simmons, G. Pierroz, et al. | Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria | Proceedings of the National Academy of Sciences of the United States of America | 115(18) E4284–93 |
| 2018 | 10.15252/msb.20188605 | Moser, F., A. Espah Borujeni, A. N. Ghodasara, E. Cameron, Y. Park and C. A. Voigt | Dynamic control of endogenous metabolism with combinatorial logic circuits | Molecular Systems Biology | 14(11) e8605 |
| 2018 | 10.1016/j.ymben.2018.07.003 | Guo, L., P. Wang, R. Jaini, N. Dudareva, C. Chapple and J. A. Morgan | Dynamic modeling of subcellular phenylpropanoid metabolism in Arabidopsis lignifying cells | Metabolic Engineering | 49 36–46 |
| 2018 | 10.1146/annurev-biophys-070317-033358 | Smith, J. C., P. Tan, L. Petridis and L. Hong | Dynamic Neutron Scattering by Biological Systems | Annual Review of Biophysics | 47 335–54 |
| 2018 | 10.1038/s41564-018-0129-3 | Zhalnina, K., K. B. Louie, Z. Hao, N. Mansoori, U. N. da Rocha, S. Shi, H. Cho, U. Karaoz, D. Loque, B. P. Bowen, M. K. Firestone, T. R. Northen and E. L. Brodie | Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly | Nature Microbiology | 3(4) 470–80 |
| 2018 | 10.3389/fmicb.2018.00853 | Noirot-Gros, M. F., S. Shinde, P. E. Larsen, S. Zerbs, P. J. Korajczyk, K. M. Kemner and P. H. Noirot | Dynamics of Aspen Roots Colonization by Pseudomonads Reveals Strain-Specific and Mycorrhizal-Specific Patterns of Biofilm Formation | Frontiers in Microbiology | 9 853 |
| 2018 | 10.1039/c8cp03144d | Vural, D., J. C. Smith and L. Petridis | Dynamics of the lignin glass transition | Physical Chemistry Chemical Physics | 20(31) 20504–12 |
| 2018 | 10.1016/j.agrformet.2018.02.016 | Abraha, M., S. K. Hamilton, J. Q. Chen and G. P. Robertson | Ecosystem carbon exchange on conversion of Conservation Reserve Program grasslands to annual and perennial cropping systems | Agricultural and Forest Meteorology | 253 151–60 |
| 2018 | 10.3791/57170 | Gao, J., J. Sasse, K. M. Lewald, K. Zhalnina, L. T. Cornmesser, T. A. Duncombe, Y. Yoshikuni, J. P. Vogel, M. K. Firestone and T. R. Northen | Ecosystem Fabrication (EcoFAB) Protocols for The Construction of Laboratory Ecosystems Designed to Study Plant-Microbe Interactions | Journal of Visualized Experiments | (134) e57170 |
| 2018 | 10.1111/nph.15113 | Zhang, F., G. E. Anasontzis, A. Labourel, C. Champion, M. Haon, et al. | The ectomycorrhizal basidiomycete Laccaria bicolor releases a secreted beta-1,4 endoglucanase that plays a key role in symbiosis development | New Phytologist | 220(4) 1309–21 |
| 2018 | 10.1104/pp.18.00200 | Li, A., S. Jia, A. Yobi, Z. Ge, S. J. Sato, C. Zhang, R. Angelovici, T. E. Clemente and D. R. Holding | Editing of an Alpha-Kafirin Gene Family Increases, Digestibility and Protein Quality in Sorghum | Plant Physiology | 177(4) 1425–38 |
| 2018 | 10.3389/fenrg.2018.00118 | Ragauskas, A. J. and C. G. Yoo | Editorial: Advancements in Biomass Recalcitrance: The Use of Lignin for the Production of Fuels and Chemicals | Frontiers in Energy Research | 6 |
| 2018 | 10.1016/j.soilbio.2018.08.024 | Ouyang, Y., S. E. Evans, M. L. Friesen and L. K. Tiemann | Effect of nitrogen fertilization on the abundance of nitrogen cycling genes in agricultural soils: A meta-analysis of field studies | Soil Biology and Biochemistry | 127 71–8 |
| 2018 | 10.1039/c7cp07126d | Johnson, Q. R., B. Mostofian, G. Fuente Gomez, J. C. Smith and X. Cheng | Effects of carotenoids on lipid bilayers | Physical Chemistry Chemical Physics | 20(5) 3795–804 |
| 2018 | 10.1007/s11104-017-3497-1 | Bowsher, A. W., S. Evans, L. K. Tiemann and M. L. Friesen | Effects of soil nitrogen availability on rhizodeposition in plants: a review | Plant and Soil | 423(1–2) 59–85 |
| 2018 | 10.1007/s00122-017-3033-y | Fernandes, S. B., K. O. G. Dias, D. F. Ferreira and P. J. Brown | Efficiency of multi-trait, indirect, and trait-assisted genomic selection for improvement of biomass sorghum | Theoretical and Applied Genetics | 131(3) 747–55 |
| 2018 | 10.1039/c7gc03459h | Kent, M. S., J. J. Zeng, N. Rader, I. C. Avina, C. T. Simoes, C. K. Brenden, M. L. Busse, J. Watt, N. H. Giron, T. M. Alam, M. D. Allendorf, B. A. Simmons, N. S. Bell and K. L. Sale | Efficient conversion of lignin into a water-soluble polymer by a chelator-mediated Fenton reaction: optimization of H2O2 use and performance as a dispersant | Green Chemistry | 20(13) 3024–37 |
| 2018 | 10.1002/bbb.1899 | Kim, S., X. S. Zhang, B. E. Dale, A. D. Reddy, C. D. Jones and R. C. Izaurralde | EISA (Energy Independence and Security Act) compliant ethanol fuel from corn stover in a depot-based decentralized system | Biofuels, Bioproducts and Biorefining | 12(5) 873–81 |
| 2018 | 10.1021/acscatal.8b01640 | Rafiee, M., Z. M. Konz, M. D. Graaf, H. F. Koolman and S. S. Stahl | Electrochemical Oxidation of Alcohols and Aldehydes to Carboxylic Acids Catalyzed by 4-Acetamido-TEMPO: An Alternative to "anelli" and "pinnick" Oxidations | ACS Catalysis | 8(7) 6738-6744 |
| 2018 | 10.1111/nph.15258 | Gallego-Giraldo, L., S. Pose, S. Pattathil, A. G. Peralta, M. G. Hahn, B. G. Ayre, J. Sunuwar, J. Hernandez, M. Patel, J. Shah, X. Rao, J. P. Knox and R. A. Dixon | Elicitors and defense gene induction in plants with altered lignin compositions | New Phytologist | 219(4) 1235–51 |
| 2018 | 10.1016/j.chom.2018.09.005 | Levy, A., J. M. Conway, J. L. Dangl and T. Woyke | Elucidating Bacterial Gene Functions in the Plant Microbiome | Cell Host & Microbe | 24(4) 475–85 |
| 2018 | 10.3389/fpls.2018.01406 | Li, J., Y. Shi, A. N. Veeranampalayam-Sivakumar and D. P. Schachtman | Elucidating Sorghum Biomass, Nitrogen and Chlorophyll Contents With Spectral and Morphological Traits Derived From Unmanned Aircraft System | Frontiers in Plant Science | 9 1406 |
| 2018 | 10.1093/synbio/ysy006 | Garcia, D. C., B. P. Mohr, J. T. Dovgan, G. B. Hurst, R. F. Standaert and M. J. Doktycz | Elucidating the potential of crude cell extracts for producing pyruvate from glucose | Synthetic Biology | 3(1) ysy006 |
| 2018 | 10.1039/c7gc03239k | Bouxin, F. P., H. Strub, T. Dutta, J. Aguilhon, T. J. Morgan, F. Mingardon, M. Konda, S. Singh, B. Simmons and A. George | Elucidating transfer hydrogenation mechanisms in non-catalytic lignin depolymerization | Green Chemistry | 20(15) 3566–80 |
| 2018 | 10.3390/polym10080916 | Lan, W., F. Yue, J. Rencoret, J. C. Del Rio, W. Boerjan, F. Lu and J. Ralph | Elucidating Tricin-Lignin Structures: Assigning Correlations in HSQC Spectra of Monocot Lignins | Polymers | 10(8) |
| 2018 | 10.1186/s13068-018-1095-y | Whitham, J. M., J. W. Moon, M. Rodriguez, Jr., N. L. Engle, D. M. Klingeman, T. Rydzak, M. M. Abel, T. J. Tschaplinski, A. M. Guss and S. D. Brown | Clostridium thermocellum LL1210 pH homeostasis mechanisms informed by transcriptomics and metabolomics | Biotechnology for Biofuels | 11 98 |
| 2018 | 10.1038/nbt.4173 | Palluk, S., D. H. Arlow, T. de Rond, S. Barthel, J. S. Kang, R. Bector, H. M. Baghdassarian, A. N. Truong, P. W. Kim, A. K. Singh, N. J. Hillson and J. D. Keasling | De novo DNA synthesis using polymerase-nucleotide conjugates | Nature Biotechnology | 36(7) 645–50 |
| 2018 | 10.1128/AEM.00404-18 | McCully, A. L., M. G. Behringer, J. R. Gliessman, E. V. Pilipenko, J. L. Mazny, M. Lynch, D. A. Drummond and J. B. McKinlay | An Escherichia coli Nitrogen Starvation Response Is Important for Mutualistic Coexistence with Rhodopseudomonas palustris | Applied and Environmental Microbiology | 84(14) |
| 2018 | 10.3389/fenrg.2018.00053 | Coffman, P., N. McCaffrey, J. Gardner, S. Bhagia, R. Kumar, C. E. Wyman and D. Tanjore | In Situ Rheological Method to Evaluate Feedstock Physical Properties Throughout Enzymatic Deconstruction | Frontiers in Energy Research | 6 |
| 2018 | 10.3389/fenvs.2018.00065 | Couradeau, E., V. J. M. N. L. Felde, D. Parkinson, D. Uteau, A. Rochet, C. Cuellar, G. Winegar, S. Peth, T. R. Northen and F. Garcia-Pichel | In Situ X-Ray Tomography Imaging of Soil Water and Cyanobacteria From Biological Soil Crusts Undergoing Desiccation | Frontiers in Environmental Science | 6 |
| 2018 | 10.1074/jbc.RA117.001268 | Kontur, W. S., C. A. Bingman, C. N. Olmsted, D. R. Wassarman, A. Ulbrich, D. L. Gall, R. W. Smith, L. M. Yusko, B. G. Fox, D. R. Noguera, J. J. Coon and T. J. Donohue | Novosphingobium aromaticivorans uses a Nu-class glutathione S-transferase as a glutathione lyase in breaking the β-aryl ether bond of lignin | Journal of Biological Chemistry | 293(14) 4955–68 |
| 2018 | 10.1186/s40168-018-0413-8 | Cregger, M. A., A. M. Veach, Z. K. Yang, M. J. Crouch, R. Vilgalys, G. A. Tuskan and C. W. Schadt | The Populus holobiont: dissecting the effects of plant niches and genotype on the microbiome | Microbiome | 6(1) 31 |
| 2018 | 10.1111/tpj.13781 | McCormick, R. F., S. K. Truong, A. Sreedasyam, J. Jenkins, S. Shu, et al. | The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization | The Plant Journal | 93(2) 338–54 |
| 2018 | 10.1111/tpj.14067 | Stranne, M., Y. Ren, L. Fimognari, D. Birdseye, J. Yan, M. Bardor, J. C. Mollet, T. Komatsu, J. Kikuchi, H. V. Scheller and Y. Sakuragi | TBL10 is required for O-acetylation of pectic rhamnogalacturonan-I in Arabidopsis thaliana | The Plant Journal | 96(4) 772–85 |
| 2018 | 10.1111/pbi.12898 | Lim, S. D., W. C. Yim, D. Liu, R. Hu, X. Yang and J. C. Cushman | A Vitis vinifera basic helix-loop-helix transcription factor enhances plant cell size, vegetative biomass and reproductive yield | Plant Biotechnology Journal | 16(9) 1595–615 |
| 2018 | 10.1111/1462-2920.14405 | Chase, A. B., Z. Gomez-Lunar, A. E. Lopez, J. Li, S. D. Allison, A. C. Martiny and J. B. H. Martiny | Emergence of soil bacterial ecotypes along a climate gradient | Environmental Microbiology | 20(11) 4112–26 |
| 2018 | 10.1126/science.aat1168 | Goldford, J. E., N. Lu, D. Bajić, S. Estrela, M. Tikhonov, A. Sanchez-Gorostiaga, D. Segrè, P. Mehta and A. Sanchez | Emergent simplicity in microbial community assembly | Science | 361(6401) 469-474 |
| 2018 | 10.1039/c7em00533d | Kanzler, C. R., P. Lian, E. L. Trainer, X. Yang, N. Govind, J. M. Parks and A. M. Graham | Emerging investigator series: methylmercury speciation and dimethylmercury production in sulfidic solutions | Environmental Science: Processes & Impacts | 20(4) 584–94 |
| 2018 | 10.1038/nchembio.2552 | Hsu, T. M., D. H. Welner, Z. N. Russ, B. Cervantes, R. L. Prathuri, P. D. Adams and J. E. Dueber | Employing a biochemical protecting group for a sustainable indigo dyeing strategy | Nature Chemical Biology | 14(3) 256–61 |
| 2018 | 10.1002/bit.26569 | Lian, J., Z. Bao, S. Hu and H. Zhao | Engineered CRISPR/Cas9 system for multiplex genome engineering of polyploid industrial yeast strains | Biotechnology and Bioengineering | 115(6) 1630–5 |
| 2018 | 10.1021/acssuschemeng.7b02067 | Bhalla, A., N. Bansal, S. Pattathil, M. Li, W. Shen, et al. | Engineered Lignin in Poplar Biomass Facilitates Cu-Catalyzed Alkaline-Oxidative Pretreatment | ACS Sustainable Chemistry and Engineering | 6(3) 1932-1941 |
| 2018 | 10.1016/j.ymben.2018.09.002 | Kim, S. K. and J. Westpheling | Engineering a spermidine biosynthetic pathway in Clostridium thermocellum results in increased resistance to furans and increased ethanol production | Metabolic Engineering | 49 267–74 |
| 2018 | 10.1186/s13068-018-1104-1 | Hwang, H. J., S. Y. Lee and P. C. Lee | Engineering and application of synthetic nar promoter for fine-tuning the expression of metabolic pathway genes in Escherichia coli | Biotechnology for Biofuels | 11 103 |
| 2018 | 10.1107/S2059798318006678 | Ellinghaus, T. L., J. H. Pereira, R. P. McAndrew, D. H. Welner, A. M. DeGiovanni, J. M. Guenther, H. M. Tran, T. Feldman, B. A. Simmons, K. L. Sale and P. D. Adams | Engineering glycoside hydrolase stability by the introduction of zinc binding | Acta Crystallographica Section D Structural Biology | 74(Part 7) 702–10 |
| 2018 | 10.1073/pnas.1715137115 | Kunjapur, A. M., D. A. Stork, E. Kuru, O. Vargas-Rodriguez, M. Landon, D. Soll and G. M. Church | Engineering posttranslational proofreading to discriminate nonstandard amino acids | Proceedings of the National Academy of Sciences of the United States of America | 115(3) 619–24 |
| 2018 | 10.1016/j.tibtech.2017.10.013 | Park, Y. K., J. M. Nicaud and R. Ledesma-Amaro | The Engineering Potential of Rhodosporidium toruloides as a Workhorse for Biotechnological Applications | Trends in Biotechnology | 36(3) 304–17 |
| 2018 | 10.1016/j.mec.2018.e00073 | Williams-Rhaesa, A. M., G. M. Rubinstein, I. M. Scott, G. L. Lipscomb, F. L. Poole Ii, R. M. Kelly and M. W. W. Adams | Engineering redox-balanced ethanol production in the cellulolytic and extremely thermophilic bacterium, Caldicellulosiruptor bescii | Metabolic Engineering Communications | 7 e00073 |
| 2018 | 10.1002/cssc.201801506 | Sener, C., A. H. Motagamwala, D. M. Alonso and J. A. Dumesic | Enhanced Furfural Yields from Xylose Dehydration in the γ-Valerolactone/Water Solvent System at Elevated Temperatures | ChemSusChem | 11(14) 2266 |
| 2018 | 10.1002/cssc.201800730 | Sener, C., A. H. Motagamwala, D. M. Alonso and J. A. Dumesic | Enhanced Furfural Yields from Xylose Dehydration in the Γ-Valerolactone/Water Solvent System at Elevated Temperatures | ChemSusChem | 11(14) 2321-2331 |
| 2018 | 10.1093/bioinformatics/btx564 | Mendoza, B. J. and C. T. Trinh | Enhanced guide-RNA design and targeting analysis for precise CRISPR genome editing of single and consortia of industrially relevant and non-model organisms | Bioinformatics | 34(1) 16–23 |
| 2018 | 10.1186/s13068-018-1172-2 | Du, Z. Y., J. Alvaro, B. Hyden, K. Zienkiewicz, N. Benning, A. Zienkiewicz, G. Bonito and C. Benning | Enhancing oil production and harvest by combining the marine alga Nannochloropsis oceanica and the oleaginous fungus Mortierella elongata | Biotechnology for Biofuels | 11 174 |
| 2018 | 10.1002/cppb.20078 | Pingault, L., P. Zogli, J. Brooks and M. Libault | Enhancing Phenotyping and Molecular Analysis of Plant Root System Using Ultrasound Aeroponic Technology | Current Protocols in Chemical Biology | 3(4) e20078 |
| 2018 | 10.1111/cbdd.13110 | Velazquez, H. A., D. Riccardi, Z. Xiao, L. D. Quarles, C. R. Yates, J. Baudry and J. C. Smith | Ensemble docking to difficult targets in early-stage drug discovery: Methodology and application to fibroblast growth factor 23 | Chemical Biology & Drug Design | 91(2) 491–504 |
| 2018 | 10.1021/acssynbio.8b00222 | Wiegand, D. J., H. H. Lee, N. Ostrov and G. M. Church | Establishing a Cell-Free Vibrio natriegens Expression System | ACS Synthetic Biology | 7(10) 2475–9 |
| 2018 | 10.1007/s11240-018-1389-6 | Yoo, J. H., E. S. Seong, B. K. Ghimire, K. Heo, X. Jin, T. Yamada, L. V. Clark, E. J. Sacks and C. Y. Yu | Establishment of Miscanthus sinensis with decreased lignin biosynthesis by Agrobacterium-mediated transformation using antisense COMT gene | Plant Cell, Tissue and Organ Culture | 133(3) 359–69 |
| 2018 | 10.1002/ecs2.2090 | Koch, B. J., T. A. McHugh, M. Hayer, E. Schwartz, S. J. Blazewicz, P. Dijkstra, N. van Gestel, J. C. Marks, R. L. Mau, E. M. Morrissey, J. Pett-Ridge and B. A. Hungate | Estimating taxon-specific population dynamics in diverse microbial communities | Ecosphere | 9(1) |
| 2018 | 10.5194/bg-15-3873-2018 | Haslun, J. A., N. E. Ostrom, E. L. Hegg and P. H. Ostrom | Estimation of isotope variation of N2O during denitrification by Pseudomonas aureofaciens and Pseudomonas chlororaphis: Implications for N2O source apportionment | Biogeosciences | 15(12) 3873-3882 |
| 2018 | 10.3390/en11112921 | Kurambhatti, C. V., D. Kumar, K. D. Rausch, M. E. Tumbleson and V. Singh | Ethanol Production from Corn Fiber Separated after Liquefaction in the Dry Grind Process | Energies | 11(11) |
| 2018 | 10.1186/s13068-018-1130-z | Mokomele, T., L. Da Costa Sousa, V. Balan, E. Van Rensburg, B. E. Dale and J. F. Görgens | Ethanol production potential from AFEX™ and steam-exploded sugarcane residues for sugarcane biorefineries | Biotechnology for Biofuels | 11(1) |
| 2018 | 10.1093/molbev/msx302 | Zhou, X., X. X. Shen, C. T. Hittinger and A. Rokas | Evaluating fast maximum likelihood-based phylogenetic programs using empirical phylogenomic data sets | Molecular Biology and Evolution | 35(2) 486-503 |
| 2018 | 10.1007/s10533-018-0489-z | Hagerty, S. B., S. D. Allison and J. P. Schimel | Evaluating soil microbial carbon use efficiency explicitly as a function of cellular processes: implications for measurements and models | Biogeochemistry | 140(3) 269–83 |
| 2018 | 10.1021/acs.jafc.8b01618 | Lapierre, C., A. Voxeur, S. D. Karlen, R. F. Helm and J. Ralph | Evaluation of Feruloylated and p-Coumaroylated Arabinosyl Units in Grass Arabinoxylans by Acidolysis in Dioxane/Methanol | Journal of Agricultural and Food Chemistry | 66(21) 5418–24 |
| 2018 | 10.1002/hyp.11447 | Hamilton, S. K., M. Z. Hussain, C. Lowrie, B. Basso and G. P. Robertson | Evapotranspiration is resilient in the face of land cover and climate change in a humid temperate catchment | Hydrological Processes | 32(5) 655–63 |
| 2018 | 10.7554/eLife.33034 | Gonçalves, C., J. H. Wisecaver, J. Kominek, M. Salema Oom, M. J. Leandro, X. X. Shen, D. A. Opulente, X. Zhou, D. Peris, C. P. Kurtzman, C. T. Hittinger, A. Rokas and P. Gonçalves | Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage | eLife | 7 |
| 2018 | 10.1128/JB.00020-18 | Corzett, C. H., J. Elsherbini, D. M. Chien, J. H. Hehemann, A. Henschel, S. P. Preheim, X. Yu, E. J. Alm and M. F. Polz | Evolution of a Vegetarian Vibrio: Metabolic Specialization of Vibrio breoganii to Macroalgal Substrates | Journal of Bacteriology | 200(15) |
| 2018 | 10.1073/pnas.1810949115 | Harcombe, W. R., J. M. Chacon, E. M. Adamowicz, L. M. Chubiz and C. J. Marx | Evolution of bidirectional costly mutualism from byproduct consumption | Proceedings of the National Academy of Sciences of the United States of America | 115(47) 12000–4 |
| 2018 | 10.1080/10409238.2018.1431201 | Wang, Y., H. Ren and H. Zhao | Expanding the boundary of biocatalysis: design and optimization of in vitro tandem catalytic reactions for biochemical production | Critical Reviews in Biochemistry and Molecular Biology | 53(2) 115–29 |
| 2018 | 10.1128/mSystems.00045-18 | Blair, P. M., M. L. Land, M. J. Piatek, D. A. Jacobson, T. S. Lu, M. J. Doktycz and D. A. Pelletier | Exploration of the Biosynthetic Potential of the Populus Microbiome | mSystems | 3(5) |
| 2018 | 10.1042/BST20170272 | Wang, L., C. Y. Ng, S. Dash and C. D. Maranas | Exploring the combinatorial space of complete pathways to chemicals | Biochemical Society Transactions | 46(3) 513–22 |
| 2018 | 10.1186/s12864-017-4393-z | Ullah, F., M. Hamilton, A. S. N. Reddy and A. Ben-Hur | Exploring the relationship between intron retention and chromatin accessibility in plants | BMC Genomics | 19(1) 21 |
| 2018 | 10.1002/ecs2.2524 | Rogers, T. J., C. Leppanen, V. Brown, J. A. Fordyce, A. LeBude, T. Ranney, D. Simberloff and M. A. Cregger | Exploring variation in phyllosphere microbial communities across four hemlock species | Ecosphere | 9(12) |
| 2018 | 10.1186/s13068-018-1245-2 | Hon, S., E. K. Holwerda, R. S. Worthen, M. I. Maloney, L. Tian, J. Cui, P. P. Lin, L. R. Lynd and D. G. Olson | Expressing the Thermoanaerobacterium saccharolyticum pforA in engineered Clostridium thermocellum improves ethanol production | Biotechnology for Biofuels | 11 242 |
| 2018 | 10.1128/AEM.02348-17 | Kim, S. K., M. E. Himmel, Y. J. Bomble and J. Westpheling | Expression of a Cellobiose Phosphorylase from Thermotoga maritima in Caldicellulosiruptor bescii Improves the Phosphorolytic Pathway and Results in a Dramatic Increase in Cellulolytic Activity | Applied and Environmental Microbiology | 84(3) |
| 2018 | 10.1186/s13068-018-1224-7 | Xiao, Y., X. He, Y. Ojeda-Lassalle, C. Poovaiah and H. D. Coleman | Expression of a hyperthermophilic endoglucanase in hybrid poplar modifies the plant cell wall and enhances digestibility | Biotechnology for Biofuels | 11 225 |
| 2018 | 10.1186/s12934-018-0866-2 | Wei, Y., D. Bergenholm, M. Gossing, V. Siewers and J. Nielsen | Expression of cocoa genes in Saccharomyces cerevisiae improves cocoa butter production | Microbial Cell Factories | 17(1) 11 |
| 2018 | 10.3835/plantgenome2017.06.0055 | Evans, J., M. D. Sanciangco, K. H. Lau, E. Crisovan, K. Barry, et al. | Extensive genetic diversity is present within north American Switchgrass Germplasm | Plant Genome | 11(1) |
| 2018 | 10.1002/ente.201700626 | Tompsett, G. A., J. T. Boock, C. DiSpirito, E. Stolz, D. R. Knutson, A. G. Rivard, M. R. Overdevest, C. N. Conlon, K. L. J. Prather, J. R. Thompson and M. T. Timko | Extraction Rate and Energy Efficiency of Supercritical Carbon Dioxide Recovery of Higher Alcohols from Dilute Aqueous Solution | Energy Technology | 6(4) 683–93 |
| 2018 | 10.1186/s12915-018-0498-3 | Opulente, D. A., E. J. Rollinson, C. Bernick-Roehr, A. B. Hulfachor, A. Rokas, C. P. Kurtzman and C. T. Hittinger | Factors driving metabolic diversity in the budding yeast subphylum | BMC Biology | 16(1) 26 |
| 2018 | 10.1021/acssuschemeng.7b04546 | Wang, Y. Y., M. Li, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Fast Fractionation of Technical Lignins by Organic Cosolvents | ACS Sustainable Chemistry & Engineering | 6(5) 6064–72 |
| 2018 | 10.1186/s12934-018-0863-5 | Lei, C., J. Wang, Y. Liu, X. Liu, G. Zhao and J. Wang | A feedback regulatory model for RifQ-mediated repression of rifamycin export in Amycolatopsis mediterranei | Microbial Cell Factories | 17(1) 14 |
| 2018 | 10.5194/bg-15-2219-2018 | Jose, N. A., R. Lau, T. L. Swenson, N. Klitgord, F. Garcia-Pichel, B. P. Bowen, R. Baran and T. R. Northen | Flux balance modeling to predict bacterial survival during pulsed-activity events | Biogeosciences | 15(7) 2219–29 |
| 2018 | 10.1007/s00253-017-8717-3 | Reilly, M. C., J. Kim, J. Lynn, B. A. Simmons, J. M. Gladden, J. K. Magnuson and S. E. Baker | Forward genetics screen coupled with whole-genome resequencing identifies novel gene targets for improving heterologous enzyme production in Aspergillus niger | Applied Microbiology and Biotechnology | 102(4) 1797–807 |
| 2018 | 10.1186/s13068-018-1305-7 | Li, W., K. Amos, M. Li, Y. Pu, S. Debolt, A. J. Ragauskas and J. Shi | Fractionation and characterization of lignin streams from unique high-lignin content endocarp feedstocks | Biotechnology for Biofuels | 11 304 |
| 2018 | 10.1002/bit.26779 | Wu, W., M. R. Long, X. Zhang, J. L. Reed and C. T. Maravelias | A framework for the identification of promising bio-based chemicals | Biotechnology and Bioengineering | 115(9) 2328–40 |
| 2018 | 10.1007/978-3-319-93594-2_10 | Borland, A. M., A. Leverett, N. Hurtado-Castano, R. Hu and X. Yang | Functional Anatomical Traits of the Photosynthetic Organs of Plants with Crassulacean Acid Metabolism | The Leaf: A Platform for Performing Photosynthesis | 44 281–305 |
| 2018 | 10.1073/pnas.1806268115 | Krause, D. J., J. Kominek, D. A. Opulente, X. X. Shen, X. Zhou, Q. K. Langdon, J. DeVirgilio, A. B. Hulfachor, C. P. Kurtzman, A. Rokas and C. T. Hittinger | Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts | Proceedings of the National Academy of Sciences of the United States of America | 115(43) 11030–5 |
| 2018 | 10.7554/eLife.32110 | Coradetti, S. T., D. Pinel, G. M. Geiselman, M. Ito, S. J. Mondo, M. C. Reilly, Y. F. Cheng, S. Bauer, I. V. Grigoriev, J. M. Gladden, B. A. Simmons, R. B. Brem, A. P. Arkin and J. M. Skerker | Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides | eLife | 7 |
| 2018 | 10.1016/j.copbio.2017.09.003 | Yang, Y. and C. Benning | Functions of triacylglycerols during plant development and stress | Current Opinion in Biotechnology | 49 191-198 |
| 2018 | 10.1074/jbc.RA117.001153 | Houtman, C. J., E. Maligaspe, C. G. Hunt, E. Fernández-Fueyo, A. T. Martínez and K. E. Hammel | Fungal lignin peroxidase does not produce the veratryl alcohol cation radical as a diffusible ligninolytic oxidant | Journal of Biological Chemistry | 293(13) 4702-4712 |
| 2018 | 10.1002/smll.201803315 | Li, M., M. van Zee, C. T. Riche, B. Tofig, S. D. Gallaher, S. S. Merchant, R. Damoiseaux, K. Goda and D. Di Carlo | A Gelatin Microdroplet Platform for High-Throughput Sorting of Hyperproducing Single-Cell-Derived Microalgal Clones | Small | 14(44) |
| 2018 | 10.1371/journal.pone.0208560 | Dash, M., Y. S. Yordanov, T. Georgieva, H. Wei and V. Busov | Gene network analysis of poplar root transcriptome in response to drought stress identifies a PtaJAZ3PtaRAP2.6-centered hierarchical network | PLoS One | 13(12) e0208560 |
| 2018 | 10.1111/tpj.14049 | Hoang, P. N. T., T. P. Michael, S. Gilbert, P. Chu, S. T. Motley, K. J. Appenroth, I. Schubert and E. Lam | Generating a high-confidence reference genome map of the Greater Duckweed by integration of cytogenomic, optical mapping, and Oxford Nanopore technologies | Plant Journal | 96(3) 670-684 |
| 2018 | 10.1007/s00294-018-0835-7 | Sardi, M. and A. P. Gasch | Genetic background effects in quantitative genetics: gene-by-system interactions | Current Genetics | 64(6) 1173–6 |
| 2018 | 10.1038/s41598-018-21741-y | Hu, Z., G. Zhang, A. Muhammad, R. A. Samad, Y. Wang, J. D. Walton, Y. He, L. Peng and L. Wang | Genetic loci simultaneously controlling lignin monomers and biomass digestibility of rice straw | Scientific Reports | 8(1) |
| 2018 | 10.1111/gcbb.12472 | Dong, H. X., S. Y. Liu, L. V. Clark, S. Sharma, J. M. Gifford, J. A. Juvik, A. E. Lipka and E. J. Sacks | Genetic mapping of biomass yield in three interconnected Miscanthus populations | GCB Bioenergy | 10(3) 165–85 |
| 2018 | 10.3389/fpls.2018.01732 | Bewg, W. P., D. Ci and C. J. Tsai | Genome Editing in Trees: From Multiple Repair Pathways to Long-Term Stability | Frontiers in Plant Science | 9 1732 |
| 2018 | 10.1128/genomeA.00581-18 | Cook, L. E., S. S. Gang, A. Ihlan, M. Maune, R. S. Tanner, M. J. McInerney, G. Weinstock, E. A. Lobos and R. P. Gunsalus | Genome Sequence of Acetomicrobium hydrogeniformans OS1 | Genome Announcements | 6(26) |
| 2018 | 10.1128/genomeA.01451-17 | Pold, G., E. M. Conlon, M. Huntemann, M. Pillay, N. Mikhailova, D. Stamatis, T. B. K. Reddy, C. Daum, N. Shapiro, N. Kyrpides, T. Woyke and K. M. DeAngelis | Genome Sequence of Verrucomicrobium sp. Strain GAS474, a Novel Bacterium Isolated from Soil | Genome Announcements | 6(4) |
| 2018 | 10.1094/Pbiomes-04-17-0017-A | Ray, P., M. H. Chi, Y. Q. Guo, C. D. Chen, C. Adam, A. Kuo, K. LaButti, A. Lipzen, K. W. Barry, I. V. Grigoriev, Y. H. Tang and K. D. Craven | Genome Sequence of the Plant Growth Promoting Fungus Serendipita vermifera subsp. bescii: The First Native Strain from North America | Phytobiomes Journal | 2(2) 62–3 |
| 2018 | 10.1038/s41586-018-0338-1 | Woodcroft, B. J., C. M. Singleton, J. A. Boyd, P. N. Evans, J. B. Emerson, et al. | Genome-centric view of carbon processing in thawing permafrost | Nature | 560(7716) 49–54 |
| 2018 | 10.1038/nbt.4132 | Bao, Z., M. HamediRad, P. Xue, H. Xiao, I. Tasan, R. Chao, J. Liang and H. Zhao | Genome-scale engineering of Saccharomyces cerevisiae with single-nucleotide precision | Nature Biotechnology | 36(6) 505–8 |
| 2018 | 10.1371/journal.pgen.1007217 | Sardi, M., V. Paithane, M. Place, D. E. Robinson, J. Hose, D. J. Wohlbach and A. P. Gasch | Genome-wide association across Saccharomyces cerevisiae strains reveals substantial variation in underlying gene requirements for toxin tolerance | PLoS Genetics | 14(2) |
| 2018 | 10.3835/plantgenome2017.11.0099 | Cuevas, H. E., L. K. Prom, E. A. Cooper, J. E. Knoll and X. Ni | Genome-Wide Association Mapping of Anthracnose (Colletotrichum sublineolum) Resistance in the U.S. Sorghum Association Panel | Plant Genome | 11(2) |
| 2018 | 10.1111/nph.15297 | Zhang, J., Y. Yang, K. Zheng, M. Xie, K. Feng, et al. | Genome-wide association studies and expression-based quantitative trait loci analyses reveal roles of HCT2 in caffeoylquinic acid biosynthesis and its regulation by defense-responsive transcription factors in Populus | New Phytologist | 220(2) 502–16 |
| 2018 | 10.3389/fpls.2018.01250 | Taylor, M., C. E. Tornqvist, X. Zhao, P. Grabowski, R. Doerge, J. Ma, J. Volenec, J. Evans, G. P. Ramstein, M. D. Sanciangco, C. R. Buell, M. D. Casler and Y. Jiang | Genome-Wide Association Study in Pseudo-F2 Populations of Switchgrass Identifies Genetic Loci Affecting Heading and Anthesis Dates | Frontiers in Plant Science | 9 1250 |
| 2018 | 10.3390/genes9080379 | diCenzo, G. C., K. Debiec, J. Krzysztoforski, W. Uhrynowski, A. Mengoni, C. Fagorzi, A. Gorecki, L. Dziewit, T. Bajda, G. Rzepa and L. Drewniak | Genomic and Biotechnological Characterization of the Heavy-Metal Resistant, Arsenic-Oxidizing Bacterium Ensifer sp. M14 | Genes | 9(8) |
| 2018 | 10.1038/s41467-018-07669-x | Lovell, J. T., J. Jenkins, D. B. Lowry, S. Mamidi, A. Sreedasyam, et al. | The genomic landscape of molecular responses to natural drought stress in Panicum hallii | Nature Communications | 9(1) 5213 |
| 2018 | 10.1016/j.fgb.2016.08.004 | Presley, G. N., J. Zhang and J. S. Schilling | A genomics-informed study of oxalate and cellulase regulation by brown rot wood-degrading fungi | Fungal Genetics and Biology | 112 64–70 |
| 2018 | 10.1534/g3.118.200677 | Sardi, M., M. Krause, J. Heilberger and A. P. Gasch | Genotype-by-Environment-by-Environment Interactions in the Saccharomyces cerevisiae Transcriptomic Response to Alcohols and Anaerobiosis | G3 Genes|Genomes|Genetics | 8(12) 3881–90 |
| 2018 | 10.1128/AEM.02694-17 | Lee, L. L., S. E. Blumer-Schuette, J. A. Izquierdo, J. V. Zurawski, A. J. Loder, et al. | Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses | Applied and Environmental Microbiology | 84(9) |
| 2018 | 10.1186/s13068-018-1290-x | Neumann, A. P., P. J. Weimer and G. Suen | A global analysis of gene expression in Fibrobacter succinogenes S85 grown on cellulose and soluble sugars at different growth rates | Biotechnology for Biofuels | 11 295 |
| 2018 | 10.1111/nph.14913 | Bruns, T. D., N. Corradi, D. Redecker, J. W. Taylor and M. Opik | Glomeromycotina: what is a species and why should we care? | New Phytologist | 220(4) 963–7 |
| 2018 | 10.1104/pp.18.00396 | Ishikawa, T., L. Fang, E. A. Rennie, J. Sechet, J. Yan, B. Jing, W. Moore, E. B. Cahoon, H. V. Scheller, M. Kawai-Yamada and J. C. Mortimer | Glucosamine inositolphosphorylceramide transferase1 (GINT1) Is a GlcNAc-Containing Glycosylinositol Phosphorylceramide Glycosyltransferase | Plant Physiology | 177(3) 938–52 |
| 2018 | 10.1016/j.celrep.2018.03.083 | Cano, M., S. C. Holland, J. Artier, R. L. Burnap, M. Ghirardi, J. A. Morgan and J. Yu | Glycogen Synthesis and Metabolite Overflow Contribute to Energy Balancing in Cyanobacteria | Cell Reports | 23(3) 667–72 |
| 2018 | 10.1002/9781119312994.apr0435 | Yin, Y., D. Mohnen, I. Gelineo-Albersheim, Y. Xu and M. G. Hahn | Glycosyltransferases of the GT8 Family | Annual Plant Reviews Online | |
| 2018 | 10.1039/c8sc03208d | Song, Y., J. K. Mobley, A. H. Motagamwala, M. Isaacs, J. A. Dumesic, J. Ralph, A. F. Lee, K. Wilson and M. Crocker | Gold-catalyzed conversion of lignin to low molecular weight aromatics | Chemical Science | 9(42) 8127–33 |
| 2018 | 10.1038/s41477-018-0235-5 | Ebert, B., C. Rautengarten, H. E. McFarlane, T. Rupasinghe, W. Zeng, K. Ford, H. V. Scheller, A. Bacic, U. Roessner, S. Persson and J. L. Heazlewood | A Golgi UDP-GlcNAc transporter delivers substrates for N-linked glycans and sphingolipids | Nature Plants | 4(10) 792–801 |
| 2018 | 10.1002/mnfr.201700770 | Pi, M., K. Kapoor, R. Ye, J. C. Smith, J. Baudry and L. D. Quarles | GPCR6A Is a Molecular Target for the Natural Products Gallate and EGCG in Green Tea | Molecular Nutrition & Food Research | 62(8) e1700770 |
| 2018 | 10.1093/nar/gky174 | Boyd, J. A., B. J. Woodcroft and G. W. Tyson | GraftM: a tool for scalable, phylogenetically informed classification of genes within metagenomes | Nucleic Acids Research | 46(10) e59 |
| 2018 | 10.1111/tpj.13915 | Wittkopp, T. M., S. Saroussi, W. Yang, X. Johnson, R. G. Kim, et al. | GreenCut protein CPLD49 of Chlamydomonas reinhardtii associates with thylakoid membranes and is required for cytochrome b6f complex accumulation | Plant Journal | 94(6) 1023-1037 |
| 2018 | 10.1111/gcb.14472 | McGill, B. M., S. K. Hamilton, N. Millar and G. P. Robertson | The greenhouse gas cost of agricultural intensification with groundwater irrigation in a Midwest U.S. row cropping system | Global Change Biology | 24(12) 5948-5960 |
| 2018 | 10.1016/j.ijggc.2018.11.003 | Gundersen, C. B., T. Andersen, R. D. Vogt and S. D. Allison | Growth response of environmental bacteria under exposure to nitramines from CO2-capture | International Journal of Greenhouse Gas Control | 79 248–51 |
| 2018 | 10.3389/fpls.2018.01799 | Tuskan, G. A., A. T. Groover, J. Schmutz, S. P. DiFazio, A. Myburg, et al. | Hardwood Tree Genomics: Unlocking Woody Plant Biology | Frontiers in Plant Science | 9 1799 |
| 2018 | 10.1016/j.mec.2018.e00076 | Lee, J. W., N. P. Niraula and C. T. Trinh | Harnessing a P450 fatty acid decarboxylase from Macrococcus caseolyticus for microbial biosynthesis of odd chain terminal alkenes | Metabolic Engineering Communications | 7 e00076 |
| 2018 | 10.1016/j.biortech.2018.08.034 | Bhagia, S., Y. Pu, B. R. Evans, B. H. Davison and A. J. Ragauskas | Hemicellulose characterization of deuterated switchgrass | Bioresource Technology | 269 567–70 |
| 2018 | 10.1186/s13068-018-1014-2 | Brunecky, R., D. Chung, N. S. Sarai, N. Hengge, J. F. Russell, J. Young, A. Mittal, P. Pason, T. Vander Wall, W. Michener, T. Shollenberger, J. Westpheling, M. E. Himmel and Y. J. Bomble | High activity CAZyme cassette for improving biomass degradation in thermophiles | Biotechnology for Biofuels | 11 22 |
| 2018 | 10.1021/acs.analchem.7b02786 | Gates, S. D., R. C. Condit, N. Moussatche, B. J. Stewart, A. J. Malkin and P. K. Weber | High Initial Sputter Rate Found for Vaccinia Virions Using Isotopic Labeling, NanoSIMS, and AFM | Analytical Chemistry | 90(3) 1613–20 |
| 2018 | 10.1038/s41467-017-02571-4 | Martin-Platero, A. M., B. Cleary, K. Kauffman, S. P. Preheim, D. J. McGillicuddy, E. J. Alm and M. F. Polz | High resolution time series reveals cohesive but short-lived communities in coastal plankton | Nature Communications | 9(1) 266 |
| 2018 | 10.3389/fenrg.2018.00120 | Decker, S. R., A. E. Harman-Ware, R. M. Happs, E. J. Wolfrum, G. A. Tuskan, D. Kainer, G. B. Oguntimein, M. Rodriguez, D. Weighill, P. Jones and D. Jacobson | High Throughput Screening Technologies in Biomass Characterization | Frontiers in Energy Research | 6 |
| 2018 | 10.1021/acssynbio.7b00377 | Clark, R. L., G. C. Gordon, N. R. Bennett, H. Lyu, T. W. Root and B. F. Pfleger | High-CO2 Requirement as a Mechanism for the Containment of Genetically Modified Cyanobacteria | ACS Synthetic Biology | 7(2) 384-391 |
| 2018 | 10.1002/pld3.41 | Banan, D., R. E. Paul, M. J. Feldman, M. W. Holmes, H. Schlake, I. Baxter, H. Jiang and A. D. B. Leakey | High-fidelity detection of crop biomass quantitative trait loci from low-cost imaging in the field | Plant Direct | 2(2) e00041 |
| 2018 | 10.1021/acssynbio.8b00331 | Lobs, A. K., C. Schwartz, S. Thorwall and I. Wheeldon | Highly Multiplexed CRISPRi Repression of Respiratory Functions Enhances Mitochondrial Localized Ethyl Acetate Biosynthesis in Kluyveromyces marxianus | ACS Synthetic Biology | 7(11) 2647–55 |
| 2018 | 10.1016/j.tibtech.2018.06.007 | Lazar, Z., N. Liu and G. Stephanopoulos | Holistic Approaches in Lipid Production by Yarrowia lipolytica | Trends in Biotechnology | 36(11) 1157–70 |
| 2018 | 10.1038/s41564-018-0190-y | Emerson, J. B., S. Roux, J. R. Brum, B. Bolduc, B. J. Woodcroft, et al. | Host-linked soil viral ecology along a permafrost thaw gradient | Nature Microbiology | 3(8) 870–80 |
| 2018 | 10.1186/s12918-018-0593-7 | Karp, P. D., D. Weaver and M. Latendresse | How accurate is automated gap filling of metabolic models? | BMC Systems Biology | 12(1) 73 |
| 2018 | 10.1128/AEM.00014-18 | Rodriguez, R. L., J. C. Castro, N. C. Kyrpides, J. R. Cole, J. M. Tiedje and K. T. Konstantinidis | How Much Do rRNA Gene Surveys Underestimate Extant Bacterial Diversity? | Applied and Environmental Microbiology | 84(6) |
| 2018 | 10.1371/journal.pone.0189616 | Youngblut, N. D., S. E. Barnett and D. H. Buckley | HTSSIP: An R package for analysis of high throughput sequencing data from nucleic acid stable isotope probing (SIP) experiments | PLoS One | 13(1) e0189616 |
| 2018 | 10.3389/fmicb.2018.01645 | Newcombe, G., A. Harding, M. Ridout and P. E. Busby | A Hypothetical Bottleneck in the Plant Microbiome | Frontiers in Microbiology | 9 1645 |
| 2018 | 10.1126/sciadv.aau2968 | Li, Y., L. Shuai, H. Kim, A. H. Motagamwala, J. K. Mobley, F. Yue, Y. Tobimatsu, D. Havkin-Frenkel, F. Chen, R. A. Dixon, J. S. Luterbacher, J. A. Dumesic and J. Ralph | An "ideal lignin" facilitates full biomass utilization | Science Advances | 4(9) eaau2968 |
| 2018 | 10.1111/nph.15050 | Jensen, J. K., M. Busse-Wicher, C. P. Poulsen, J. U. Fangel, P. J. Smith, et al. | Identification of an algal xylan synthase indicates that there is functional orthology between algal and plant cell wall biosynthesis | New Phytologist | 218(3) 1049-1060 |
| 2018 | 10.1104/pp.18.00584 | Voiniciuc, C., K. A. Engle, M. Gunl, S. Dieluweit, M. H. Schmidt, J. Y. Yang, K. W. Moremen, D. Mohnen and B. Usadel | Identification of Key Enzymes for Pectin Synthesis in Seed Mucilage | Plant Physiology | 178(3) 1045–64 |
| 2018 | 10.1093/treephys/tpx121 | Petzold, H. E., S. B. Rigoulot, C. Zhao, B. Chanda, X. Sheng, M. Zhao, X. Jia, A. W. Dickerman, E. P. Beers and A. M. Brunner | Identification of new protein-protein and protein-DNA interactions linked with wood formation in Populus trichocarpa | Tree Physiology | 38(3) 362-377 |
| 2018 | 10.1016/j.meteno.2018.04.002 | Standaert, R. F., R. J. Giannone and J. K. Michener | Identification of parallel and divergent optimization solutions for homologous metabolic enzymes | Metabolic Engineering Communications | 6 56–62 |
| 2018 | 10.25585/1488039 | Olson, D. | Identification of secondary mutations in organisms engineered for biofuel production | ||
| 2018 | 10.1093/femsyr/foy096 | Gossing, M., A. Smialowska and J. Nielsen | Impact of forced fatty acid synthesis on metabolism and physiology of Saccharomyces cerevisiae | FEMS Yeast Research | 18(8) |
| 2018 | 10.1039/c7gc03796a | Vural, D., C. Gainaru, H. O'Neill, Y. Q. A. Pu, M. D. Smith, J. M. Parks, S. V. Pingali, E. Mamontov, B. H. Davison, A. P. Sokolov, A. J. Ragauskas, J. C. Smith and L. Petridis | Impact of hydration and temperature history on the structure and dynamics of lignin | Green Chemistry | 20(7) 1602–11 |
| 2018 | 10.1104/pp.17.00905 | Ding, X. S., S. W. Mannas, B. A. Bishop, X. Rao, M. Lecoultre, S. Kwon and R. S. Nelson | An Improved Brome mosaic virus Silencing Vector: Greater Insert Stability and More Extensive VIGS | Plant Physiology | 176(1) 496–510 |
| 2018 | 10.1016/j.bbrc.2018.06.051 | Ozseyhan, M. E., P. Li, G. Na, Z. Li, C. Wang and C. Lu | Improved fatty acid profiles in seeds of Camelina sativa by artificial microRNA mediated FATB gene suppression | Biochemical and Biophysical Research Communications | 503(2) 621–4 |
| 2018 | 10.1002/bit.26558 | Goh, E. B., Y. Chen, C. J. Petzold, J. D. Keasling and H. R. Beller | Improving methyl ketone production in Escherichia coli by heterologous expression of NADH-dependent FabG | Biotechnology and Bioengineering | 115(5) 1161–72 |
| 2018 | 10.1186/s12859-018-2402-0 | Colby, S. M., R. S. McClure, C. C. Overall, R. S. Renslow and J. E. McDermott | Improving network inference algorithms using resampling methods | BMC Bioinformatics | 19(1) 376 |
| 2018 | 10.1007/s42241-018-0110-x | Xu, X. Y., X. Zhang, H. W. Fang, R. X. Lai, Y. F. Zhang, L. Huang and X. B. Liu | Improving the real-time probabilistic channel flood forecasting by incorporating the uncertainty of inflow using the particle filter | Journal of Hydrodynamics | 30(5) 828-840 |
| 2018 | 10.1038/s41467-018-03863-z | Wang, J. P., M. L. Matthews, C. M. Williams, R. Shi, C. Yang, et al. | Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis | Nature Communications | 9(1) 1579 |
| 2018 | 10.3390/pr6010007 | Wilken, S., M. Saxena, L. R. Petzold and M. A. O'Malley | In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi | Processes | 6(1) |
| 2018 | 10.1038/s41467-018-04739-y | Mosalaganti, S., J. Kosinski, S. Albert, M. Schaffer, D. Strenkert, P. A. Salomé, S. S. Merchant, J. M. Plitzko, W. Baumeister, B. D. Engel and M. Beck | In situ architecture of the algal nuclear pore complex | Nature Communications | 9(1) |
| 2018 | 10.1016/j.jconhyd.2018.08.009 | Paradis, C. J., J. W. Moon, D. A. Elias, L. D. McKay and T. C. Hazen | In situ decay of polyfluorinated benzoic acids under anaerobic conditions | Journal of Contaminant Hydrology | 217 8–16 |
| 2018 | 10.1007/978-3-319-44535-9_11-1 | Hazen, T. C. | In Situ: Groundwater Bioremediation | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Biodegradation and Bioremediation | 1–18 |
| 2018 | 10.1111/tpj.13830 | Kim, S. J., S. Zemelis-Durfee, J. K. Jensen, C. G. Wilkerson, K. Keegstra and F. Brandizzi | In the grass species Brachypodium distachyon, the production of mixed-linkage (1,3;1,4)-β-glucan (MLG) occurs in the Golgi apparatus | The Plant Journal | 93(6) 1062–75 |
| 2018 | 10.1186/s13068-018-1039-6 | Attia, M. A., C. E. Nelson, W. A. Offen, N. Jain, G. J. Davies, J. G. Gardner and H. Brumer | In vitro and in vivo characterization of three Cellvibrio japonicus glycoside hydrolase family 5 members reveals potent xyloglucan backbone-cleaving functions | Biotechnology for Biofuels | 11 45 |
| 2018 | 10.1128/AEM.02076-17 | Gall, D. L., W. S. Kontur, W. Lan, H. Kim, Y. Li, J. Ralph, T. J. Donohue and D. R. Noguera | In vitro enzymatic depolymerization of lignin with release of syringyl, guaiacyl, and tricin units | Applied and Environmental Microbiology | 84(3) |
| 2018 | 10.3791/57876 | Dharampal, P. S., C. M. Carlson, L. Diaz-Garcia and S. A. Steffan | In vitro rearing of solitary bees: A tool for assessing larval risk factors | Journal of Visualized Experiments | 2018(137) |
| 2018 | 10.1007/s10295-018-2004-x | Shi, S., E. L. Ang and H. Zhao | In vivo biosensors: mechanisms, development, and applications | Journal of Industrial Microbiology and Biotechnology | 45(7) 491–516 |
| 2018 | 10.1111/tpj.13782 | LeBlanc, C., F. Zhang, J. Mendez, Y. Lozano, K. Chatpar, V. F. Irish and Y. Jacob | Increased efficiency of targeted mutagenesis by CRISPR/Cas9 in plants using heat stress | The Plant Journal | 93(2) 377–86 |
| 2018 | 10.1038/s41467-018-04513-0 | Zhang, M., C. Gao, X. Guo, S. Guo, Z. Kang, D. Xiao, J. Yan, F. Tao, W. Zhang, W. Dong, P. Liu, C. Yang, C. Ma and P. Xu | Increased glutarate production by blocking the glutaryl-CoA dehydrogenation pathway and a catabolic pathway involving L-2-hydroxyglutarate | Nature Communications | 9(1) 2114 |
| 2018 | 10.1016/j.biortech.2018.09.120 | Kurambhatti, C. V., D. Kumar, K. D. Rausch, M. E. Tumbleson and V. Singh | Increasing ethanol yield through fiber conversion in corn dry grind process | Bioresource Technology | 270 742–5 |
| 2018 | 10.1186/s13068-018-1193-x | Scarborough, M. J., G. Lynch, M. Dickson, M. McGee, T. J. Donohue and D. R. Noguera | Increasing the economic value of lignocellulosic stillage through medium-chain fatty acid production | Biotechnology for Biofuels | 11 200 |
| 2018 | 10.1128/MSPHERE.00574-18 | McDaniel, E. A., T. N. Stuecker, M. Veluvolu, A. P. Gasch and J. A. Lewis | Independent mechanisms for acquired salt tolerance versus growth resumption induced by mild ethanol pretreatment in Saccharomyces cerevisiae | mSphere | 3(6) |
| 2018 | 10.1038/s41467-018-03293-x | Denby, C. M., R. A. Li, V. T. Vu, Z. Costello, W. Lin, L. J. G. Chan, J. Williams, B. Donaldson, C. W. Bamforth, C. J. Petzold, H. V. Scheller, H. G. Martin and J. D. Keasling | Industrial brewing yeast engineered for the production of primary flavor determinants in hopped beer | Nature Communications | 9(1) 965 |
| 2018 | 10.1038/s41557-018-0147-z | Cao, Q., W. S. Shin, H. Chan, C. K. Vuong, B. Dubois, B. Li, K. A. Murray, M. R. Sawaya, J. Feigon, D. L. Black, D. S. Eisenberg and L. Jiang | Inhibiting amyloid-ß cytotoxicity through its interaction with the cell surface receptor LilrB2 by structure-based design | Nature Chemistry | 10(12) 1213-1221 |
| 2018 | 10.1021/acs.analchem.8b01989 | Duncombe, T. A., M. Raad, B. P. Bowen, A. K. Singh and T. R. Northen | Insulator Nanostructure Desorption Ionization Mass Spectrometry | Analytical Chemistry | 90(16) 9657–61 |
| 2018 | 10.1016/j.ymben.2018.03.004 | George, K. W., M. G. Thompson, J. Kim, E. E. K. Baidoo, G. Wang, V. T. Benites, C. J. Petzold, L. J. G. Chan, S. Yilmaz, P. Turhanen, P. D. Adams, J. D. Keasling and T. S. Lee | Integrated analysis of isopentenyl pyrophosphate (IPP) toxicity in isoprenoid-producing Escherichia coli | Metabolic Engineering | 47 60–72 |
| 2018 | 10.1186/s13068-018-1124-x | Bhalla, A., P. Fasahati, C. A. Particka, A. E. Assad, R. J. Stoklosa, N. Bansal, R. Semaan, C. M. Saffron, D. B. Hodge and E. L. Hegg | Integrated experimental and technoeconomic evaluation of two-stage Cu-catalyzed alkaline-oxidative pretreatment of hybrid poplar | Biotechnology for Biofuels | 11 143 |
| 2018 | 10.1016/j.apenergy.2018.02.077 | Ng, R. T. L., D. Kurniawan, H. Wang, B. Mariska, W. Wu and C. T. Maravelias | Integrated framework for designing spatially explicit biofuel supply chains | Applied Energy | 216 116-131 |
| 2018 | 10.1093/bioinformatics/bty445 | Tian, M. and J. L. Reed | Integrating proteomic or transcriptomic data into metabolic models using linear bound flux balance analysis | Bioinformatics | 34(22) 3882–8 |
| 2018 | 10.1038/s41598-018-23106-x | Rastogi, A., U. Maheswari, R. G. Dorrell, F. R. J. Vieira, F. Maumus, A. Kustka, J. McCarthy, A. E. Allen, P. Kersey, C. Bowler and L. Tirichine | Integrative analysis of large scale transcriptome data draws a comprehensive landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms | Scientific Reports | 8(1) 4834 |
| 2018 | 10.3390/rs10071159 | Tian, L., J. Chen and C. Shao | Interdependent dynamics of LAI-Albedo across the roofing landscapes: Mongolian and Tibetan Plateaus | Remote Sensing | 10(7) |
| 2018 | 10.1093/bioinformatics/bty015 | Chen, C. J. and Z. Zhang | iPat: intelligent prediction and association tool for genomic research | Bioinformatics | 34(11) 1925–7 |
| 2018 | 10.1038/s41598-018-20016-w | Thompson, M. G., N. Sedaghatian, J. F. Barajas, M. Wehrs, C. B. Bailey, N. Kaplan, N. J. Hillson, A. Mukhopadhyay and J. D. Keasling | Isolation and characterization of novel mutations in the pSC101 origin that increase copy number | Scientific Reports | 8(1) 1590 |
| 2018 | 10.1002/cpmc.64 | Kelley, B. R., J. C. Ellis, D. Hyatt, D. Jacobson and J. Johnson | Isolation and Whole-Genome Sequencing of Environmental Campylobacter | Current Protocols in Microbiology | 51(1) e64 |
| 2018 | 10.1016/j.biombioe.2018.09.017 | Meyer, J. R., S. B. Waghmode, J. He, Y. Gao, D. Hoole, L. da Costa Sousa, V. Balan and M. B. Foston | Isolation of lignin from ammonia fiber expansion (AFEX) pretreated biorefinery waste | Biomass and Bioenergy | 119 446-455 |
| 2018 | 10.3389/fmicb.2018.02152 | Freedman, A. J. E., K. C. Peet, J. T. Boock, K. Penn, K. L. J. Prather and J. R. Thompson | Isolation, Development, and Genomic Analysis of Bacillus megaterium SR7 for Growth and Metabolite Production Under Supercritical Carbon Dioxide | Frontiers in Microbiology | 9 2152 |
| 2018 | 10.1016/j.copbio.2018.02.013 | Cheah, Y. E. and J. D. Young | Isotopically nonstationary metabolic flux analysis (INST-MFA): putting theory into practice | Current Opinion in Biotechnology | 54 80–7 |
| 2018 | 10.1186/s13068-018-1178-9 | Sammond, D. W., N. Kastelowitz, B. S. Donohoe, M. Alahuhta, V. V. Lunin, D. Chung, N. S. Sarai, H. Yin, A. Mittal, M. E. Himmel, A. M. Guss and Y. J. Bomble | An iterative computational design approach to increase the thermal endurance of a mesophilic enzyme | Biotechnology for Biofuels | 11 189 |
| 2018 | 10.1016/j.ymben.2018.04.007 | Liu, R., L. Liang, A. Choudhury, M. C. Bassalo, A. D. Garst, K. Tarasava and R. T. Gill | Iterative genome editing of Escherichia coli for 3-hydroxypropionic acid production | Metabolic Engineering | 47 303–13 |
| 2018 | 10.1038/s41467-018-05857-3 | Ruegg, T. L., J. H. Pereira, J. C. Chen, A. DeGiovanni, P. Novichkov, V. K. Mutalik, G. P. Tomaleri, S. W. Singer, N. J. Hillson, B. A. Simmons, P. D. Adams and M. P. Thelen | Jungle Express is a versatile repressor system for tight transcriptional control | Nature Communications | 9(1) 3617 |
| 2018 | 10.1038/nbt.4163 | Arkin, A. P., R. W. Cottingham, C. S. Henry, N. L. Harris, R. L. Stevens, et al. | KBase: The United States Department of Energy Systems Biology Knowledgebase | Nature Biotechnology | 36(7) 566–9 |
| 2018 | 10.1038/s41467-018-03089-z | Taş, N., E. Prestat, S. Wang, Y. Wu, C. Ulrich, T. Kneafsey, S. G. Tringe, M. S. Torn, S. S. Hubbard and J. K. Jansson | Landscape topography structures the soil microbiome in arctic polygonal tundra | Nature Communications | 9(1) 777 |
| 2018 | 10.1128/mBio.01366-16 | Karaoz, U., E. Couradeau, U. N. da Rocha, H. C. Lim, T. Northen, F. Garcia-Pichel and E. L. Brodie | Large Blooms of Bacillales (Firmicutes) Underlie the Response to Wetting of Cyanobacterial Biocrusts at Various Stages of Maturity | mBio | 9(2) |
| 2018 | 10.1002/eap.1745 | Abraha, M., I. Gelfand, S. K. Hamilton, J. Chen and G. P. Robertson | Legacy effects of land use on soil nitrous oxide emissions in annual crop and perennial grassland ecosystems | Ecological Applications | 28(5) 1362–9 |
| 2018 | 10.1016/j.biotechadv.2018.04.008 | Oyetunde, T., F. S. Bao, J. W. Chen, H. G. Martin and Y. J. Tang | Leveraging knowledge engineering and machine learning for microbial bio-manufacturing | Biotechnology Advances | 36(4) 1308–15 |
| 2018 | 10.1016/j.ymben.2018.03.017 | Clark, R. L., L. L. McGinley, H. M. Purdy, T. C. Korosh, J. L. Reed, T. W. Root and B. F. Pfleger | Light-optimized growth of cyanobacterial cultures: Growth phases and productivity of biomass and secreted molecules in light-limited batch growth | Metabolic Engineering | 47 230–42 |
| 2018 | 10.1021/acssuschemeng.7b03541 | Das, A., A. Rahimi, A. Ulbrich, M. Alherech, A. H. Motagamwala, A. Bhalla, L. Da Costa Sousa, V. Balan, J. A. Dumesic, E. L. Hegg, B. E. Dale, J. Ralph, J. J. Coon and S. S. Stahl | Lignin Conversion to Low-Molecular-Weight Aromatics via an Aerobic Oxidation-Hydrolysis Sequence: Comparison of Different Lignin Sources | ACS Sustainable Chemistry and Engineering | 6(3) 3367-3374 |
| 2018 | 10.1038/s41467-017-02356-9 | Swenson, T. L., U. Karaoz, J. M. Swenson, B. P. Bowen and T. R. Northen | Linking soil biology and chemistry in biological soil crust using isolate exometabolomics | Nature Communications | 9(1) 19 |
| 2018 | 10.1186/s13068-018-1337-z | Henson, W. R., F. F. Hsu, G. Dantas, T. S. Moon and M. Foston | Lipid metabolism of phenol-tolerant Rhodococcus opacus strains for lignin bioconversion | Biotechnology for Biofuels | 11 339 |
| 2018 | 10.1016/j.cels.2018.03.011 | Hutchins, P. D., J. D. Russell and J. J. Coon | LipiDex: An Integrated Software Package for High-Confidence Lipid Identification | Cell Systems | 6(5) 621-625.e5 |
| 2018 | 10.1038/s41540-018-0054-3 | Costello, Z. and H. G. Martin | A machine learning approach to predict metabolic pathway dynamics from time-series multiomics data | npj Systems Biology and Applications | 4 19 |
| 2018 | 10.1128/MSYSTEMS.00181-18 | DiMucci, D., M. Kon and D. Segrè | Machine learning reveals missing edges and putative interaction mechanisms in microbial ecosystem networks | mSystems | 3(5) |
| 2018 | 10.1016/j.tree.2018.08.005 | Shade, A., R. R. Dunn, S. A. Blowes, P. Keil, B. J. M. Bohannan, M. Herrmann, K. Kusel, J. T. Lennon, N. J. Sanders, D. Storch and J. Chase | Macroecology to Unite All Life, Large and Small | Trends in Ecology & Evolution | 33(10) 731–44 |
| 2018 | 10.1128/mSystems.00143-17 | Liu, H., M. N. Price, R. J. Waters, J. Ray, H. K. Carlson, J. S. Lamson, R. Chakraborty, A. P. Arkin and A. M. Deutschbauer | Magic Pools: Parallel Assessment of Transposon Delivery Vectors in Bacteria | mSystems | 3(1) |
| 2018 | 10.1016/j.tplants.2017.09.008 | Coelho, C. P., P. Huang, D. Y. Lee and T. P. Brutnell | Making Roots, Shoots, and Seeds: IDD Gene Family Diversification in Plants | Trends in Plant Science | 23(1) 66–78 |
| 2018 | 10.1145/3233547.3233622 | Nguyen, N., I. Blaby and D. F. Wang | A Manifold Learning Based Approach to Reveal the Functional Linkages across Multiple Gene Networks | Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics | 514 |
| 2018 | 10.3389/fpls.2018.01505 | Busov, V. B. | Manipulation of Growth and Architectural Characteristics in Trees for Increased Woody Biomass Production | Frontiers in Plant Science | 9 1505 |
| 2018 | 10.1021/acssuschemeng.7b04597 | Yao, S. G., J. K. Mobley, J. Ralph, M. Crocker, S. Parkin, J. P. Selegue and M. S. Meier | Mechanochemical Treatment Facilitates Two-Step Oxidative Depolymerization of Kraft Lignin | ACS Sustainable Chemistry and Engineering | 6(5) 5990-5998 |
| 2018 | 10.1128/mBio.00815-18 | Smith, G. J., J. C. Angle, L. M. Solden, M. A. Borton, T. H. Morin, R. A. Daly, M. D. Johnston, K. C. Stefanik, R. Wolfe, B. Gil and K. C. Wrighton | Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland | mBio | 9(6) |
| 2018 | 10.1126/sciadv.1601453 | Park, K., Y. Kuo, V. Shvadchak, A. Ingargiola, X. Dai, L. Hsiung, W. Kim, H. Zhou, P. Zou, A. J. Levine, J. Li and S. Weiss | Membrane insertion of—and membrane potential sensing by—semiconductor voltage nanosensors: Feasibility demonstration | Science Advances | 4(1) |
| 2018 | 10.1111/nph.14942 | Kolbe, A. R. and A. B. Cousins | Mesophyll conductance in Zea mays responds transiently to CO2 availability: implications for transpiration efficiency in C4 crops | New Phytologist | 217(4) 1463–74 |
| 2018 | 10.1186/s40168-017-0392-1 | Liu, Y. F., D. D. Galzerani, S. M. Mbadinga, L. S. Zaramela, J. D. Gu, B. Z. Mu and K. Zengler | Metabolic capability and in situ activity of microorganisms in an oil reservoir | Microbiome | 6(1) 5 |
| 2018 | 10.1002/bit.26515 | Henske, J. K., S. E. Wilken, K. V. Solomon, C. R. Smallwood, V. Shutthanandan, J. E. Evans, M. K. Theodorou and M. A. O'Malley | Metabolic characterization of anaerobic fungi provides a path forward for bioprocessing of crude lignocellulose | Biotechnology and Bioengineering | 115(4) 874–84 |
| 2018 | 10.1002/biot.201600433 | Meadows, C. W., A. Kang and T. S. Lee | Metabolic Engineering for Advanced Biofuels Production and Recent Advances Toward Commercialization | Biotechnology Journal | 13(1) |
| 2018 | 10.1016/j.ymben.2018.07.016 | Abdel-Mawgoud, A. M., K. A. Markham, C. M. Palmer, N. Liu, G. Stephanopoulos and H. S. Alper | Metabolic engineering in the host Yarrowia lipolytica | Metabolic Engineering | 50 192–208 |
| 2018 | 10.1016/j.meteno.2018.01.002 | Ferreira, R., P. G. Teixeira, M. Gossing, F. David, V. Siewers and J. Nielsen | Metabolic engineering of Saccharomyces cerevisiae for overproduction of triacylglycerols | Metabolic Engineering Communications | 6 22-27 |
| 2018 | 10.1016/bs.mie.2018.04.010 | Schultz, C., J. Lian and H. Zhao | Metabolic Engineering of Saccharomyces cerevisiae Using a Trifunctional CRISPR/Cas System for Simultaneous Gene Activation, Interference, and Deletion | Methods in Enzymology | 608 265-276 |
| 2018 | 10.1007/s10295-018-2003-y | Li, Z., Y. P. Shen, X. L. Jiang, L. S. Feng and J. Z. Liu | Metabolic evolution and a comparative omics analysis of Corynebacterium glutamicum for putrescine production | Journal of Industrial Microbiology and Biotechnology | 45(2) 123–39 |
| 2018 | 10.7717/peerj.5614 | Speth, D. R. and V. J. Orphan | Metabolic marker gene mining provides insight in global mcrA diversity and, coupled with targeted genome reconstruction, sheds further light on metabolic potential of the Methanomassiliicoccales | PeerJ | 6 e5614 |
| 2018 | 10.1016/j.cell.2018.03.055 | Jang, C., L. Chen and J. D. Rabinowitz | Metabolomics and Isotope Tracing | Cell | 173(4) 822–37 |
| 2018 | 10.1371/journal.pone.0202792 | Lee, J. Z., R. C. Everroad, U. Karaoz, A. M. Detweiler, J. Pett-Ridge, P. K. Weber, L. Prufert-Bebout and B. M. Bebout | Metagenomics reveals niche partitioning within the phototrophic zone of a microbial mat | PLoS One | 13(9) e0202792 |
| 2018 | 10.1111/1462-2920.13937 | Xie, Z. X., F. Chen, S. F. Zhang, M. H. Wang, H. Zhang, L. F. Kong, M. H. Dai, H. S. Hong, L. Lin and D. Z. Wang | Metaproteomics of marine viral concentrates reveals key viral populations and abundant periplasmic proteins in the oligotrophic deep chlorophyll maximum of the South China Sea | Environmental Microbiology | 20(2) 477–91 |
| 2018 | 10.1128/mSystems.00221-18 | Scarborough, M. J., C. E. Lawson, J. J. Hamilton, T. J. Donohue and D. R. Noguera | Metatranscriptomic and Thermodynamic Insights into Medium-Chain Fatty Acid Production Using an Anaerobic Microbiome | mSystems | 3(6) |
| 2018 | 10.1038/s41396-018-0109-x | Cai, C., A. O. Leu, G. J. Xie, J. Guo, Y. Feng, J. X. Zhao, G. W. Tyson, Z. Yuan and S. Hu | A methanotrophic archaeon couples anaerobic oxidation of methane to Fe(III) reduction | The ISME Journal | 12(8) 1929–39 |
| 2018 | 10.1038/s41396-018-0065-5 | Singleton, C. M., C. K. McCalley, B. J. Woodcroft, J. A. Boyd, P. N. Evans, S. B. Hodgkins, J. P. Chanton, S. Frolking, P. M. Crill, S. R. Saleska, V. I. Rich and G. W. Tyson | Methanotrophy across a natural permafrost thaw environment | The ISME Journal | 12(10) 2544–58 |
| 2018 | 10.1021/acs.energyfuels.8b02113 | Harman-Ware, A. E. and J. R. Ferrell | Methods and Challenges in the Determination of Molecular Weight Metrics of Bio-oils | Energy & Fuels | 32(9) 8905–20 |
| 2018 | 10.1042/BST20170246 | Faria, J. P., M. Rocha, I. Rocha and C. S. Henry | Methods for automated genome-scale metabolic model reconstruction | Biochemical Society Transactions | 46(4) 931–6 |
| 2018 | 10.1111/1462-2920.14366 | Whitman, T., R. Neurath, A. Perera, I. Chu-Jacoby, D. Ning, J. Zhou, P. Nico, J. Pett-Ridge and M. Firestone | Microbial community assembly differs across minerals in a rhizosphere microcosm | Environmental Microbiology | 20(12) 4444–60 |
| 2018 | 10.3389/fmicb.2018.01492 | Kimbrel, J. A., N. Ballor, Y. W. Wu, M. M. David, T. C. Hazen, B. A. Simmons, S. W. Singer and J. K. Jansson | Microbial Community Structure and Functional Potential Along a Hypersaline Gradient | Frontiers in Microbiology | 9 1492 |
| 2018 | 10.1007/s00253-018-9294-9 | Jagtap, S. S. and C. V. Rao | Microbial conversion of xylose into useful bioproducts | Applied Microbiology and Biotechnology | 102(21) 9015–36 |
| 2018 | 10.3389/fmicb.2018.03043 | Porcar, M., K. B. Louie, S. M. Kosina, M. W. Van Goethem, B. P. Bowen, K. Tanner and T. R. Northen | Microbial Ecology on Solar Panels in Berkeley, CA, United States | Frontiers in Microbiology | 9 3043 |
| 2018 | 10.1111/gcb.13820 | Yuan, M. M., J. Zhang, K. Xue, L. Wu, Y. Deng, et al. | Microbial functional diversity covaries with permafrost thaw-induced environmental heterogeneity in tundra soil | Global Change Biology | 24(1) 297–307 |
| 2018 | 10.1128/mBio.02435-17 | He, Z., P. Zhang, L. Wu, A. M. Rocha, Q. Tu, et al. | Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning | mBio | 9(1) |
| 2018 | 10.3389/fmicb.2018.01234 | Wu, X., L. Wu, Y. Liu, P. Zhang, Q. Li, J. Zhou, N. J. Hess, T. C. Hazen, W. Yang and R. Chakraborty | Microbial Interactions With Dissolved Organic Matter Drive Carbon Dynamics and Community Succession | Frontiers in Microbiology | 9 1234 |
| 2018 | 10.1128/AEM.02441-17 | Papp, K., B. A. Hungate and E. Schwartz | Microbial rRNA Synthesis and Growth Compared through Quantitative Stable Isotope Probing with H218O | Applied and Environmental Microbiology | 84(8) |
| 2018 | 10.1021/acssynbio.7b00296 | Wang, L. and C. D. Maranas | MinGenome: An In Silico Top-Down Approach for the Synthesis of Minimized Genomes | ACS Synthetic Biology | 7(2) 462–73 |
| 2018 | 10.1073/pnas.1807804115 | Czajka, J. J., M. H. Abernathy, V. T. Benites, E. E. K. Baidoo, J. W. Deming and Y. J. Tang | Model metabolic strategy for heterotrophic bacteria in the cold ocean based on Colwellia psychrerythraea 34H | Proceedings of the National Academy of Sciences of the United States of America | 115(49) 12507–12 |
| 2018 | 10.1038/s41467-018-07649-1 | Heckmann, D., D. C. Zielinski and B. O. Palsson | Modeling genome-wide enzyme evolution predicts strong epistasis underlying catalytic turnover rates | Nature Communications | 9(1) 5270 |
| 2018 | 10.1007/s11104-018-3692-8 | Veach, A. M., D. Yip, N. L. Engle, Z. K. Yang, A. Bible, J. Morrell-Falvey, T. J. Tschaplinski, U. C. Kalluri and C. W. Schadt | Modification of plant cell wall chemistry impacts metabolome and microbiome composition in Populus PdKOR1 RNAi plants | Plant and Soil | 429(1–2) 349–61 |
| 2018 | 10.1002/bit.26518 | Bergenholm, D., M. Gossing, Y. Wei, V. Siewers and J. Nielsen | Modulation of saturation and chain length of fatty acids in Saccharomyces cerevisiae for production of cocoa butter-like lipids | Biotechnology and Bioengineering | 115(4) 932–42 |
| 2018 | 10.1016/j.geoderma.2017.11.043 | Kutlu, T., A. K. Guber, M. L. Rivers and A. N. Kravchenko | Moisture absorption by plant residue in soil | Geoderma | 316 47-55 |
| 2018 | 10.1093/molbev/msx315 | Vakirlis, N., A. S. Hebert, D. A. Opulente, G. Achaz, C. T. Hittinger, G. Fischer, J. J. Coon and I. Lafontaine | A molecular portrait of de novo genes in yeasts | Molecular Biology and Evolution | 35(3) 631-645 |
| 2018 | 10.1021/acsinfecdis.8b00036 | Cooper, C. J., G. Krishnamoorthy, D. Wolloscheck, J. K. Walker, V. V. Rybenkov, J. M. Parks and H. I. Zgurskaya | Molecular Properties That Define the Activities of Antibiotics in Escherichia coli and Pseudomonas aeruginosa | ACS Infectious Diseases | 4(8) 1223–34 |
| 2018 | 10.1021/acssynbio.7b00416 | DeLorenzo, D. M., A. G. Rottinghaus, W. R. Henson and T. S. Moon | Molecular Toolkit for Gene Expression Control and Genome Modification in Rhodococcus opacus PD630 | ACS Synthetic Biology | 7(2) 727–38 |
| 2018 | 10.1038/s41570-018-0050-6 | Petridis, L. and J. C. Smith | Molecular-level driving forces in lignocellulosic biomass deconstruction for bioenergy | Nature Reviews Chemistry | 2(11) 382–9 |
| 2018 | 10.1038/s41467-018-05667-7 | Liang, J., Z. Zhou, C. Huo, Z. Shi, J. R. Cole, et al. | More replenishment than priming loss of soil organic carbon with additional carbon input | Nature Communications | 9(1) 3175 |
| 2018 | 10.1039/c8nr06470a | Chaves-Lopez, C., H. N. Nguyen, R. C. Oliveira, E. T. Nadres, A. Paparella and D. F. Rodrigues | A morphological, enzymatic and metabolic approach to elucidate apoptotic-like cell death in fungi exposed to h- and α-molybdenum trioxide nanoparticles | Nanoscale | 10(44) 20702–16 |
| 2018 | 10.1016/j.ymben.2018.06.009 | Henson, W. R., T. Campbell, D. M. DeLorenzo, Y. Gao, B. Berla, S. J. Kim, M. Foston, T. S. Moon and G. Dantas | Multi-omic elucidation of aromatic catabolism in adaptively evolved Rhodococcus opacus | Metabolic Engineering | 49 69–83 |
| 2018 | 10.1016/j.cels.2017.11.012 | Lapointe, C. P., J. A. Stefely, A. Jochem, P. D. Hutchins, G. M. Wilson, N. W. Kwiecien, J. J. Coon, M. Wickens and D. J. Pagliarini | Multi-omics Reveal Specific Targets of the RNA-Binding Protein Puf3p and Its Orchestration of Mitochondrial Biogenesis | Cell Systems | 6(1) 125-135.e6 |
| 2018 | 10.1109/NYSDS.2018.8538944 | Kim, C., P. Yin, C. X. Soto, I. K. Blaby and S. Yoo | Multimodal biological analysis using NLP and expression profile | 2018 New York Scientific Data Summit (NYSDS) | |
| 2018 | 10.1039/c7mt00349h | Ackerman, C. M., P. K. Weber, T. Xiao, B. Thai, T. J. Kuo, E. Zhang, J. Pett-Ridge and C. J. Chang | Multimodal LA-ICP-MS and nanoSIMS imaging enables copper mapping within photoreceptor megamitochondria in a zebrafish model of Menkes disease | Metallomics | 10(3) 474–85 |
| 2018 | 10.1111/mmi.13909 | Garber, M. E., L. Rajeev, A. E. Kazakov, J. Trinh, D. Masuno, M. G. Thompson, N. Kaplan, J. Luk, P. S. Novichkov and A. Mukhopadhyay | Multiple signaling systems target a core set of transition metal homeostasis genes using similar binding motifs | Molecular Microbiology | 107(6) 704–17 |
| 2018 | 10.1111/ppa.12913 | Abraham, N. D., P. Chitrampal, S. Kerio and J. M. LeBoldus | Multiplex qPCR for detection and quantification of Sphaerulina musiva in Populus stems | Plant Pathology | 67(9) 1874–82 |
| 2018 | 10.1126/science.aao5167 | Plesa, C., A. M. Sidore, N. B. Lubock, D. Zhang and S. Kosuri | Multiplexed gene synthesis in emulsions for exploring protein functional landscapes | Science | 359(6373) 343-347 |
| 2018 | 10.1016/j.plaphy.2017.11.021 | Ozseyhan, M. E., J. Kang, X. Mu and C. Lu | Mutagenesis of the FAE1 genes significantly changes fatty acid composition in seeds of Camelina sativa | Plant Physiology and Biochemistry | 123 1–7 |
| 2018 | 10.1038/s41586-018-0124-0 | Price, M. N., K. M. Wetmore, R. J. Waters, M. Callaghan, J. Ray, et al. | Mutant phenotypes for thousands of bacterial genes of unknown function | Nature | 557(7706) 503–9 |
| 2018 | 10.1074/jbc.RA117.001681 | Goins, C. M., S. Dajnowicz, M. D. Smith, J. M. Parks and D. R. Ronning | Mycolyltransferase from Mycobacterium tuberculosis in covalent complex with tetrahydrolipstatin provides insights into antigen 85 catalysis | Journal of Biological Chemistry | 293(10) 3651–62 |
| 2018 | 10.1007/s00572-018-0865-5 | Tarkka, M. T., B. Drigo and A. Deveau | Mycorrhizal microbiomes | Mycorrhiza | 28(5–6) 403–9 |
| 2018 | 10.1016/j.soilbio.2017.10.009 | Jach-Smith, L. C. and R. D. Jackson | N addition undermines N supplied by arbuscular mycorrhizal fungi to native perennial grasses | Soil Biology and Biochemistry | 116 148-157 |
| 2018 | 10.1021/acssuschemeng.7b03612 | Liu, D. J., J. Sun, B. A. Simmons and S. Singh | N-Heterocyclic Carbene Promoted Decarboxylation of Lignin-Derived Aromatic Acids | ACS Sustainable Chemistry & Engineering | 6(6) 7232–8 |
| 2018 | 10.1146/annurev-anchem-061417-125635 | Retterer, S. T., J. L. Morrell-Falvey and M. J. Doktycz | Nano-Enabled Approaches to Chemical Imaging in Biosystems | Annual Review of Analytical Chemistry | 11(1) 351–73 |
| 2018 | 10.1177/0049085717743843 | Srivastava, V. K. | The National Committee Report on Tribal People | Social Change | 48(1) 120-130 |
| 2018 | 10.1007/s13361-018-2002-2 | Wongkongkathep, P., J. Y. Han, T. S. Choi, S. Yin, H. I. Kim and J. A. Loo | Native Top-Down Mass Spectrometry and Ion Mobility MS for Characterizing the Cobalt and Manganese Metal Binding of α-Synuclein Protein | Journal of the American Society for Mass Spectrometry | 29(9) 1870-1880 |
| 2018 | 10.1007/s00792-018-1023-x | Williams-Rhaesa, A. M., N. K. Awuku, G. L. Lipscomb, F. L. Poole, G. M. Rubinstein, J. M. Conway, R. M. Kelly and M. W. W. Adams | Native xylose-inducible promoter expands the genetic tools for the biomass-degrading, extremely thermophilic bacterium Caldicellulosiruptor bescii | Extremophiles | 22(4) 629–38 |
| 2018 | 10.1016/j.biotechadv.2018.08.009 | Satlewal, A., R. Agrawal, S. Bhagia, J. Sangoro and A. J. Ragauskas | Natural deep eutectic solvents for lignocellulosic biomass pretreatment: Recent developments, challenges and novel opportunities | Biotechnology Advances | 36(8) 2032–50 |
| 2018 | 10.1186/s12862-018-1193-2 | Bahri, B. A., G. Daverdin, X. Xu, J. F. Cheng, K. W. Barry, E. C. Brummer and K. M. Devos | Natural variation in genes potentially involved in plant architecture and adaptation in switchgrass (Panicum virgatum L.) | BMC Evolutionary Biology | 18(1) 91 |
| 2018 | 10.1534/genetics.118.301161 | Higgins, D. A., M. K. M. Young, M. Tremaine, M. Sardi, J. M. Fletcher, et al. | Natural Variation in the Multidrug Efflux Pump SGE1 Underlies Ionic Liquid Tolerance in Yeast | Genetics | 210(1) 219–34 |
| 2018 | 10.1021/acssuschemeng.7b03285 | Meng, X. Z., Y. Q. Pu, P. Sannigrahi, M. Li, S. L. Cao and A. J. Ragauskas | The Nature of Hololignin | ACS Sustainable Chemistry & Engineering | 6(1) 957–64 |
| 2018 | 10.1145/3238147.3240466 | Cashman, M., M. B. Cohen, P. Ranjan and R. W. Cottingham | Navigating the Maze: The Impact of Configurability in Bioinformatics Software | Proceedings of the 33rd ACM/IEEE International Conference on Automated Software Engineering | 757–67 |
| 2018 | 10.1128/mBio.01175-18 | Zhalnina, K., K. Zengler, D. Newman and T. R. Northen | Need for Laboratory Ecosystems To Unravel the Structures and Functions of Soil Microbial Communities Mediated by Chemistry | mBio | 9(4) |
| 2018 | 10.1126/science.aas9793 | Davis, S. J., N. S. Lewis, M. Shaner, S. Aggarwal, D. Arent, et al. | Net-zero emissions energy systems | Science | 360(6396) |
| 2018 | 10.3389/fpls.2018.01669 | Badmi, R., R. S. Payyavula, G. Bali, H. B. Guo, S. S. Jawdy, et al. | A New Calmodulin-Binding Protein Expresses in the Context of Secondary Cell Wall Biosynthesis and Impacts Biomass Properties in Populus | Frontiers in Plant Science | 9 1669 |
| 2018 | 10.1111/gbi.12311 | Stanton, C. L., C. T. Reinhard, J. F. Kasting, N. E. Ostrom, J. A. Haslun, T. W. Lyons and J. B. Glass | Nitrous oxide from chemodenitrification: A possible missing link in the Proterozoic greenhouse and the evolution of aerobic respiration | Geobiology | 16(6) 597–609 |
| 2018 | 10.1128/mSystems.00039-18 | Rodriguez-R., L. M., S. Gunturu, J. M. Tiedje, J. R. Cole and K. T. Konstantinidis | Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity | mSystems | 3(3) |
| 2018 | 10.1002/aic.16354 | Conway, J. M., J. R. Crosby, A. P. Hren, R. T. Southerland, L. L. Lee, V. V. Lunin, P. Alahuhta, M. E. Himmel, Y. J. Bomble, M. W. W. Adams and R. M. Kelly | Novel multidomain, multifunctional glycoside hydrolases from highly lignocellulolytic Caldicellulosiruptor species | AIChE Journal | 64(12) 4218–28 |
| 2018 | 10.1002/yea.3283 | Peris, D., R. Pérez-Torrado, C. T. Hittinger, E. Barrio and A. Querol | On the origins and industrial applications of Saccharomyces cerevisiae × Saccharomyces kudriavzevii hybrids | Yeast | 35(1) 51-69 |
| 2018 | 10.1038/s41467-018-06993-6 | Al-Bassam, M. M., J. N. Kim, L. S. Zaramela, B. P. Kellman, C. Zuniga, J. M. Wozniak, D. J. Gonzalez and K. Zengler | Optimization of carbon and energy utilization through differential translational efficiency | Nature Communications | 9(1) 4474 |
| 2018 | 10.1021/acs.iecr.8b00065 | Kong, L. X. and C. T. Maravelias | An Optimization-Based Approach for Simultaneous Chemical Process and Heat Exchanger Network Synthesis | Industrial & Engineering Chemistry Research | 57(18) 6330–43 |
| 2018 | 10.1002/bbb.1821 | Ng, R. T. L., S. Patchin, W. Wu, N. Sheth and C. T. Maravelias | An optimization-based web application for synthesis and analysis of biomass-to-fuel strategies | Biofuels, Bioproducts and Biorefining | 12(2) 170-176 |
| 2018 | 10.1111/nph.15076 | Strullu-Derrien, C., M. A. Selosse, P. Kenrick and F. M. Martin | The origin and evolution of mycorrhizal symbioses: from palaeomycology to phylogenomics | New Phytologist | 220(4) 1012–30 |
| 2018 | 10.1111/tpj.13815 | Lomax, A., D. P. Woods, Y. Dong, F. Bouché, Y. Rong, K. S. Mayer, X. Zhong and R. M. Amasino | An ortholog of CURLY LEAF/ENHANCER OF ZESTE like-1 is required for proper flowering in Brachypodium distachyon | Plant Journal | 93(5) 871-882 |
| 2018 | 10.3389/fpls.2018.01902 | Liu, W., Y. Xiang, X. Zhang, G. Han, X. Sun, Y. Sheng, J. Yan, H. V. Scheller and A. Zhang | Over-Expression of a Maize N-Acetylglutamate Kinase Gene (ZmNAGK) Improves Drought Tolerance in Tobacco | Frontiers in Plant Science | 9 1902 |
| 2018 | 10.3390/inorganics6030075 | Mobley, J. K., J. A. Jennings, T. Morgan, A. Kiefer and M. Crocker | Oxidation of benzylic alcohols and lignin model compounds with layered double hydroxide catalysts | Inorganics | 6(3) |
| 2018 | 10.1007/s11101-017-9530-4 | Banerjee, A. and B. Hamberger | P450s controlling metabolic bifurcations in plant terpene specialized metabolism | Phytochemistry Reviews | 17(1) 81-111 |
| 2018 | 10.1016/j.parco.2018.03.009 | Joubert, W., J. Nance, D. Weighill and D. Jacobson | Parallel accelerated vector similarity calculations for genomics applications | Parallel Computing | 75 130–45 |
| 2018 | 10.1021/acssynbio.8b00243 | Goyal, G., Z. Costello, J. Alonso-Gutierrez, A. Kang, T. S. Lee, H. Garcia Martin and N. J. Hillson | Parallel Integration and Chromosomal Expansion of Metabolic Pathways | ACS Synthetic Biology | 7(11) 2566–76 |
| 2018 | 10.1038/s41467-017-02362-x | Kumar, A., L. Wang, C. Y. Ng and C. D. Maranas | Pathway design using de novo steps through uncharted biochemical spaces | Nature Communications | 9(1) 184 |
| 2018 | 10.2134/jeq2017.04.0177 | Jones, C. D., L. G. Oates, G. Philip Robertson and R. Cesar Izaurralde | Perennialization and cover cropping mitigate soil carbon loss from residue harvesting | Journal of Environmental Quality | 47(4) 710-717 |
| 2018 | 10.1016/j.plantsci.2018.06.012 | Liu, D., K. J. Palla, R. Hu, R. C. Moseley, C. Mendoza, M. Chen, P. E. Abraham, J. L. Labbe, U. C. Kalluri, T. J. Tschaplinski, J. C. Cushman, A. M. Borland, G. A. Tuskan and X. Yang | Perspectives on the basic and applied aspects of crassulacean acid metabolism (CAM) research | Plant Science | 274 394–401 |
| 2018 | 10.1073/pnas.1813192115 | Hogle, S. L., C. L. Dupont, B. M. Hopkinson, A. L. King, K. N. Buck, K. L. Roe, R. K. Stuart, A. E. Allen, E. L. Mann, Z. I. Johnson and K. A. Barbeau | Pervasive iron limitation at subsurface chlorophyll maxima of the California Current | Proceedings of the National Academy of Sciences of the United States of America | 115(52) 13300–5 |
| 2018 | 10.4236/jsbs.2018.81001 | Razar, R. M. and A. Missaoui | Phenotyping Winter Dormancy in Switchgrass to Extend the Growing Season and Improve Biomass Yield | Journal of Sustainable Bioenergy Systems | 8(1) 1–22 |
| 2018 | 10.1128/mSphere.00593-18 | Neumann, A. P. and G. Suen | The Phylogenomic Diversity of Herbivore-Associated Fibrobacter spp. Is Correlated to Lignocellulose-Degrading Potential | mSphere | 3(6) |
| 2018 | 10.28945/4551 | Neumann, A. P. and G. Suen | The phylogenomic diversity of herbivore-associated Fibrobacter spp. is correlated to lignocellulose-degrading potential | Informing Science | 3(6) |
| 2018 | 10.1093/gbe/evy187 | Higgins, S. A., C. W. Schadt, P. B. Matheny and F. E. Löffler | Phylogenomics reveal the dynamic evolution of fungal nitric oxide reductases and their relationship to secondary metabolism | Genome Biology and Evolution | 10(9) 2474-2489 |
| 2018 | 10.1111/1462-2920.14375 | Eizaguirre, J. I., D. Peris, M. E. Rodríguez, C. A. Lopes, P. De Los Ríos, C. T. Hittinger and D. Libkind | Phylogeography of the wild Lager-brewing ancestor (Saccharomyces eubayanus) in Patagonia | Environmental Microbiology | 20(10) 3732-3743 |
| 2018 | 10.1016/j.soilbio.2018.06.006 | Minerovic, A. J., O. J. Valverde-Barrantes and C. B. Blackwood | Physical and microbial mechanisms of decomposition vary in importance among root orders and tree species with differing chemical and morphological traits | Soil Biology and Biochemistry | 124 142–9 |
| 2018 | 10.1016/j.indcrop.2018.07.002 | Li, M., G. Yan, A. Bhalla, L. Maldonado-Pereira, P. R. Russell, S. Y. Ding, J. E. Mullet and D. B. Hodge | Physical fractionation of sweet sorghum and forage/energy sorghum for optimal processing in a biorefinery | Industrial Crops and Products | 124 607-616 |
| 2018 | 10.1111/gbi.12295 | Otwell, A. E., S. J. Callister, R. W. Sherwood, S. Zhang, A. R. Goldman, R. D. Smith and R. E. Richardson | Physiological and proteomic analyses of Fe(III)-reducing co-cultures of Desulfotomaculum reducens MI-1 and Geobacter sulfurreducens PCA | Geobiology | 16(5) 522–39 |
| 2018 | 10.1016/j.soilbio.2018.01.033 | Koyama, A., B. Harlow, C. R. Kuske, J. Belnap and R. D. Evans | Plant and microbial biomarkers suggest mechanisms of soil organic carbon accumulation in a Mojave Desert ecosystem under elevated CO2 | Soil Biology and Biochemistry | 120 48–57 |
| 2018 | 10.1016/j.soilbio.2018.09.013 | Shi, S. J., D. J. Herman, Z. L. He, J. Pett-Ridge, L. Y. Wu, J. Z. Zhou and M. K. Firestone | Plant roots alter microbial functional genes supporting root litter decomposition | Soil Biology and Biochemistry | 127 90–9 |
| 2018 | 10.1073/pnas.1809611115 | Coutinho, B. G., E. Mevers, A. L. Schaefer, D. A. Pelletier, C. S. Harwood, J. Clardy and E. P. Greenberg | A plant-responsive bacterial-signaling system senses an ethanolamine derivative | Proceedings of the National Academy of Sciences of the United States of America | 115(39) 9785–90 |
| 2018 | 10.1111/tpj.14102 | Ohlrogge, J., N. Thrower, V. Mhaske, S. Stymne, M. Baxter, W. Yang, J. Liu, K. Shaw, B. Shorrosh, M. Zhang, C. Wilkerson and B. Matthäus | PlantFAdb: a resource for exploring hundreds of plant fatty acid structures synthesized by thousands of plants and their phylogenetic relationships | Plant Journal | 96(6) 1299-1308 |
| 2018 | 10.3389/fenrg.2018.00030 | Weighill, D., P. Jones, M. Shah, P. Ranjan, W. Muchero, et al. | Pleiotropic and Epistatic Network-Based Discovery: Integrated Networks for Target Gene Discovery | Frontiers in Energy Research | 6 |
| 2018 | 10.1172/JCI93725 | Xiao, Z., J. Baudry, L. Cao, J. Huang, H. Chen, C. R. Yates, W. Li, B. Dong, C. M. Waters, J. C. Smith and L. D. Quarles | Polycystin-1 interacts with TAZ to stimulate osteoblastogenesis and inhibit adipogenesis | Journal of Clinical Investigation | 128(1) 157–74 |
| 2018 | 10.1186/s12864-018-5179-7 | Gould, B. A., J. D. Palacio-Mejia, J. Jenkins, S. Mamidi, K. Barry, J. Schmutz, T. E. Juenger and D. B. Lowry | Population genomics and climate adaptation of a C4 perennial grass, Panicum hallii (Poaceae) | BMC Genomics | 19(1) 792 |
| 2018 | 10.3389/fenrg.2018.00052 | Ong, R. G., S. Shinde, L. D. Sousa and G. R. Sanford | Pre-senescence Harvest of Switchgrass Inhibits Xylose Utilization by Engineered Yeast | Frontiers in Energy Research | 6 |
| 2018 | 10.1104/pp.17.00605 | Zuniga, C., J. Levering, M. R. Antoniewicz, M. T. Guarnieri, M. J. Betenbaugh and K. Zengler | Predicting Dynamic Metabolic Demands in the Photosynthetic Eukaryote Chlorella vulgaris | Plant Physiology | 176(1) 450–62 |
| 2018 | 10.1002/rcm.8157 | Ostrom, N. E., H. Gandhi, T. B. Coplen, S. Toyoda, J. K. Bohlke, W. A. Brand, K. L. Casciotti, J. Dyckmans, A. Giesemann, J. Mohn, R. Well, L. Yu and N. Yoshida | Preliminary assessment of stable nitrogen and oxygen isotopic composition of USGS51 and USGS52 nitrous oxide reference gases and perspectives on calibration needs | Rapid Communications in Mass Spectrometry | 32(15) 1207–14 |
| 2018 | 10.1016/j.apsoil.2018.08.001 | Torres-Cruz, T. J., C. Hesse, C. R. Kuske and A. Porras-Alfaro | Presence and distribution of heavy metal tolerant fungi in surface soils of a temperate pine forest | Applied Soil Ecology | 131 66–74 |
| 2018 | 10.1093/femsec/fiy130 | Stedtfeld, R. D., X. Guo, T. M. Stedtfeld, H. Sheng, M. R. Williams, et al. | Primer set 2.0 for highly parallel qPCR array targeting antibiotic resistance genes and mobile genetic elements | FEMS Microbiology Ecology | 94(9) |
| 2018 | 10.1021/acs.est.8b05176 | Baral, N. R., C. Quiroz-Arita and T. H. Bradley | Probabilistic Lifecycle Assessment of Butanol Production from Corn Stover Using Different Pretreatment Methods | Environmental Science & Technology | 52(24) 14528–37 |
| 2018 | 10.1021/acschembio.8b00422 | Curran, S. C., A. Hagen, S. Poust, L. J. G. Chan, B. M. Garabedian, T. de Rond, M. J. Baluyot, J. T. Vu, A. K. Lau, S. Yuzawa, C. J. Petzold, L. Katz and J. D. Keasling | Probing the Flexibility of an Iterative Modular Polyketide Synthase with Non-Native Substrates in Vitro | ACS Chemical Biology | 13(8) 2261–8 |
| 2018 | 10.1186/s12934-018-1045-1 | Wehrs, M., J. P. Prahl, J. Moon, Y. Li, D. Tanjore, J. D. Keasling, T. Pray and A. Mukhopadhyay | Production efficiency of the bacterial non-ribosomal peptide indigoidine relies on the respiratory metabolic state in S. cerevisiae | Microbial Cell Factories | 17(1) 193 |
| 2018 | 10.1007/s00253-018-9043-0 | Berim, A. and D. R. Gang | Production of methoxylated flavonoids in yeast using ring A hydroxylases and flavonoid O-methyltransferases from sweet basil | Applied Microbiology and Biotechnology | 102(13) 5585–98 |
| 2018 | 10.1007/s00299-018-2253-1 | Xu, W., W. Liu, R. Ye, M. Mazarei, D. Huang, X. Zhang and C. N. Stewart, Jr. | A profilin gene promoter from switchgrass (Panicum virgatum L.) directs strong and specific transgene expression to vascular bundles in rice | Plant Cell Reports | 37(4) 587–97 |
| 2018 | 10.3390/proteomes6040036 | Luxmi, R., C. Blaby-Haas, D. Kumar, N. Rauniyar, S. M. King, R. E. Mains and B. A. Eipper | Proteases Shape the Chlamydomonas Secretome: Comparison to Classical Neuropeptide Processing Machinery | Proteomes | 6(4) |
| 2018 | 10.1007/s00253-018-9265-1 | Baker, S. E. | Protein hyperproduction in fungi by design | Applied Microbiology and Biotechnology | 102(20) 8621–8 |
| 2018 | 10.1021/jacs.8b05200 | McConnell, S. A., B. R. Amer, J. Muroski, J. Fu, C. Chang, R. R. Ogorzalek Loo, J. A. Loo, J. Osipiuk, H. Ton-That and R. T. Clubb | Protein labeling via a specific lysine-isopeptide bond using the pilin polymerizing sortase from Corynebacterium diphtheriae | Journal of the American Chemical Society | 140(27) 8420-8423 |
| 2018 | 10.1186/s40679-018-0062-9 | Novikova, I. V., N. Sharma, T. Moser, R. Sontag, Y. Liu, M. J. Collazo, D. Cascio, T. Shokuhfar, H. Hellmann, M. Knoblauch and J. E. Evans | Protein structural biology using cell-free platform from wheat germ | Advanced Structural and Chemical Imaging | 4(1) |
| 2018 | 10.1007/s10040-017-1672-3 | Paradis, C. J., L. D. McKay, E. Perfect, J. D. Istok and T. C. Hazen | Push-pull tests for estimating effective porosity: expanded analytical solution and in situ application | Hydrogeology Journal | 26(2) 381–93 |
| 2018 | 10.1002/adbi.201800048 | Aufrecht, J. A., C. M. Timm, A. Bible, J. L. Morrell-Falvey, D. A. Pelletier, M. J. Doktycz and S. T. Retterer | Quantifying the Spatiotemporal Dynamics of Plant Root Colonization by Beneficial Bacteria in a Microfluidic Habitat | Advanced Biosystems | 2(6) |
| 2018 | 10.1093/femsec/fiy047 | Mayali, X. and P. K. Weber | Quantitative isotope incorporation reveals substrate partitioning in a coastal microbial community | FEMS Microbiology Ecology | 94(5) |
| 2018 | 10.1371/journal.pone.0190019 | Abraham, P. E., B. J. Garcia, L. E. Gunter, S. S. Jawdy, N. Engle, X. Yang, D. A. Jacobson, R. L. Hettich, G. A. Tuskan and T. J. Tschaplinski | Quantitative proteome profile of water deficit stress responses in eastern cottonwood (Populus deltoides) leaves | PLoS One | 13(2) e0190019 |
| 2018 | 10.1002/pmic.201700479 | Qian, C., H. Chen, A. Johs, X. Lu, J. An, E. M. Pierce, J. M. Parks, D. A. Elias, R. L. Hettich and B. Gu | Quantitative Proteomic Analysis of Biological Processes and Responses of the Bacterium Desulfovibrio desulfuricans ND132 upon Deletion of Its Mercury Methylation Genes | Proteomics | 18(17) e1700479 |
| 2018 | 10.1016/j.soilbio.2018.09.030 | Guber, A., A. Kravchenko, B. S. Razavi, D. Uteau, S. Peth, E. Blagodatskaya and Y. Kuzyakov | Quantitative soil zymography: Mechanisms, processes of substrate and enzyme diffusion in porous media | Soil Biology and Biochemistry | 127 156-167 |
| 2018 | 10.1038/s41396-018-0233-7 | Papp, K., R. L. Mau, M. Hayer, B. J. Koch, B. A. Hungate and E. Schwartz | Quantitative stable isotope probing with H218O reveals that most bacterial taxa in soil synthesize new ribosomal RNA | The ISME Journal | 12(12) 3043–5 |
| 2018 | 10.1186/s13068-018-1033-z | Milano, E. R., C. E. Payne, E. Wolfrum, J. Lovell, J. Jenkins, J. Schmutz and T. E. Juenger | Quantitative trait loci for cell wall composition traits measured using near-infrared spectroscopy in the model C4 perennial grass Panicum hallii | Biotechnology for Biofuels | 11 25 |
| 2018 | 10.3835/plantgenome2017.10.0093 | Tornqvist, C. E., M. Taylor, Y. Jiang, J. Evans, C. R. Buell, S. M. Kaeppler and M. D. Casler | Quantitative Trait Locus Mapping for Flowering Time in a Lowland x Upland Switchgrass Pseudo-F2 Population | Plant Genome | 11(2) |
| 2018 | 10.1021/acs.jpca.8b01751 | Lian, P., R. C. Johnston, J. M. Parks and J. C. Smith | Quantum Chemical Calculation of pKas of Environmentally Relevant Functional Groups: Carboxylic Acids, Amines, and Thiols in Aqueous Solution | Journal of Physical Chemistry A | 122(17) 4366–74 |
| 2018 | 10.1111/tpj.13849 | Fristedt, R., C. Hu, N. Wheatley, L. M. Roy, R. M. Wachter, L. Savage, J. Harbinson, D. M. Kramer, S. S. Merchant, T. Yeates and R. Croce | RAF2 is a RuBisCO assembly factor in Arabidopsis thaliana | Plant Journal | 94(1) 146-156 |
| 2018 | 10.1021/jacs.8b05544 | Si, T., Q. Tian, Y. Min, L. Zhang, J. V. Sweedler, W. A. van der Donk and H. Zhao | Rapid Screening of Lanthipeptide Analogs via In-Colony Removal of Leader Peptides in Escherichia coli | Journal of the American Chemical Society | 140(38) 11884–8 |
| 2018 | 10.1021/acsphotonics.8b00206 | Bar-Elli, O., D. Steinitz, G. Yang, R. Tenne, A. Ludwig, Y. Kuo, A. Triller, S. Weiss and D. Oron | Rapid Voltage Sensing with Single Nanorods via the Quantum Confined Stark Effect | ACS Photonics | 5(7) 2860-2867 |
| 2018 | 10.1128/AEM.01185-18 | Cecil, J. H., D. C. Garcia, R. J. Giannone and J. K. Michener | Rapid, Parallel Identification of Catabolism Pathways of Lignin-Derived Aromatic Compounds in Novosphingobium aromaticivorans | Applied and Environmental Microbiology | 84(22) |
| 2018 | 10.1016/j.copbio.2017.12.006 | Liu, H. and A. M. Deutschbauer | Rapidly moving new bacteria to model-organism status | Current Opinion in Biotechnology | 51 116–22 |
| 2018 | 10.1186/s13068-018-1023-1 | Song, B., B. Li, X. Wang, W. Shen, S. Park, C. Collings, A. Feng, S. J. Smith, J. D. Walton and S. Y. Ding | Real-time imaging reveals that lytic polysaccharide monooxygenase promotes cellulase activity by increasing cellulose accessibility | Biotechnology for Biofuels | 11 41 |
| 2018 | 10.1016/j.ymben.2018.04.011 | Lian, J., S. Mishra and H. Zhao | Recent advances in metabolic engineering of Saccharomyces cerevisiae: New tools and their applications | Metabolic Engineering | 50 85–108 |
| 2018 | 10.3389/fpls.2018.01535 | Zhang, J., M. Xie, G. A. Tuskan, W. Muchero and J. G. Chen | Recent Advances in the Transcriptional Regulation of Secondary Cell Wall Biosynthesis in the Woody Plants | Frontiers in Plant Science | 9 1535 |
| 2018 | 10.1039/c8gc00353j | Shinde, S. D., X. Z. Meng, R. Kumar and A. J. Ragauskas | Recent advances in understanding the pseudo-lignin formation in a lignocellulosic biorefinery | Green Chemistry | 20(10) 2192–205 |
| 2018 | 10.1099/ijsem.0.002942 | Dobritsa, A. P., K. K. Kutumbaka and M. Samadpour | Reclassification of Eubacterium combesii and discrepancies in the nomenclature of botulinum neurotoxin-producing clostridia: Challenging Opinion 69. Request for an Opinion | International Journal of Systematic and Evolutionary Microbiology | 68(9) 3068–75 |
| 2018 | 10.1007/978-1-4939-7528-0_5 | Edirisinghe, J. N., J. P. Faria, N. L. Harris, B. H. Allen and C. S. Henry | Reconstruction and Analysis of Central Metabolism in Microbes | Metabolic Network Reconstruction and Modeling: Methods and Protocols | 1716 111–29 |
| 2018 | 10.1371/journal.pone.0195143 | Zheng, T., A. A. Lanahan, L. R. Lynd and D. G. Olson | The redox-sensing protein Rex modulates ethanol production in Thermoanaerobacterium saccharolyticum | PLoS One | 13(4) e0195143 |
| 2018 | 10.1021/acssuschemeng.8b02741 | Stone, M. L., E. M. Anderson, K. M. Meek, M. Reed, R. Katahira, F. Chen, R. A. Dixon, G. T. Beckham and Y. Roman-Leshkoy | Reductive Catalytic Fractionation of C-Lignin | ACS Sustainable Chemistry & Engineering | 6(9) 11211–8 |
| 2018 | 10.1002/cssc.201800617 | Regner, M., A. Bartuce, D. Padmakshan, J. Ralph and S. D. Karlen | Reductive Cleavage Method for Quantitation of Monolignols and Low-Abundance Monolignol Conjugates | ChemSusChem | 11(10) 1600–5 |
| 2018 | 10.1002/cssc.201800958 | Regner, M., A. Bartuce, D. Padmakshan, J. Ralph and S. D. Karlen | Reductive cleavage method for quantitation of monolignols and low-abundance monolignol conjugates | ChemSusChem | 11(10) 1580 |
| 2018 | 10.3389/fpls.2018.01427 | Xie, M., J. Zhang, T. J. Tschaplinski, G. A. Tuskan, J. G. Chen and W. Muchero | Regulation of Lignin Biosynthesis and Its Role in Growth-Defense Tradeoffs | Frontiers in Plant Science | 9 1427 |
| 2018 | 10.1128/mSphere.00541-18 | Pomraning, K. R., E. L. Bredeweg, E. J. Kerkhoven, K. Barry, S. Haridas, H. Hundley, K. LaButti, A. Lipzen, M. Yan, J. K. Magnuson, B. A. Simmons, I. V. Grigoriev, J. Nielsen and S. E. Baker | Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica | mSphere | 3(6) |
| 2018 | 10.1105/tpc.18.00194 | Liu, M. J., K. Sugimoto, S. Uygun, N. Panchy, M. S. Campbell, M. Yandell, G. A. Howe and S. H. Shiu | Regulatory Divergence in Wound-Responsive Gene Expression between Domesticated and Wild Tomato | The Plant Cell | 30(7) 1445–60 |
| 2018 | 10.1186/s13068-018-1272-z | Liu, C. L., T. Tian, J. Alonso-Gutierrez, B. Garabedian, S. Wang, E. E. K. Baidoo, V. Benites, Y. Chen, C. J. Petzold, P. D. Adams, J. D. Keasling, T. Tan and T. S. Lee | Renewable production of high density jet fuel precursor sesquiterpenes from Escherichia coli | Biotechnology for Biofuels | 11 285 |
| 2018 | 10.1093/molbev/msy102 | Kuang, M. C., J. Kominek, W. G. Alexander, J. F. Cheng, R. L. Wrobel and C. T. Hittinger | Repeated Cis-Regulatory Tuning of a Metabolic Bottleneck Gene during Evolution | Molecular Biology and Evolution | 35(8) 1968–81 |
| 2018 | 10.1016/j.agrformet.2018.06.020 | Zou, J., B. Tobin, Y. Luo and B. Osborne | Response of soil respiration and its components to experimental warming and water addition in a temperate Sitka spruce forest ecosystem | Agricultural and Forest Meteorology | 260-261 204-215 |
| 2018 | 10.1186/s12934-018-1006-8 | Eng, T., P. Demling, R. A. Herbert, Y. Chen, V. Benites, J. Martin, A. Lipzen, E. E. K. Baidoo, L. M. Blank, C. J. Petzold and A. Mukhopadhyay | Restoration of biofuel production levels and increased tolerance under ionic liquid stress is enabled by a mutation in the essential Escherichia coli gene cydC | Microbial Cell Factories | 17(1) 159 |
| 2018 | 10.1186/s13068-018-1167-z | Zuo, C., M. Blow, A. Sreedasyam, R. C. Kuo, G. K. Ramamoorthy, I. Torres-Jerez, G. Li, M. Wang, D. Dilworth, K. Barry, M. Udvardi, J. Schmutz, Y. Tang and Y. Xu | Revealing the transcriptomic complexity of switchgrass by PacBio long-read sequencing | Biotechnology for Biofuels | 11 170 |
| 2018 | 10.1186/s13068-018-1248-z | Ghosh, S., E. K. Holwerda, R. S. Worthen, L. R. Lynd and B. P. Epps | Rheological properties of corn stover slurries during fermentation by Clostridium thermocellum | Biotechnology for Biofuels | 11 246 |
| 2018 | 10.1002/bit.26570 | HamediRad, M., J. Lian, H. Li and H. Zhao | RNAi assisted genome evolution unveils yeast mutants with improved xylose utilization | Biotechnology and Bioengineering | 115(6) 1552–60 |
| 2018 | 10.1002/aic.16396 | Ralston, M. T. and E. T. Papoutsakis | RNAseq-based transcriptome assembly of Clostridium acetobutylicum for functional genome annotation and discovery | AIChE Journal | 64(12) 4271–80 |
| 2018 | 10.1094/PBIOMES-03-18-0012-R | Gomes, E. A., U. G. P. Lana, J. F. Quensen, S. M. De Sousa, C. A. Oliveira, J. Guo, L. J. M. Guimarães and J. M. Tiedje | Root-associated microbiome of maize genotypes with contrasting phosphorus use efficiency | Phytobiomes Journal | 2(3) 129-137 |
| 2018 | 10.1007/s12275-018-8024-4 | La Reau, A. J. and G. Suen | The Ruminococci: key symbionts of the gut ecosystem | Journal of Microbiology | 56(3) 199–208 |
| 2018 | 10.1111/nph.15001 | Looney, B. P., P. Meidl, M. J. Piatek, O. Miettinen, F. M. Martin, P. B. Matheny and J. L. Labbe | Russulaceae: a new genomic dataset to study ecosystem function and evolutionary diversification of ectomycorrhizal fungi with their tree associates | New Phytologist | 218(1) 54–65 |
| 2018 | 10.1021/acs.est.8b02314 | Li, W., H. Li, Y. D. Liu, P. Zheng and J. P. Shapleigh | Salinity-Aided Selection of Progressive Onset Denitrifiers as a Means of Providing Nitrite for Anammox | Environmental Science & Technology | 52(18) 10665–72 |
| 2018 | 10.1016/j.ebiom.2018.04.005 | Nickerson, K. P., S. Senger, Y. Zhang, R. Lima, S. Patel, L. Ingano, W. A. Flavahan, D. K. V. Kumar, C. M. Fraser, C. S. Faherty, M. B. Sztein, M. Fiorentino and A. Fasano | Salmonella Typhi Colonization Provokes Extensive Transcriptional Changes Aimed at Evading Host Mucosal Immune Defense During Early Infection of Human Intestinal Tissue | EBioMedicine | 31 92–109 |
| 2018 | 10.1007/s11103-017-0696-3 | Sade, N., M. Del Mar Rubio Wilhelmi, X. Ke, Y. Brotman, M. Wright, I. Khan, W. De Souza, E. Bassil, C. M. Tobias, R. Thilmony, J. P. Vogel and E. Blumwald | Salt tolerance of two perennial grass Brachypodium sylvaticum accessions | Plant Molecular Biology | 96(3) 305–14 |
| 2018 | 10.1111/tpj.14047 | Handakumbura, P. P., K. Brow, I. P. Whitney, K. Zhao, K. A. Sanguinet, et al. | Secondary wall associated MYB1 is a positive regulator of secondary cell wall thickening in Brachypodium distachyon and is not found in the Brassicaceae | The Plant Journal | 96(3) 532–45 |
| 2018 | 10.3389/fpls.2018.01895 | Olins, J. R., L. Lin, S. J. Lee, G. M. Trabucco, K. J. MacKinnon and S. P. Hazen | Secondary Wall Regulating NACs Differentially Bind at the Promoter at a Cellulose Synthase A4 Cis-eQTL | Frontiers in Plant Science | 9 1895 |
| 2018 | 10.3389/fmicb.2018.00141 | de Freitas Pereira, M., C. Veneault-Fourrey, P. Vion, F. Guinet, E. Morin, et al. | Secretome Analysis from the Ectomycorrhizal Ascomycete Cenococcum geophilum | Frontiers in Microbiology | 9 141 |
| 2018 | 10.1029/2017jg004298 | Wik, M., J. E. Johnson, P. M. Crill, J. P. DeStasio, L. Erickson, M. J. Halloran, M. F. Fahnestock, M. K. Crawford, S. C. Phillips and R. K. Varner | Sediment Characteristics and Methane Ebullition in Three Subarctic Lakes | Journal of Geophysical Research: Biogeosciences | 123(8) 2399–411 |
| 2018 | 10.1186/s13068-018-1334-2 | Na, G., N. Aryal, A. Fatihi, J. Kang and C. Lu | Seed-specific suppression of ADP-glucose pyrophosphorylase in Camelina sativa increases seed size and weight | Biotechnology for Biofuels | 11 330 |
| 2018 | 10.1038/s41598-018-24486-w | DeLorenzo, D. M. and T. S. Moon | Selection of stable reference genes for RT-qPCR in Rhodococcus opacus PD630 | Scientific Reports | 8(1) 6019 |
| 2018 | 10.1534/genetics.118.301487 | Gage, J. L., M. R. White, J. W. Edwards, S. Kaeppler and N. de Leon | Selection signatures underlying dramatic male inflorescence transformation during modern hybrid maize breeding | Genetics | 210(3) 1125-1138 |
| 2018 | 10.1002/cssc.201800598 | Gao, R., Y. Li, H. Kim, J. K. Mobley and J. Ralph | Selective Oxidation of Lignin Model Compounds | ChemSusChem | 11(13) 2045–50 |
| 2018 | 10.1093/jxb/erx241 | Yang, J. and M. Udvardi | Senescence and nitrogen use efficiency in perennial grasses for forage and biofuel production | Journal of Experimental Botany | 69(4) 855–65 |
| 2018 | 10.1007/s12155-017-9878-8 | Zhang, L., T. E. Juenger, J. M. Osorio and K. D. Behrman | Sensitivity Analysis of the APEX Model for Assessing Sustainability of Switchgrass Grown for Biofuel Production in Central Texas | BioEnergy Research | 11(1) 69–85 |
| 2018 | 10.1016/j.scitotenv.2017.09.239 | Lin, Y., S. D. Karlen, J. Ralph and J. Y. King | Short-term facilitation of microbial litter decomposition by ultraviolet radiation | Science of the Total Environment | 615 838-848 |
| 2018 | 10.1128/AEM.00598-18 | Albright, M. B. N., R. Johansen, D. Lopez, V. Gallegos-Graves, B. Steven, C. R. Kuske and J. Dunbar | Short-Term Transcriptional Response of Microbial Communities to Nitrogen Fertilization in a Pine Forest Soil | Applied and Environmental Microbiology | 84(15) |
| 2018 | 10.1007/978-3-319-93594-2_9 | Taniguchi, M. and A. B. Cousins | Significance of and C4 Cellular Leaf Structure Levels at the Tissue | The Leaf: A Platform for Performing Photosynthesis | 44 255–79 |
| 2018 | 10.1021/acssuschemeng.7b03586 | Yoo, C. G., A. Dumitrache, W. Muchero, J. Natzke, H. Akinosho, M. Li, R. W. Sikes, S. D. Brown, B. Davison, G. A. Tuskan, Y. Q. Pu and A. J. Ragauskas | Significance of Lignin S/G Ratio in Biomass Recalcitrance of Populus trichocarpa Variants for Bioethanol Production | ACS Sustainable Chemistry & Engineering | 6(2) 2162–8 |
| 2018 | 10.1016/j.synbio.2017.12.001 | Abdel-Mawgoud, A. M. and G. Stephanopoulos | Simple glycolipids of microbes: Chemistry, biological activity and metabolic engineering | Synthetic and Systems Biotechnology | 3(1) 3–19 |
| 2018 | 10.1021/acs.iecr.8b04083 | Ryu, J. and C. T. Maravelias | Simultaneous Process and Heat Exchanger Network Synthesis Using a Discrete Temperature Grid | Industrial & Engineering Chemistry Research | 58(15) 6002–16 |
| 2018 | 10.1002/pmic.201800123 | Basisty, N., J. G. Meyer, L. Wei, B. W. Gibson and B. Schilling | Simultaneous Quantification of the Acetylome and Succinylome by 'One-Pot' Affinity Enrichment | Proteomics | 18(17) e1800123 |
| 2018 | 10.1371/journal.pone.0199125 | Du, N., P. Gholami, D. I. Kline, C. L. DuPont, A. G. Dickson, D. Mendola, T. Martz, A. E. Allen and B. G. Mitchell | Simultaneous quantum yield measurements of carbon uptake and oxygen evolution in microalgal cultures | PLoS One | 13(6) e0199125 |
| 2018 | 10.3389/fmicb.2018.00570 | Youngblut, N. D., S. E. Barnett and D. H. Buckley | SIPSim: A Modeling Toolkit to Predict Accuracy and Aid Design of DNA-SIP Experiments | Frontiers in Microbiology | 9 570 |
| 2018 | 10.1128/AEM.00597-18 | Jones, A. J., A. G. Fast, M. Clupper and E. T. Papoutsakis | Small and Low but Potent: the Complex Regulatory Role of the Small RNA SolB in Solventogenesis in Clostridium acetobutylicum | Applied and Environmental Microbiology | 84(14) |
| 2018 | 10.1038/s41579-018-0004-5 | Zengler, K. and L. S. Zaramela | The social network of microorganisms - how auxotrophies shape complex communities | Nature Reviews Microbiology | 16(6) 383–90 |
| 2018 | 10.1128/mSystems.00076-18 | Trubl, G., H. B. Jang, S. Roux, J. B. Emerson, N. Solonenko, et al. | Soil Viruses Are Underexplored Players in Ecosystem Carbon Processing | mSystems | 3(5) |
| 2018 | 10.1002/cssc.201701798 | Sun, J., D. Liu, R. P. Young, A. G. Cruz, N. G. Isern, T. Schuerg, J. R. Cort, B. A. Simmons and S. Singh | Solubilization and Upgrading of High Polyethylene Terephthalate Loadings in a Low-Costing Bifunctional Ionic Liquid | ChemSusChem | 11(4) 781–92 |
| 2018 | 10.1002/pld3.70 | Xia, J., Y. Zhao, P. Burks, M. Pauly and P. J. Brown | A sorghum NAC gene is associated with variation in biomass properties and yield potential | Plant Direct | 2(7) e00070 |
| 2018 | 10.1002/pld3.85 | Casto, A. L., B. A. McKinley, K. M. J. Yu, W. L. Rooney and J. E. Mullet | Sorghum stem aerenchyma formation is regulated by SbNAC_D during internode development | Plant Direct | 2(11) e00085 |
| 2018 | 10.1093/femsyr/foy011 | Su, Y. K., L. B. Willis, L. Rehmann, D. R. Smith and T. W. Jeffries | Spathaspora passalidarum selected for resistance to AFEX hydrolysate shows decreased cell yield | FEMS Yeast Research | 18(6) |
| 2018 | 10.3390/pr6050041 | Song, H. S. | Special Issue: Microbial Community Modeling: Prediction of Microbial Interactions and Community Dynamics | Processes | 6(5) |
| 2018 | 10.1038/s41564-018-0178-7 | Guo, J., S. Wilken, V. Jimenez, C. J. Choi, C. Ansong, et al. | Specialized proteomic responses and an ancient photoprotection mechanism sustain marine green algal growth during phosphate limitation | Nature Microbiology | 3(7) 781–90 |
| 2018 | 10.1038/s41467-018-04593-y | Valdovinos, F. S., E. L. Berlow, P. Moisset de Espanes, R. Ramos-Jiliberto, D. P. Vazquez and N. D. Martinez | Species traits and network structure predict the success and impacts of pollinator invasions | Nature Communications | 9(1) 2153 |
| 2018 | 10.1093/molbev/msy166 | Langdon, Q. K., D. Peris, B. Kyle and C. T. Hittinger | sppIDer: A Species Identification Tool to Investigate Hybrid Genomes with High-Throughput Sequencing | Molecular Biology and Evolution | 35(11) 2835–49 |
| 2018 | 10.1007/s00253-018-9062-x | Huang, G. L., J. E. Gosschalk, Y. S. Kim, R. R. Ogorzalek Loo and R. T. Clubb | Stabilizing displayed proteins on vegetative Bacillus subtilis cells | Applied Microbiology and Biotechnology | 102(15) 6547-6565 |
| 2018 | 10.1186/s40168-018-0499-z | Starr, E. P., S. Shi, S. J. Blazewicz, A. J. Probst, D. J. Herman, M. K. Firestone and J. F. Banfield | Stable isotope informed genome-resolved metagenomics reveals that Saccharibacteria utilize microbially-processed plant-derived carbon | Microbiome | 6(1) 122 |
| 2018 | 10.1088/1748-9326/aae6e3 | Cui, X. G., O. Kavvada, T. Huntington and C. D. Scown | Strategies for near-term scale-up of cellulosic biofuel production using sorghum and crop residues in the US | Environmental Research Letters | 13(12) |
| 2018 | 10.1002/bbb.1825 | Yang, B., L. Tao and C. E. Wyman | Strengths, challenges, and opportunities for hydrothermal pretreatment in lignocellulosic biorefineries | Biofuels, Bioproducts and Biorefining | 12(1) 125–38 |
| 2018 | 10.1128/mBio.01993-17 | Filippova, E. V., B. Zemaitaitis, T. Aung, A. J. Wolfe and W. F. Anderson | Structural Basis for DNA Recognition by the Two-Component Response Regulator RcsB | mBio | 9(1) |
| 2018 | 10.1021/acs.jafc.8b00880 | Del Rio, J. C., J. Rencoret, A. Gutierrez, H. Kim and J. Ralph | Structural Characterization of Lignin from Maize (Zea mays L.) Fibers: Evidence for Diferuloylputrescine Incorporated into the Lignin Polymer in Maize Kernels | Journal of Agricultural and Food Chemistry | 66(17) 4402–13 |
| 2018 | 10.1021/acs.jafc.8b02014 | Dou, J., H. Kim, Y. Li, D. Padmakshan, F. Yue, J. Ralph and T. Vuorinen | Structural Characterization of Lignins from Willow Bark and Wood | Journal of Agricultural and Food Chemistry | 66(28) 7294–300 |
| 2018 | 10.1016/j.chembiol.2018.04.014 | Kohler, A. C., B. A. Simmons and K. L. Sale | Structure-based Engineering of a Plant-Fungal Hybrid Peroxidase for Enhanced Temperature and pH Tolerance | Cell Chemical Biology | 25(8) 974–83.e3 |
| 2018 | 10.1186/s13068-018-1087-y | Yao, L., C. G. Yoo, X. Meng, M. Li, Y. Pu, A. J. Ragauskas and H. Yang | A structured understanding of cellobiohydrolase I binding to poplar lignin fractions after dilute acid pretreatment | Biotechnology for Biofuels | 11 96 |
| 2018 | 10.1038/s41594-017-0018-0 | Gallagher-Jones, M., C. Glynn, D. R. Boyer, M. W. Martynowycz, E. Hernandez, et al. | Sub-ångström cryo-EM structure of a prion protofibril reveals a polar clasp | Nature Structural and Molecular Biology | 25(2) 131-134 |
| 2018 | 10.1111/tpj.14021 | Iwai, M., M. S. Roth and K. K. Niyogi | Subdiffraction-resolution live-cell imaging for visualizing thylakoid membranes | The Plant Journal | 96(1) 233–43 |
| 2018 | 10.1128/AEM.00399-18 | McGlynn, S. E., G. L. Chadwick, A. O'Neill, M. Mackey, A. Thor, T. J. Deerinck, M. H. Ellisman and V. J. Orphan | Subgroup Characteristics of Marine Methane-Oxidizing ANME-2 Archaea and Their Syntrophic Partners as Revealed by Integrated Multimodal Analytical Microscopy | Applied and Environmental Microbiology | 84(11) |
| 2018 | 10.1021/acscatal.7b04114 | Langan, P. S., V. G. Vandavasi, C. J. Cooper, K. L. Weiss, S. L. Ginell, J. M. Parks and L. Coates | Substrate Binding Induces Conformational Changes in a Class A β-lactamase That Prime It for Catalysis | ACS Catalysis | 8(3) 2428–37 |
| 2018 | 10.3389/fmicb.2018.00364 | Carlos, C., H. Fan and C. R. Currie | Substrate shift reveals roles for members of bacterial consortia in degradation of plant cell wall polymers | Frontiers in Microbiology | 9(MAR) |
| 2018 | 10.1016/j.bej.2017.11.015 | Henske, J. K., S. D. Springer, M. A. O'Malley and A. Butler | Substrate-based differential expression analysis reveals control of biomass degrading enzymes in Pycnoporus cinnabarinus | Biochemical Engineering Journal | 130 83–9 |
| 2018 | 10.1111/gcb.14333 | Shi, Z., Y. Lin, K. R. Wilcox, L. Souza, L. Jiang, J. Jiang, C. G. Jung, X. Xu, M. Yuan, X. Guo, L. Wu, J. Zhou and Y. Luo | Successional change in species composition alters climate sensitivity of grassland productivity | Global Change Biology | 24(10) 4993–5003 |
| 2018 | 10.1038/nbt.4067 | Biswal, A. K., M. A. Atmodjo, M. Li, H. L. Baxter, C. G. Yoo, et al. | Sugar release and growth of biofuel crops are improved by downregulation of pectin biosynthesis | Nature Biotechnology | 36(3) 249–57 |
| 2018 | 10.1002/bit.26582 | Bhagia, S., J. F. S. Ferreira, N. Kothari, A. Nunez, X. Liu, N. da Silva Dias, D. L. Suarez, R. Kumar and C. E. Wyman | Sugar yield and composition of tubers from Jerusalem Artichoke (Helianthus tuberosus) irrigated with saline waters | Biotechnology and Bioengineering | 115(6) 1475–84 |
| 2018 | 10.1002/anie.201708867 | Stadlmeier, M., J. Bogena, M. Wallner, M. Wuhr and T. Carell | A Sulfoxide-Based Isobaric Labelling Reagent for Accurate Quantitative Mass Spectrometry | Angewandte Chemie International Edition | 57(11) 2958–62 |
| 2018 | 10.1186/s13007-018-0318-3 | Wang, P., L. Guo, R. Jaini, A. Klempien, R. M. McCoy, J. A. Morgan, N. Dudareva and C. Chapple | A 13C isotope labeling method for the measurement of lignin metabolic flux in Arabidopsis stems | Plant Methods | 14 51 |
| 2018 | 10.1016/j.cherd.2018.07.015 | Ramapriya, G. M., W. Y. Won and C. T. Maravelias | A superstructure optimization approach for process synthesis under complex reaction networks | Chemical Engineering Research & Design | 137 589–608 |
| 2018 | 10.1111/nph.14970 | de Souza, W. R., P. K. Martins, J. Freeman, T. K. Pellny, L. V. Michaelson, et al. | Suppression of a single BAHD gene in Setaria viridis causes large, stable decreases in cell wall feruloylation and increases biomass digestibility | New Phytologist | 218(1) 81-93 |
| 2018 | 10.1111/tpj.14088 | Sechet, J., S. Htwe, B. Urbanowicz, A. Agyeman, W. Feng, T. Ishikawa, M. Colomes, K. S. Kumar, M. Kawai-Yamada, J. R. Dinneny, M. A. O'Neill and J. C. Mortimer | Suppression of Arabidopsis GGLT1 affects growth by reducing the L-galactose content and borate cross-linking of rhamnogalacturonan-II | The Plant Journal | 96(5) 1036–50 |
| 2018 | 10.1002/anie.201712286 | Choi, T. S., J. Lee, J. Y. Han, B. C. Jung, P. Wongkongkathep, J. A. Loo, M. J. Lee and H. I. Kim | Supramolecular Modulation of Structural Polymorphism in Pathogenic α-Synuclein Fibrils Using Copper(II) Coordination | Angewandte Chemie - International Edition | 57(12) 3099-3103 |
| 2018 | 10.1186/s13068-018-1119-7 | Liu, W., M. Mazarei, R. Ye, Y. Peng, Y. Shao, H. L. Baxter, R. W. Sykes, G. B. Turner, M. F. Davis, Z. Y. Wang, R. A. Dixon and C. N. Stewart, Jr. | Switchgrass (Panicum virgatum L.) promoters for green tissue-specific expression of the MYB4 transcription factor for reduced-recalcitrance transgenic switchgrass | Biotechnology for Biofuels | 11 122 |
| 2018 | 10.1186/s13068-018-1285-7 | Wu, W. and C. T. Maravelias | Synthesis and techno-economic assessment of microbial-based processes for terpenes production | Biotechnology for Biofuels | 11 294 |
| 2018 | 10.1055/s-0036-1591556 | Timokhin, V., M. Regner, Y. Tsuji, J. Grabber and J. Ralph | Synthesis of Nepetoidin B | Synlett | 29(9) 1229-1231 |
| 2018 | 10.1007/s10295-018-2021-9 | Yuzawa, S., T. W. H. Backman, J. D. Keasling and L. Katz | Synthetic biology of polyketide synthases | Journal of Industrial Microbiology and Biotechnology | 45(7) 621–33 |
| 2018 | 10.1038/s41467-018-06289-9 | Lai, Y. S., G. Stefano, S. Zemelis-Durfee, C. Ruberti, L. Gibbons and F. Brandizzi | Systemic signaling contributes to the unfolded protein response of the plant endoplasmic reticulum | Nature Communications | 9(1) |
| 2018 | 10.1186/s13068-018-1134-8 | Wang, Y., S. Zhang, Z. Zhu, H. Shen, X. Lin, X. Jin, X. Jiao and Z. K. Zhao | Systems analysis of phosphate-limitation-induced lipid accumulation by the oleaginous yeast Rhodosporidium toruloides | Biotechnology for Biofuels | 11 148 |
| 2018 | 10.3389/fbioe.2018.00117 | Martins-Santana, L., L. C. Nora, A. Sanches-Medeiros, G. L. Lovate, M. H. A. Cassiano and R. Silva-Rocha | Systems and Synthetic Biology Approaches to Engineer Fungi for Fine Chemical Production | Frontiers in Bioengineering and Biotechnology | 6 117 |
| 2018 | 10.3389/fmicb.2018.00954 | Guo, X., X. Zhou, L. Hale, M. Yuan, J. Feng, et al. | Taxonomic and Functional Responses of Soil Microbial Communities to Annual Removal of Aboveground Plant Biomass | Frontiers in Microbiology | 9 954 |
| 2018 | 10.1111/1462-2920.14051 | Morrissey, E. M., R. L. Mau, E. Schwartz, B. J. Koch, M. Hayer and B. A. Hungate | Taxonomic patterns in the nitrogen assimilation of soil prokaryotes | Environmental Microbiology | 20(3) 1112–9 |
| 2018 | 10.1016/j.cell.2018.10.023 | Shen, X. X., D. A. Opulente, J. Kominek, X. Zhou, J. L. Steenwyk, et al. | Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum | Cell | 175(6) 1533–45.e20 |
| 2018 | 10.1016/j.resconrec.2018.08.022 | Breunig, H. M., T. Huntington, L. Jin, A. Robinson and C. D. Scown | Temporal and geographic drivers of biomass residues in California | Resources, Conservation and Recycling | 139 287–97 |
| 2018 | 10.1021/acs.chemrev.7b00763 | Nutting, J. E., M. Rafiee and S. S. Stahl | Tetramethylpiperidine N-Oxyl (TEMPO), Phthalimide N-Oxyl (PINO), and related N-Oxyl Species: Electrochemical properties and their use in electrocatalytic reactions | Chemical Reviews | 118(9) 4834-4885 |
| 2018 | 10.1039/c8ee00460a | Jayakody, L. N., C. W. Johnson, J. M. Whitham, R. J. Giannone, B. A. Black, et al. | Thermochemical wastewater valorization via enhanced microbial toxicity tolerance | Energy & Environmental Science | 11(6) 1625–38 |
| 2018 | 10.1093/pcp/pcy180 | Ebert, B., D. Birdseye, A. J. M. Liwanag, T. Laursen, E. A. Rennie, et al. | The Three Members of the Arabidopsis Glycosyltransferase Family 92 are Functional β-1,4-Galactan Synthases | Plant Cell Physiolology | 59(12) 2624–36 |
| 2018 | 10.1111/1365-2745.12915 | Peay, K. G. | Timing of mutualist arrival has a greater effect on Pinus muricata seedling growth than interspecific competition | Journal of Ecology | 106(2) 514–23 |
| 2018 | 10.1016/j.str.2018.01.006 | Kovalevsky, A., M. Aggarwal, H. Velazquez, M. J. Cuneo, M. P. Blakeley, K. L. Weiss, J. C. Smith, S. Z. Fisher and R. McKenna | To Be or Not to Be Protonated: Atomic Details of Human Carbonic Anhydrase-Clinical Drug Complexes by Neutron Crystallography and Simulation | Structure | 26(3) 383–90.e3 |
| 2018 | 10.1111/pbi.12772 | Poliner, E., J. A. Pulman, K. Zienkiewicz, K. Childs, C. Benning and E. M. Farré | A toolkit for Nannochloropsis oceanica CCMP1779 enables gene stacking and genetic engineering of the eicosapentaenoic acid pathway for enhanced long-chain polyunsaturated fatty acid production | Plant Biotechnology Journal | 16(1) 298-309 |
| 2018 | 10.1002/slct.201801837 | Jung, S., H. L. Trajano, C. G. Yoo, M. B. Foston, F. Hu, A. K. Tolbert, C. E. Wyman and A. J. Ragauskas | Topochemical Understanding of Lignin Distribution During Hydrothermal Flowthrough Pretreatment | ChemistrySelect | 3(32) 9348–52 |
| 2018 | 10.1126/sciadv.aap9722 | Motagamwala, A. H., W. Won, C. Sener, D. M. Alonso, C. T. Maravelias and J. A. Dumesic | Toward biomass-derived renewable plastics: Production of 2,5-furandicarboxylic acid from fructose | Science Advances | 4(1) |
| 2018 | 10.1073/pnas.1720129115 | Wu, W., F. Liu and S. Singh | Toward engineering E. coli with an autoregulatory system for lignin valorization | Proceedings of the National Academy of Sciences of the United States of America | 115(12) 2970–5 |
| 2018 | 10.1002/bit.26530 | Alonso-Gutierrez, J., D. Koma, Q. Hu, Y. Yang, L. J. G. Chan, C. J. Petzold, P. D. Adams, C. E. Vickers, L. K. Nielsen, J. D. Keasling and T. S. Lee | Toward industrial production of isoprenoids in Escherichia coli: Lessons learned from CRISPR-Cas9 based optimization of a chromosomally integrated mevalonate pathway | Biotechnology and Bioengineering | 115(4) 1000–13 |
| 2018 | 10.1038/s41564-018-0124-8 | Garza, D. R., M. C. van Verk, M. A. Huynen and B. E. Dutilh | Towards predicting the environmental metabolome from metagenomics with a mechanistic model | Nature Microbiology | 3(4) 456–60 |
| 2018 | 10.1093/jxb/ery225 | Bansal, S., H. J. Kim, G. Na, M. E. Hamilton, E. B. Cahoon, C. Lu and T. P. Durrett | Towards the synthetic design of camelina oil enriched in tailored acetyl-triacylglycerols with medium-chain fatty acids | Journal of Experimental Botany | 69(18) 4395–402 |
| 2018 | 10.1080/01490451.2017.1321068 | Glass, J. B., S. Chen, K. S. Dawson, D. R. Horton, S. Vogt, E. D. Ingall, B. S. Twining and V. J. Orphan | Trace Metal Imaging of Sulfate-Reducing Bacteria and Methanogenic Archaea at Single-Cell Resolution by Synchrotron X-Ray Fluorescence Imaging | Geomicrobiology Journal | 35(1) 81–9 |
| 2018 | 10.1002/biot.201700648 | Cheng, F., X. L. Tang and T. Kardashliev | Transcription Factor-Based Biosensors in High-Throughput Screening: Advances and Applications | Biotechnology Journal | 13(7) e1700648 |
| 2018 | 10.1111/1462-2920.14273 | Bachy, C., C. J. Charlesworth, A. M. Chan, J. F. Finke, C. H. Wong, C. L. Wei, S. Sudek, M. L. Coleman, C. A. Suttle and A. Z. Worden | Transcriptional responses of the marine green alga Micromonas pusilla and an infecting prasinovirus under different phosphate conditions | Environmental Microbiology | 20(8) 2898–912 |
| 2018 | 10.3389/fpls.2018.00384 | Faria-Blanc, N., J. C. Mortimer and P. Dupree | A Transcriptomic Analysis of Xylan Mutants Does Not Support the Existence of a Secondary Cell Wall Integrity System in Arabidopsis | Frontiers in Plant Science | 9 384 |
| 2018 | 10.1186/s13068-018-1049-4 | Zhu, Y., L. Xie, G. Q. Chen, M. Y. Lee, D. Loque and H. V. Scheller | A transgene design for enhancing oil content in Arabidopsis and Camelina seeds | Biotechnology for Biofuels | 11 46 |
| 2018 | 10.1111/pbi.12747 | Baxter, H. L., M. Mazarei, A. Dumitrache, J. M. Natzke, M. Rodriguez, Jr., J. Gou, C. Fu, R. W. Sykes, G. B. Turner, M. F. Davis, S. D. Brown, B. H. Davison, Z. Y. Wang and C. N. Stewart, Jr. | Transgenic miR156 switchgrass in the field: growth, recalcitrance and rust susceptibility | Plant Biotechnology Journal | 16(1) 39–49 |
| 2018 | 10.1093/dnares/dsy016 | Borgognone, A., R. Castanera, M. Morselli, L. López-Varas, L. Rubbi, A. G. Pisabarro, M. Pellegrini and L. Ramírez | Transposon-associated epigenetic silencing during Pleurotus ostreatus life cycle | DNA Research | 25(5) 451-464 |
| 2018 | 10.1104/pp.18.00978 | Fan, M., K. Herburger, J. K. Jensen, S. Zemelis-Durfee, F. Brandizzi, S. C. Fry and C. G. Wilkerson | A Trihelix Family Transcription Factor Is Associated with Key Genes in Mixed-Linkage Glucan Accumulation | Plant Physiology | 178(3) 1207–21 |
| 2018 | 10.1038/s41467-018-06050-2 | Hodgkins, S. B., C. J. Richardson, R. Dommain, H. Wang, P. H. Glaser, et al. | Tropical peatland carbon storage linked to global latitudinal trends in peat recalcitrance | Nature Communications | 9(1) 3640 |
| 2018 | 10.1093/treephys/tpx104 | Harding, S. A., H. Hu, B. Nyamdari, L. J. Xue, R. Naran and C. J. Tsai | Tubulins, rhythms and cell walls in poplar leaves: It's all in the timing | Tree Physiology | 38(3) 397-408 |
| 2018 | 10.1105/tpc.18.00250 | Wang, K., Q. Guo, J. E. Froehlich, H. L. Hersh, A. Zienkiewicz, G. A. Howe and C. Benning | Two abscisic acid-responsive plastid lipase genes involved in jasmonic acid biosynthesis in Arabidopsis thaliana | Plant Cell | 30(5) 1006-1022 |
| 2018 | 10.1080/00275514.2018.1446650 | Aime, M. C., H. Urbina, J. A. Liber, G. Bonito and R. Oono | Two new endophytic Atractiellomycetes, Atractidochium hillariae and Proceropycnis hameedii | Mycologia | 110(1) 136–46 |
| 2018 | 10.1074/jbc.RA118.004463 | Amos, R. A., S. Pattathil, J. Y. Yang, M. A. Atmodjo, B. R. Urbanowicz, K. W. Moremen and D. Mohnen | A two-phase model for the non-processive biosynthesis of homogalacturonan polysaccharides by the GAUT1:GAUT7 complex | Journal of Biological Chemistry | 293(49) 19047–63 |
| 2018 | 10.1007/978-1-4939-7295-1_21 | Ando, D. and H. Garcia Martin | Two-Scale 13C Metabolic Flux Analysis for Metabolic Engineering | Synthetic Metabolic Pathways: Methods and Protocols | 1671 333–52 |
| 2018 | 10.1186/s13570-017-0111-3 | Byakagaba, P., A. Egeru, B. Barasa and D. D. Briske | Uganda’s rangeland policy: intentions, consequences and opportunities | Pastoralism | 8(1) |
| 2018 | 10.1186/s12870-018-1316-3 | Qi, P., D. Gimode, D. Saha, S. Schroder, D. Chakraborty, X. Wang, M. M. Dida, R. L. Malmberg and K. M. Devos | UGbS-Flex, a novel bioinformatics pipeline for imputation-free SNP discovery in polyploids without a reference genome: finger millet as a case study | BMC Plant Biology | 18(1) 117 |
| 2018 | 10.1038/s41598-018-31269-w | Bhagia, S., X. Meng, B. R. Evans, J. R. Dunlap, G. Bali, J. Chen, K. S. Reeves, H. C. Ho, B. H. Davison, Y. Pu and A. J. Ragauskas | Ultrastructure and Enzymatic Hydrolysis of Deuterated Switchgrass | Scientific Reports | 8(1) 13226 |
| 2018 | 10.1039/c8gc00953h | Li, N., Y. D. Li, C. G. Yoo, X. H. Yang, X. L. Lin, J. Ralph and X. J. Pan | An uncondensed lignin depolymerized in the solid state and isolated from lignocellulosic biomass: a mechanistic study | Green Chemistry | 20(18) 4224–35 |
| 2018 | 10.1016/j.semcdb.2017.08.051 | Brophy, J. A. N., T. LaRue and J. R. Dinneny | Understanding and engineering plant form | Seminars in Cell & Developmental Biology | 79 68–77 |
| 2018 | 10.1021/acssuschemeng.8b00384 | Liu, E. S., M. Li, L. Das, Y. Q. Pu, T. Frazier, B. Y. Zhao, M. Crocker, A. J. Ragauskas and J. Shi | Understanding Lignin Fractionation and Characterization from Engineered Switchgrass Treated by an Aqueous Ionic Liquid | ACS Sustainable Chemistry & Engineering | 6(5) 6612–23 |
| 2018 | 10.1016/j.biortech.2018.05.057 | Yao, L., H. Yang, C. G. Yoo, Y. Pu, X. Meng, W. Muchero, G. A. Tuskan, T. Tschaplinski and A. J. Ragauskas | Understanding the influences of different pretreatments on recalcitrance of Populus natural variants | Bioresource Technology | 265 75–81 |
| 2018 | 10.1039/c7ee03432f | Walker, T. W., A. K. Chew, H. Li, B. Demir, Z. C. Zhang, G. W. Huber, R. C. Van Lehn and J. A. Dumesic | Universal kinetic solvent effects in acid-catalyzed reactions of biomass-derived oxygenates | Energy and Environmental Science | 11(3) 617-628 |
| 2018 | 10.1371/journal.pone.0194663 | Christensen, G. A., J. Moon, A. M. Veach, J. J. Mosher, A. M. Wymore, J. D. van Nostrand, J. Zhou, T. C. Hazen, A. P. Arkin and D. A. Elias | Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition | PLoS One | 13(3) e0194663 |
| 2018 | 10.1371/journal.pone.0198584 | Metz, Z. P., T. Ding and D. J. Baumler | Using genome-scale metabolic models to compare serovars of the foodborne pathogen Listeria monocytogenes | PLoS One | 13(6) e0198584 |
| 2018 | 10.1002/bbb.1927 | Mokomele, T., L. da Costa Sousa, B. Bals, V. Balan, N. Goosen, B. E. Dale and J. F. Görgens | Using steam explosion or AFEX™ to produce animal feeds and biofuel feedstocks in a biorefinery based on sugarcane residues | Biofuels, Bioproducts and Biorefining | 12(6) 978-996 |
| 2018 | 10.1007/978-1-4939-7724-6_10 | Blaby-Haas, C. E., M. D. Page and S. S. Merchant | Using YFP as a Reporter of Gene Expression in the Green Alga Chlamydomonas reinhardtii | Methods in Molecular Biology | 1755 135–48 |
| 2018 | 10.1016/j.biortech.2018.04.013 | Lane, S., J. Dong and Y. S. Jin | Value-added biotransformation of cellulosic sugars by engineered Saccharomyces cerevisiae | Bioresource Technology | 260 380–94 |
| 2018 | 10.1021/acs.jafc.7b04638 | Rencoret, J., H. Kim, A. B. Evaristo, A. Gutiérrez, J. Ralph and J. C. Del Río | Variability in Lignin Composition and Structure in Cell Walls of Different Parts of Macaúba (Acrocomia aculeata) Palm Fruit | Journal of Agricultural and Food Chemistry | 66(1) 138-153 |
| 2018 | 10.1534/g3.118.200188 | Bryan, A. C., J. Zhang, J. Guo, P. Ranjan, V. Singan, K. Barry, J. Schmutz, D. Weighill, D. Jacobson, S. Jawdy, G. A. Tuskan, J. G. Chen and W. Muchero | A Variable Polyglutamine Repeat Affects Subcellular Localization and Regulatory Activity of a Populus ANGUSTIFOLIA Protein | G3 Genes|Genomes|Genetics | 8(8) 2631–41 |
| 2018 | 10.1371/journal.pone.0195863 | McKinley, B. A., S. N. Olson, K. B. Ritter, D. W. Herb, S. D. Karlen, F. Lu, J. Ralph, W. L. Rooney and J. E. Mullet | Variation in energy sorghum hybrid TX08001 biomass composition and lignin chemistry during development under irrigated and non-irrigated field conditions | PLoS One | 13(4) e0195863 |
| 2018 | 10.1126/science.aat7925 | Budin, I., T. de Rond, Y. Chen, L. J. G. Chan, C. J. Petzold and J. D. Keasling | Viscous control of cellular respiration by membrane lipid composition | Science | 362(6419) 1186–9 |
| 2018 | 10.1371/journal.pone.0204298 | Teter, J., S. Yeh, M. Khanna and G. Berndes | Water impacts of U.S. biofuels: Insights from an assessment combining economic and biophysical models | PLoS One | 13(9) e0204298 |
| 2018 | 10.1371/journal.pone.0194012 | Xue, S., A. D. Jones, L. Sousa, J. Piotrowski, M. Jin, C. Sarks, B. E. Dale and V. Balan | Water-soluble phenolic compounds produced from extractive ammonia pretreatment exerted binary inhibitory effects on yeast fermentation using synthetic hydrolysate | PLoS ONE | 13(3) |
| 2018 | 10.1186/s12866-018-1256-y | Kosina, S. M., A. M. Greiner, R. K. Lau, S. Jenkins, R. Baran, B. P. Bowen and T. R. Northen | Web of microbes (WoM): a curated microbial exometabolomics database for linking chemistry and microbes | BMC Microbiology | 18(1) 115 |
| 2018 | 10.2489/jswc.73.6.153A | Cates, A. M., G. R. Sanford, L. W. Good and R. D. Jackson | What do we know about cover crop efficacy in the North Central United States? | Journal of Soil and Water Conservation | 73(6) 153A-157A |
| 2018 | 10.1128/mBio.00065-18 | Khalfaoui-Hassani, B., H. Wu, C. E. Blaby-Haas, Y. Zhang, F. Sandri, A. F. Verissimo, H. G. Koch and F. Daldal | Widespread Distribution and Functional Specificity of the Copper Importer CcoA: Distinct Cu Uptake Routes for Bacterial Cytochrome c Oxidases | mBio | 9(1) |
| 2018 | 10.1111/1462-2920.14342 | Dekas, A. E., D. A. Fike, G. L. Chadwick, A. Green-Saxena, J. Fortney, S. A. Connon, K. S. Dawson and V. J. Orphan | Widespread nitrogen fixation in sediments from diverse deep-sea sites of elevated carbon loading | Environmental Microbiology | 20(12) 4281–96 |
| 2018 | 10.1186/s13068-017-1002-y | Biswal, A. K., M. A. Atmodjo, S. Pattathil, R. A. Amos, X. Yang, et al. | Working towards recalcitrance mechanisms: increased xylan and homogalacturonan production by overexpression of GAlactUronosylTransferase12 (GAUT12) causes increased recalcitrance and decreased growth in Populus | Biotechnology for Biofuels | 11 9 |
| 2018 | 10.1111/gcbb.12552 | Kravchenko, A. N., A. K. Guber, M. Y. Quigley, J. Koestel, H. Gandhi and N. E. Ostrom | X-ray computed tomography to predict soil N2O production via bacterial denitrification and N2O emission in contrasting bioenergy cropping systems | GCB Bioenergy | 10(11) 894–909 |
| 2018 | 10.1128/AEM.01646-17 | Orellana, L. H., J. C. Chee-Sanford, R. A. Sanford, F. E. Löffler and K. T. Konstantinidis | Year-round shotgun metagenomes reveal stable microbial communities in agricultural soils and novel ammonia oxidizers responding to fertilization | Applied and Environmental Microbiology | 84(2) |
| 2017 | 10.1007/s00253-017-8506-z | Sitepu, I. R., L. A. Garay, L. Enriquez, R. Fry, J. H. Butler, J. M. Lopez, A. Kanti, S. A. Faulina, A. J. Nugroho, B. A. Simmons, S. W. Singer, C. W. Simmons and K. Boundy-Mills | 1-Ethyl-3-methylimidazolium tolerance and intracellular lipid accumulation of 38 oleaginous yeast species | Applied Microbiology and Biotechnology | 101(23-24) 8621–31 |
| 2017 | 10.1128/AEM.03389-16 | Becker, S., A. Scheffel, M. F. Polz and J. H. Hehemann | Accurate Quantification of Laminarin in Marine Organic Matter with Enzymes from Marine Microbes | Applied and Environmental Microbiology | 83(9) |
| 2017 | 10.1128/AAC.01636-16 | Vandavasi, V. G., P. S. Langan, K. L. Weiss, J. M. Parks, J. B. Cooper, S. L. Ginell and L. Coates | Active-Site Protonation States in an Acyl-Enzyme Intermediate of a Class A β-Lactamase with a Monobactam Substrate | Antimicrobial Agents and Chemotherapy | 61(1) |
| 2017 | 10.1002/2016ms000817 | Deng, J., C. K. McCalley, S. Frolking, J. Chanton, P. Crill, R. Varner, G. Tyson, V. Rich, M. Hines, S. R. Saleska and C. S. Li | Adding stable carbon isotopes improves model representation of the role of microbial communities in peatland methane cycling | Journal of Advances in Modeling Earth Systems | 9(2) 1412–30 |
| 2017 | 10.1186/s13068-017-0937-3 | Thomas, V. A., B. S. Donohoe, M. Li, Y. Pu, A. J. Ragauskas, R. Kumar, T. Y. Nguyen, C. M. Cai and C. E. Wyman | Adding tetrahydrofuran to dilute acid pretreatment provides new insights into substrate changes that greatly enhance biomass deconstruction by Clostridium thermocellum and fungal enzymes | Biotechnology for Biofuels | 10 252 |
| 2017 | 10.1007/978-3-319-31421-1_372-1 | Tian, T. and T. S. Lee | Advanced Biodiesel and Biojet Fuels from Lignocellulosic Biomass | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Production of Fuels and Chemicals | |
| 2017 | 10.1002/ese3.144 | Tolbert, A. and A. J. Ragauskas | Advances in understanding the surface chemistry of lignocellulosic biomass via time-of-flight secondary ion mass spectrometry | Energy Science & Engineering | 5(1) 5–20 |
| 2017 | 10.1186/s13068-017-0934-6 | Macaya-Sanz, D., J. G. Chen, U. C. Kalluri, W. Muchero, T. J. Tschaplinski, et al. | Agronomic performance of Populus deltoides trees engineered for biofuel production | Biotechnology for Biofuels | 10 253 |
| 2017 | 10.1021/acssuschemeng.7b01424 | Mittal, A., R. Katahira, B. S. Donohoe, B. A. Black, S. Pattathil, J. M. Stringer and G. T. Beckham | Alkaline Peroxide Delignification of Corn Stover | ACS Sustainable Chemistry & Engineering | 5(7) 6310–21 |
| 2017 | 10.1038/ismej.2017.75 | Wu, L., Y. Yang, S. Wang, H. Yue, Q. Lin, Y. Hu, Z. He, J. D. Van Nostrand, L. Hale, X. Li, J. A. Gilbert and J. Zhou | Alpine soil carbon is vulnerable to rapid microbial decomposition under climate cooling | The ISME Journal | 11(9) 2102–11 |
| 2017 | 10.1111/pbi.12682 | Unda, F., H. Kim, C. Hefer, J. Ralph and S. D. Mansfield | Altering carbon allocation in hybrid poplar (Populus alba × grandidentata) impacts cell wall growth and development | Plant Biotechnology Journal | 15(7) 865-878 |
| 2017 | 10.1016/j.jprot.2017.06.004 | Aryal, U. K., Z. McBride, D. Chen, J. Xie and D. B. Szymanski | Analysis of protein complexes in Arabidopsis leaves using size exclusion chromatography and label-free protein correlation profiling | Journal of Proteomics | 166 8–18 |
| 2017 | 10.3390/w9060383 | Yang, Q., X. Zhang, X. Xu and G. R. Asrar | An analysis of terrestrial and aquatic environmental controls of riverine dissolved organic carbon in the conterminous United States | Water (Switzerland) | 9(6) |
| 2017 | 10.1126/science.aad4501 | Martin, F. M., S. Uroz and D. G. Barker | Ancestral alliances: Plant mutualistic symbioses with fungi and bacteria | Science | 356(6340) |
| 2017 | 10.1128/mBio.01894-17 | Nakayasu, E. S., M. C. Burnet, H. E. Walukiewicz, C. S. Wilkins, A. K. Shukla, et al. | Ancient Regulatory Role of Lysine Acetylation in Central Metabolism | mBio | 8(6) |
| 2017 | 10.1021/acssuschemeng.7b02212 | Qureshi, A. S., J. Zhang, L. Da Costa Sousa and J. Bao | Antibacterial Peptide Secreted by Pediococcus acidilactici Enables Efficient Cellulosic Open l -Lactic Acid Fermentation | ACS Sustainable Chemistry and Engineering | 5(10) 9254-9262 |
| 2017 | 10.1016/j.celrep.2017.07.062 | Jensen, P. A., Z. Zhu and T. van Opijnen | Antibiotics Disrupt Coordination between Transcriptional and Phenotypic Stress Responses in Pathogenic Bacteria | Cell Reports | 20(7) 1705–16 |
| 2017 | 10.1021/acssynbio.6b00372 | Zhang, J., J. F. Barajas, M. Burdu, G. Wang, E. E. Baidoo and J. D. Keasling | Application of an Acyl-CoA Ligase from Streptomyces aizunensis for Lactam Biosynthesis | ACS Synthetic Biology | 6(5) 884–90 |
| 2017 | 10.1073/pnas.1703321114 | Xu, J., N. Liu, K. Qiao, S. Vogg and G. Stephanopoulos | Application of metabolic controls for the maximization of lipid production in semicontinuous fermentation | Proceedings of the National Academy of Sciences of the United States of America | 114(27) E5308–16 |
| 2017 | 10.1371/journal.pone.0171360 | Jin, X., X. Chen, L. Xiao, C. Shi, L. Chen, B. Yu, Z. Yi, J. H. Yoo, K. Heo, C. Y. Yu, T. Yamada, E. J. Sacks and J. Peng | Application of visible and near-infrared spectroscopy to classification of Miscanthus species | PLoS One | 12(4) e0171360 |
| 2017 | 10.1093/jxb/erx275 | Kong, Q., W. Ma, H. Yang, G. Ma, J. J. Mantyla and C. Benning | The Arabidopsis WRINKLED1 transcription factor affects auxin homeostasis in roots | Journal of Experimental Botany | 68(16) 4627-4634 |
| 2017 | 10.1186/s12859-017-1761-2 | Jun, S. R., I. Nookaew, L. Hauser and A. Gorin | Assessment of genome annotation using gene function similarity within the gene neighborhood | BMC Bioinformatics | 18(1) 345 |
| 2017 | 10.1111/gbi.12193 | Stackhouse, B., M. C. Lau, T. Vishnivetskaya, N. Burton, R. Wang, A. Southworth, L. Whyte and T. C. Onstott | Atmospheric CH4 oxidation by Arctic permafrost and mineral cryosols as a function of water saturation and temperature | Geobiology | 15(1) 94–111 |
| 2017 | 10.1038/nmeth.4178 | De La Cruz, M. J., J. Hattne, D. Shi, P. Seidler, J. Rodriguez, et al. | Atomic-resolution structures from fragmented protein crystals with the cryoEMEM method MicroEDED | Nature Methods | 14(4) 399-402 |
| 2017 | 10.1039/c7ob02605f | Dallabernardina, P., C. Ruprecht, P. J. Smith, M. G. Hahn, B. R. Urbanowicz and F. Pfrengle | Automated glycan assembly of galactosylated xyloglucan oligosaccharides and their recognition by plant cell wall glycan-directed antibodies | Organic & Biomolecular Chemistry | 15(47) 9996–10000 |
| 2017 | 10.1038/s41598-017-17049-y | Ievlev, A. V., A. Belianinov, S. Jesse, D. P. Allison, M. J. Doktycz, S. T. Retterer, S. V. Kalinin and O. S. Ovchinnikova | Automated Interpretation and Extraction of Topographic Information from Time of Flight Secondary Ion Mass Spectrometry Data | Scientific Reports | 7(1) 17099 |
| 2017 | 10.1016/j.ymben.2017.11.004 | Kim, E. M., H. M. Woo, T. Tian, S. Yilmaz, P. Javidpour, J. D. Keasling and T. S. Lee | Autonomous control of metabolic state by a quorum sensing (QS)-mediated regulator for bisabolene production in engineered E. coli | Metabolic Engineering | 44 325–36 |
| 2017 | 10.1111/1462-2920.13678 | McHugh, T. A., E. M. Morrissey, R. C. Mueller, V. Gallegos-Graves, C. R. Kuske and S. C. Reed | Bacterial, fungal, and plant communities exhibit no biomass or compositional response to two years of simulated nitrogen deposition in a semiarid grassland | Environmental Microbiology | 19(4) 1600–11 |
| 2017 | 10.7717/peerj.3817 | Roux, S., J. B. Emerson, E. A. Eloe-Fadrosh and M. B. Sullivan | Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity | PeerJ | 5 e3817 |
| 2017 | 10.1002/wsbm.1391 | Voit, E. O. | The best models of metabolism | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 9(6) |
| 2017 | 10.1371/journal.pone.0180527 | Yordanov, Y. S., C. Ma, E. Yordanova, R. Meilan, S. H. Strauss and V. B. Busov | BIG LEAF is a regulator of organ size and adventitious root formation in poplar | PLoS One | 12(7) e0180527 |
| 2017 | 10.1038/ja.2016.136 | Yuzawa, S., J. D. Keasling and L. Katz | Bio-based production of fuels and industrial chemicals by repurposing antibiotic-producing type I modular polyketide synthases: opportunities and challenges | The Journal of Antibiotics | 70(4) 378–85 |
| 2017 | 10.1128/AEM.00969-17 | Zurawski, J. V., P. A. Khatibi, H. O. Akinosho, C. T. Straub, S. H. Compton, J. M. Conway, L. L. Lee, A. J. Ragauskas, B. H. Davison, M. W. W. Adams and R. M. Kelly | Bioavailability of Carbohydrate Content in Natural and Transgenic Switchgrasses for the Extreme Thermophile Caldicellulosiruptor bescii | Applied and Environmental Microbiology | 83(17) |
| 2017 | 10.1021/acs.est.6b04591 | Breunig, H. M., L. Jin, A. Robinson and C. D. Scown | Bioenergy Potential from Food Waste in California | Environmental Science & Technology | 51(3) 1120–8 |
| 2017 | 10.3389/fpls.2017.00335 | Truong, S. K., R. F. McCormick and J. E. Mullet | Bioenergy Sorghum Crop Model Predicts VPD-Limited Transpiration Traits Enhance Biomass Yield in Water-Limited Environments | Frontiers in Plant Science | 8 335 |
| 2017 | 10.1007/978-1-4939-2493-6_521-3 | Wyman, C. E., R. Kumar and C. M. Cai | Bioethanol from Lignocellulosic Biomass | Encyclopedia of Sustainability Science and Technology | 1–27 |
| 2017 | 10.1371/journal.pcbi.1005424 | Yurkovich, J. T., L. Yang and B. O. Palsson | Biomarkers are used to predict quantitative metabolite concentration profiles in human red blood cells | PLoS Computational Biology | 13(3) e1005424 |
| 2017 | 10.1021/acssuschemeng.7b00480 | Yuan, X. M., S. Singh, B. A. Simmons and G. Cheng | Biomass Pretreatment Using Dilute Aqueous Ionic Liquid (IL) Solutions with Dynamically Varying IL Concentration and Its Impact on IL Recycling | ACS Sustainable Chemistry & Engineering | 5(5) 4408–13 |
| 2017 | 10.2134/agronj2016.08.0454 | Sanford, G. R., L. G. Oates, S. S. Roley, D. S. Duncan, R. D. Jackson, G. P. Robertson and K. D. Thelen | Biomass production a stronger driver of cellulosic ethanol yield than biomass quality | Agronomy Journal | 109(5) 1911-1922 |
| 2017 | 10.1038/nchembio.2453 | Oslund, R. C., X. Su, M. Haugbro, J. M. Kee, M. Esposito, Y. David, B. Wang, E. Ge, D. H. Perlman, Y. Kang, T. W. Muir and J. D. Rabinowitz | Bisphosphoglycerate mutase controls serine pathway flux via 3-phosphoglycerate | Nature Chemical Biology | 13(10) 1081–7 |
| 2017 | 10.1128/JB.00542-16 | Zheng, T., D. G. Olson, S. J. Murphy, X. Shao, L. Tian and L. R. Lynd | Both adhE and a Separate NADPH-Dependent Alcohol Dehydrogenase Gene, adhA, Are Necessary for High Ethanol Production in Thermoanaerobacterium saccharolyticum | Journal of Bacteriology | 199(3) |
| 2017 | 10.3389/fpls.2017.00806 | Rao, X. and R. A. Dixon | Brassinosteroid Mediated Cell Wall Remodeling in Grasses under Abiotic Stress | Frontiers in Plant Science | 8 806 |
| 2017 | 10.1016/B978-0-323-35824-8.04001-9 | Gilbert, M. E. | Brydson's Plastics Materials (Eighth Edition) | Elsevier Science | |
| 2017 | 10.2134/agronj2016.05.0256 | Obour, A. K., E. Obeng, Y. A. Mohammed, I. A. Ciampitti, T. P. Durrett, J. A. Aznar‐Moreno and C. Chen | Camelina Seed Yield and Fatty Acids as Influenced by Genotype and Environment | Agronomy Journal | 109(3) 947–56 |
| 2017 | 10.2135/cropsci2017.03.0193 | Jakubowski, A. R., R. D. Jackson and M. D. Casler | Can biomass yield of switchgrass be increased without increasing nitrogen requirements? | Crop Science | 57(4) 2024-2031 |
| 2017 | 10.3389/fmicb.2017.01272 | Utturkar, S. M., D. M. Klingeman, R. A. Hurt, Jr. and S. D. Brown | A Case Study into Microbial Genome Assembly Gap Sequences and Finishing Strategies | Frontiers in Microbiology | 8 1272 |
| 2017 | 10.1039/c6gc02473d | Kim, K. H., B. A. Simmons and S. Singh | Catalytic transfer hydrogenolysis of ionic liquid processed biorefinery lignin to phenolic compounds | Green Chemistry | 19(1) 215–24 |
| 2017 | 10.1186/s12864-017-4158-8 | Wai, C. M., J. Zhang, T. C. Jones, C. Nagai and R. Ming | Cell wall metabolism and hexose allocation contribute to biomass accumulation in high yielding extreme segregants of a Saccharum interspecific F2 population | BMC Genomics | 18(1) 773 |
| 2017 | 10.1111/nph.14306 | da Costa, R. M., S. Pattathil, U. Avci, S. J. Lee, S. P. Hazen, A. Winters, M. G. Hahn and M. Bosch | A cell wall reference profile for Miscanthus bioenergy crops highlights compositional and structural variations associated with development and organ origin | New Phytologist | 213(4) 1710–25 |
| 2017 | 10.1039/c7gc00346c | Dumitrache, A., A. Tolbert, J. Natzke, S. D. Brown, B. H. Davison and A. J. Ragauskas | Cellulose and lignin colocalization at the plant cell wall surface limits microbial hydrolysis of Populus biomass | Green Chemistry | 19(9) 2275–85 |
| 2017 | 10.1126/science.aal2324 | Robertson, G. P., S. K. Hamilton, B. L. Barham, B. E. Dale, R. C. Izaurralde, R. D. Jackson, D. A. Landis, S. M. Swinton, K. D. Thelen and J. M. Tiedje | Cellulosic biofuel contributions to a sustainable energy future: Choices and outcomes | Science | 356(6345) |
| 2017 | 10.1016/j.copbio.2017.03.008 | Lynd, L. R., X. Liang, M. J. Biddy, A. Allee, H. Cai, T. Foust, M. E. Himmel, M. S. Laser, M. Wang and C. E. Wyman | Cellulosic ethanol: status and innovation | Current Opinion in Biotechnology | 45 202–11 |
| 2017 | 10.1111/gcbb.12352 | LeDuc, S. D., X. Zhang, C. M. Clark and R. C. Izaurralde | Cellulosic feedstock production on Conservation Reserve Program land: potential yields and environmental effects | GCB Bioenergy | 9(2) 460-468 |
| 2017 | 10.1016/B978-0-12-803725-6.00010-8 | Chow, N. and J. D. Wu | The Cellulosome: A supramolecular assembly of microbial biomass-degrading enzymes | Biotechnology of Microbial Enzymes: Production, Biocatalysis and Industrial Applications | 243–66 |
| 2017 | 10.1021/acs.biomac.7b01223 | Kim, H., D. Padmakshan, Y. Li, J. Rencoret, R. D. Hatfield and J. Ralph | Characterization and Elimination of Undesirable Protein Residues in Plant Cell Wall Materials for Enhancing Lignin Analysis by Solution-State Nuclear Magnetic Resonance Spectroscopy | Biomacromolecules | 18(12) 4184-4195 |
| 2017 | 10.1016/j.biortech.2017.02.014 | Yuan, X., Y. Duan, L. He, S. Singh, B. Simmons and G. Cheng | Characterization of white poplar and eucalyptus after ionic liquid pretreatment as a function of biomass loading using X-ray diffraction and small angle neutron scattering | Bioresource Technology | 232 113–8 |
| 2017 | 10.1021/jacs.7b08012 | Zhang, Z., L. Chen, L. Liu, X. Su and J. D. Rabinowitz | Chemical Basis for Deuterium Labeling of Fat and NADPH | Journal of the American Chemical Society | 139(41) 14368–71 |
| 2017 | 10.1021/acschembio.7b00388 | Wyche, T. P., R. F. R. Alvarenga, J. S. Piotrowski, M. N. Duster, S. R. Warrack, et al. | Chemical Genomics, Structure Elucidation, and in Vivo Studies of the Marine-Derived Anticlostridial Ecteinamycin | ACS Chemical Biology | 12(9) 2287-2295 |
| 2017 | 10.1002/cssc.201701317 | Zhou, S., T. Runge, S. D. Karlen, J. Ralph, E. Gonzales-Vigil and S. D. Mansfield | Chemical Pulping Advantages of Zip-lignin Hybrid Poplar | ChemSusChem | 10(18) 3565-3573 |
| 2017 | 10.1021/acssuschemeng.6b03102 | Kim, K. H., T. Dutta, E. D. Walter, N. G. Isern, J. R. Cort, B. A. Simmons and S. Singh | Chemoselective Methylation of Phenolic Hydroxyl Group Prevents Quinone Methide Formation and Repolymerization During Lignin Depolymerization | ACS Sustainable Chemistry & Engineering | 5(5) 3913–9 |
| 2017 | 10.1016/j.soilbio.2017.04.011 | Xia, M., A. F. Talhelm and K. S. Pregitzer | Chronic nitrogen deposition influences the chemical dynamics of leaf litter and fine roots during decomposition | Soil Biology and Biochemistry | 112 24–34 |
| 2017 | 10.1016/j.protis.2016.10.005 | Davis, A., R. Abbriano, S. R. Smith and M. Hildebrand | Clarification of Photorespiratory Processes and the Role of Malic Enzyme in Diatoms | Protist | 168(1) 134–53 |
| 2017 | 10.1039/c6re00227g | Won, W., A. H. Motagamwala, J. A. Dumesic and C. T. Maravelias | A co-solvent hydrolysis strategy for the production of biofuels: Process synthesis and technoeconomic analysis | Reaction Chemistry and Engineering | 2(3) 397-405 |
| 2017 | 10.1021/acssynbio.6b00342 | Li, J., W. Haas, K. Jackson, E. Kuru, M. C. Jewett, Z. H. Fan, S. Gygi and G. M. Church | Cogenerating Synthetic Parts Toward a Self-Replicating System | ACS Synthetic Biology | 6(7) 1327–36 |
| 2017 | 10.1038/s41467-017-01695-x | Lian, J., M. HamediRad, S. Hu and H. Zhao | Combinatorial metabolic engineering using an orthogonal tri-functional CRISPR system | Nature Communications | 8(1) 1688 |
| 2017 | 10.1007/978-3-319-56457-9_6 | Wyman, C. E. and B. Yang | Combined Severity Factor for Predicting Sugar Recovery in Acid-Catalyzed Pretreatment Followed by Enzymatic Hydrolysis | Hydrothermal Processing in Biorefineries: Production of Bioethanol and High Added-Value Compounds of Second and Third Generation Biomass | 161–80 |
| 2017 | 10.1128/mSystems.00015-17 | Burger, B. T., S. Imam, M. J. Scarborough, D. R. Noguera and T. J. Donohue | Combining genome-scale experimental and computational methods to identify essential genes in Rhodobacter sphaeroides | mSystems | 2(3) |
| 2017 | 10.1371/journal.pone.0178650 | Chowdhary, J., F. E. Loffler and J. C. Smith | Community detection in sequence similarity networks based on attribute clustering | PLoS One | 12(7) e0178650 |
| 2017 | 10.1201/9781315119496 | Ruytinx, J. and F. Martin | Comparative and Functional Genomics of Ectomycorrhizal Symbiosis | The Fungal Community: Its Organization and Role in the Ecosystem | 27–36 |
| 2017 | 10.1007/s00572-016-0758-4 | Rineau, F., H. Lmalem, D. Ahren, F. Shah, T. Johansson, et al. | Comparative genomics and expression levels of hydrophobins from eight mycorrhizal genomes | Mycorrhiza | 27(4) 383–96 |
| 2017 | 10.1111/1462-2920.13669 | Uehling, J., A. Gryganskyi, K. Hameed, T. Tschaplinski, P. K. Misztal, et al. | Comparative genomics of Mortierella elongata and its bacterial endosymbiont Mycoavidus cysteinexigens | Environmental Microbiology | 19(8) 2964–83 |
| 2017 | 10.3389/fpls.2017.01505 | Verhertbruggen, Y., J. L. Walker, F. Guillon and H. V. Scheller | A Comparative Study of Sample Preparation for Staining and Immunodetection of Plant Cell Walls by Light Microscopy | Frontiers in Plant Science | 8 1505 |
| 2017 | 10.1186/s13068-017-0866-1 | Biswal, A. K., L. Tan, M. A. Atmodjo, J. DeMartini, I. Gelineo-Albersheim, K. Hunt, I. M. Black, S. S. Mohanty, D. Ryno, C. E. Wyman and D. Mohnen | Comparison of four glycosyl residue composition methods for effectiveness in detecting sugars from cell walls of dicot and grass tissues | Biotechnology for Biofuels | 10 182 |
| 2017 | 10.1186/s40793-017-0233-7 | Chakraborty, R., H. Woo, P. Dehal, R. Walker, M. Zemla, M. Auer, L. A. Goodwin, A. Kazakov, P. Novichkov, A. P. Arkin and T. C. Hazen | Complete genome sequence of Pseudomonas stutzeri strain RCH2 isolated from a Hexavalent Chromium [Cr(VI)] contaminated site | Standards in Genomic Sciences | 12 23 |
| 2017 | 10.3389/fmicb.2017.01072 | Heimerl, T., J. Flechsler, C. Pickl, V. Heinz, B. Salecker, et al. | A Complex Endomembrane System in the Archaeon Ignicoccus hospitalis Tapped by Nanoarchaeum equitans | Frontiers in Microbiology | 8 1072 |
| 2017 | 10.1186/s13068-017-0757-5 | Gunawan, C., S. Xue, S. Pattathil, L. da Costa Sousa, B. E. Dale and V. Balan | Comprehensive characterization of non-cellulosic recalcitrant cell wall carbohydrates in unhydrolyzed solids from AFEX-pretreated corn stover | Biotechnology for Biofuels | 10 82 |
| 2017 | 10.1186/s13068-017-0952-4 | Wilbanks, B. and C. T. Trinh | Comprehensive characterization of toxicity of fermentative metabolites on microbial growth | Biotechnology for Biofuels | 10 262 |
| 2017 | 10.1111/1462-2920.13959 | Nelson, C. E., M. A. Attia, A. Rogowski, C. Morland, H. Brumer and J. G. Gardner | Comprehensive functional characterization of the glycoside hydrolase family 3 enzymes from Cellvibrio japonicus reveals unique metabolic roles in biomass saccharification | Environmental Microbiology | 19(12) 5025–39 |
| 2017 | 10.1038/nchem.2673 | Fallas, J. A., G. Ueda, W. Sheffler, V. Nguyen, D. E. McNamara, B. Sankaran, J. H. Pereira, F. Parmeggiani, T. J. Brunette, D. Cascio, T. R. Yeates, P. Zwart and D. Baker | Computational design of self-assembling cyclic protein homo-oligomers | Nature Chemistry | 9(4) 353-360 |
| 2017 | 10.1016/j.bbagrm.2016.09.003 | Banf, M. and S. Y. Rhee | Computational inference of gene regulatory networks: Approaches, limitations and opportunities | Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms | 1860(1) 41–52 |
| 2017 | 10.1016/j.soilbio.2017.01.001 | Allison, S. D. and M. L. Goulden | Consequences of drought tolerance traits for microbial decomposition in the DEMENT model | Soil Biology and Biochemistry | 107 104–13 |
| 2017 | 10.3389/fmicb.2017.02618 | Jenkins, S., T. L. Swenson, R. Lau, A. M. Rocha, A. Aaring, T. C. Hazen, R. Chakraborty and T. R. Northen | Construction of Viable Soil Defined Media Using Quantitative Metabolomics Analysis of Soil Metabolites | Frontiers in Microbiology | 8 2618 |
| 2017 | 10.1038/s41559-017-0126 | Shen, X. X., C. T. Hittinger and A. Rokas | Contentious relationships in phylogenomic studies can be driven by a handful of genes | Nature Ecology and Evolution | 1(5) |
| 2017 | 10.1016/j.jclepro.2016.09.147 | Zhang, Z., Y. Zhu, T. Yang, L. Li, H. Zhu and H. Wang | Conversion of local industrial wastes into greener cement through geopolymer technology: A case study of high-magnesium nickel slag | Journal of Cleaner Production | 141 463-471 |
| 2017 | 10.1016/j.sab.2017.10.008 | Martin, M. Z., D. C. Glasgow, T. J. Tschaplinski, G. A. Tuskan, L. E. Gunter, N. L. Engle, A. M. Wymore and D. J. Weston | Correlating laser-induced breakdown spectroscopy with neutron activation analysis to determine the elemental concentration in the ionome of the Populus trichocarpa leaf | Spectrochimica Acta Part B: Atomic Spectroscopy | 138 46–53 |
| 2017 | 10.1007/s10681-017-2068-0 | Felderhoff, T. J., J. W. Olmstead and W. Vermerris | A cost-benefit analysis to select the most effective method for positional cloning: genotyping by sequencing versus allele-specific PCR | Euphytica | 213(12) |
| 2017 | 10.1038/ncomms14406 | Kim, H., S. T. Kim, J. Ryu, B. C. Kang, J. S. Kim and S. G. Kim | CRISPR/Cpf1-mediated DNA-free plant genome editing | Nature Communications | 8 14406 |
| 2017 | 10.1371/journal.pone.0181943 | Rahman, M. K. and M. S. Rahman | CRISPRpred: A flexible and efficient tool for sgRNAs on-target activity prediction in CRISPR/Cas9 systems | PLoS One | 12(8) e0181943 |
| 2017 | 10.1016/j.virusres.2017.07.006 | Malmstrom, C. M., P. Bigelow, P. Trębicki, A. K. Busch, C. Friel, E. Cole, H. Abdel-Azim, C. Phillippo and H. M. Alexander | Crop-associated virus reduces the rooting depth of non-crop perennial native grass more than non-crop-associated virus with known viral suppressor of RNA silencing (VSR) | Virus Research | 241 172-184 |
| 2017 | 10.1002/pld3.18 | Huang, H., M. A. Gehan, S. E. Huss, S. Alvarez, C. Lizarraga, E. L. Gruebbling, J. Gierer, M. J. Naldrett, R. K. Bindbeutel, B. S. Evans, T. C. Mockler and D. A. Nusinow | Cross-species complementation reveals conserved functions for Early Flowering 3 between monocots and dicots | Plant Direct | 1(4) e00018 |
| 2017 | 10.7554/eLife.31804 | O'Connor, D. L., S. Elton, F. Ticchiarelli, M. M. Hsia, J. P. Vogel and O. Leyser | Cross-species functional diversity within the PIN auxin efflux protein family | eLife | 6 |
| 2017 | 10.1038/nmeth.4343 | Wanamaker, S. A., R. M. Garza, A. MacWilliams, J. R. Nery, A. Bartlett, R. Castanon, A. Goubil, J. Feeney, R. O'Malley, S. C. Huang, Z. Z. Zhang, M. Galli and J. R. Ecker | CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping | Nature Methods | 14(8) 819–25 |
| 2017 | 10.1002/1873-3468.12562 | Lubner, J. M., K. L. Dodge-Kafka, C. R. Carlson, G. M. Church, M. F. Chou and D. Schwartz | Cushing's syndrome mutant PKAL205R exhibits altered substrate specificity | FEBS Letters | 591(3) 459–67 |
| 2017 | 10.1002/bit.26287 | Wan, N., D. M. DeLorenzo, L. He, L. You, C. M. Immethun, G. Wang, E. E. K. Baidoo, W. Hollinshead, J. D. Keasling, T. S. Moon and Y. J. Tang | Cyanobacterial carbon metabolism: Fluxome plasticity and oxygen dependence | Biotechnology and Bioengineering | 114(7) 1593–602 |
| 2017 | 10.1016/j.ymben.2016.12.008 | He, L., Y. Xiu, J. A. Jones, E. E. K. Baidoo, J. D. Keasling, Y. J. Tang and M. A. G. Koffas | Deciphering flux adjustments of engineered E. coli cells during fermentation with changing growth conditions | Metabolic Engineering | 39 247–56 |
| 2017 | 10.1530/REP-16-0343 | Zheng, R., Y. Li, H. Sun, X. Lu, B. F. Sun, R. Wang, L. Cui, C. Zhu, H. Y. Lin and H. Wang | Deep RNA sequencing analysis of syncytialization-related genes during BeWo cell fusion | Reproduction | 153(1) 35-48 |
| 2017 | 10.1186/s13068-017-0972-0 | Park, J. J., C. G. Yoo, A. Flanagan, Y. Pu, S. Debnath, Y. Ge, A. J. Ragauskas and Z. Y. Wang | Defined tetra-allelic gene disruption of the 4-coumarate:coenzyme A ligase 1 (Pv4CL1) gene by CRISPR/Cas9 in switchgrass results in lignin reduction and improved sugar release | Biotechnology for Biofuels | 10 284 |
| 2017 | 10.1104/pp.17.00434 | Smith, R. A., M. Schuetz, S. D. Karlen, D. Bird, N. Tokunaga, Y. Sato, S. D. Mansfield, J. Ralph and A. L. Samuels | Defining the diverse cell populations contributing to lignification in arabidopsis stems | Plant Physiology | 174(2) 1028-1036 |
| 2017 | 10.1111/pbi.12655 | Mnich, E., R. Vanholme, P. Oyarce, S. Liu, F. Lu, G. Goeminne, B. Jørgensen, M. S. Motawie, W. Boerjan, J. Ralph, P. Ulvskov, B. L. Møller, N. Bjarnholt and J. Harholt | Degradation of lignin β-aryl ether units in Arabidopsis thaliana expressing LigD, LigF and LigG from Sphingomonas paucimobilis SYK-6 | Plant Biotechnology Journal | 15(5) 581-593 |
| 2017 | 10.1016/j.ymben.2017.04.002 | Rydzak, T., D. Garcia, D. M. Stevenson, M. Sladek, D. M. Klingeman, E. K. Holwerda, D. Amador-Noguez, S. D. Brown and A. M. Guss | Deletion of Type I glutamine synthetase deregulates nitrogen metabolism and increases ethanol production in Clostridium thermocellum | Metabolic Engineering | 41 182–91 |
| 2017 | 10.1038/nature21056 | Esteva, A., B. Kuprel, R. A. Novoa, J. Ko, S. M. Swetter, H. M. Blau and S. Thrun | Dermatologist-level classification of skin cancer with deep neural networks | Nature | 542(7639) 115–8 |
| 2017 | 10.1021/jacs.6b08845 | Perticaroli, S., G. Ehlers, C. B. Stanley, E. Mamontov, H. O'Neill, Q. Zhang, X. Cheng, D. A. Myles, J. Katsaras and J. D. Nickels | Description of Hydration Water in Protein (Green Fluorescent Protein) Solution | Journal of the American Chemical Society | 139(3) 1098–105 |
| 2017 | 10.1016/j.renene.2016.05.009 | Ng, R. T. L. and C. T. Maravelias | Design of biofuel supply chains with variable regional depot and biorefinery locations | Renewable Energy | 100 90-102 |
| 2017 | 10.1186/s13068-017-0703-6 | Walker, J. A., S. Pattathil, L. F. Bergeman, E. T. Beebe, K. Deng, M. Mirzai, T. R. Northen, M. G. Hahn and B. G. Fox | Determination of glycoside hydrolase specificities during hydrolysis of plant cell walls using glycome profiling | Biotechnology for Biofuels | 10 31 |
| 2017 | 10.1016/j.biortech.2017.05.047 | Jin, X., X. Chen, C. Shi, M. Li, Y. Guan, C. Y. Yu, T. Yamada, E. J. Sacks and J. Peng | Determination of hemicellulose, cellulose and lignin content using visible and near infrared spectroscopy in Miscanthus sinensis | Bioresource Technology | 241 603–9 |
| 2017 | 10.3389/fpls.2017.00721 | Jin, X., C. Shi, C. Y. Yu, T. Yamada and E. J. Sacks | Determination of Leaf Water Content by Visible and Near-Infrared Spectrometry and Multivariate Calibration in Miscanthus | Frontiers in Plant Science | 8 721 |
| 2017 | 10.1007/s10295-016-1896-6 | Zhou, J., X. Shao, D. G. Olson, S. J. Murphy, L. Tian and L. R. Lynd | Determining the roles of the three alcohol dehydrogenases (AdhA, AdhB and AdhE) in Thermoanaerobacter ethanolicus during ethanol formation | Journal of Industrial Microbiology and Biotechnology | 44(45387) 745–57 |
| 2017 | 10.1186/s13068-017-0792-2 | Dash, S., A. Khodayari, J. Zhou, E. K. Holwerda, D. G. Olson, L. R. Lynd and C. D. Maranas | Development of a core Clostridium thermocellum kinetic metabolic model consistent with multiple genetic perturbations | Biotechnology for Biofuels | 10 108 |
| 2017 | 10.1021/acssynbio.6b00136 | Zhang, J., J. F. Barajas, M. Burdu, T. L. Ruegg, B. Dias and J. D. Keasling | Development of a Transcription Factor-Based Lactam Biosensor | ACS Synthetic Biology | 6(3) 439–45 |
| 2017 | 10.1039/c6gc02637k | Papa, G., J. Kirby, N. V. S. N. Murthy Konda, K. Tran, S. Singh, J. D. Keasling, G. F. Peter and B. A. Simmons | Development of an integrated approach for α-pinene recovery and sugar production from loblolly pine using ionic liquids | Green Chemistry | 19(4) 1117–27 |
| 2017 | 10.1021/acssynbio.7b00192 | DeLorenzo, D. M., W. R. Henson and T. S. Moon | Development of Chemical and Metabolite Sensors for Rhodococcus opacus PD630 | ACS Synthetic Biology | 6(10) 1973–8 |
| 2017 | 10.1002/bit.26302 | Jin, M., Y. Liu, L. da Costa Sousa, B. E. Dale and V. Balan | Development of rapid bioconversion with integrated recycle technology for ethanol production from extractive ammonia pretreated corn stover | Biotechnology and Bioengineering | 114(8) 1713-1720 |
| 2017 | 10.1073/pnas.1700764114 | Diner, R. E., C. M. Noddings, N. C. Lian, A. K. Kang, J. B. McQuaid, et al. | Diatom centromeres suggest a mechanism for nuclear DNA acquisition | Proceedings of the National Academy of Sciences of the United States of America | 114(29) E6015–24 |
| 2017 | 10.1104/pp.17.00834 | Van Acker, R., A. Déjardin, S. Desmet, L. Hoengenaert, R. Vanholme, et al. | Different routes for conifer- and sinapaldehyde and higher saccharification upon deficiency in the dehydrogenase CAD1 | Plant Physiology | 175(3) 1018-1039 |
| 2017 | 10.1038/ncomms15459 | Gander, M. W., J. D. Vrana, W. E. Voje, J. M. Carothers and E. Klavins | Digital logic circuits in yeast with CRISPR-dCas9 NOR gates | Nature Communications | 8 15459 |
| 2017 | 10.1074/jbc.M116.774588 | Dajnowicz, S., J. M. Parks, X. Hu, K. Gesler, A. Y. Kovalevsky and T. C. Mueser | Direct evidence that an extended hydrogen-bonding network influences activation of pyridoxal 5'-phosphate in aspartate aminotransferase | Journal of Biological Chemistry | 292(14) 5970–80 |
| 2017 | 10.1080/21690731.2017.1327006 | Li, J., C. Zhang, P. Huang, E. Kuru, E. T. C. Forster-Benson, T. Li and G. M. Church | Dissecting limiting factors of the Protein synthesis Using Recombinant Elements (PURE) system | Translation | 5(1) e1327006 |
| 2017 | 10.1021/acs.jpcb.6b07884 | Simakov, N., D. A. Leonard, J. C. Smith, T. Wymore and A. Szarecka | A Distal Disulfide Bridge in OXA-1 β-Lactamase Stabilizes the Catalytic Center and Alters the Dynamics of the Specificity Determining Ω Loop | Journal of Physical Chemistry B | 121(15) 3285–96 |
| 2017 | 10.1128/AEM.02987-16 | Presley, G. N. and J. S. Schilling | Distinct Growth and Secretome Strategies for Two Taxonomically Divergent Brown Rot Fungi | Applied and Environmental Microbiology | 83(7) |
| 2017 | 10.1016/j.biombioe.2017.03.012 | Miesel, J. R., L. C. Jach-Smith, M. J. Renz and R. D. Jackson | Distribution of switchgrass (Panicum virgatum L.) aboveground biomass in response to nitrogen addition and across harvest dates | Biomass and Bioenergy | 100 74-83 |
| 2017 | 10.1111/nph.14421 | Hossain, M. S., T. Kawakatsu, K. D. Kim, N. Zhang, C. T. Nguyen, et al. | Divergent cytosine DNA methylation patterns in single-cell, soybean root hairs | New Phytologist | 214(2) 808–19 |
| 2017 | 10.3389/fmicb.2017.00158 | Qin, Y., X. Pan, C. Kubicek, I. Druzhinina, K. Chenthamara, J. Labbe and Z. Yuan | Diverse Plant-Associated Pleosporalean Fungi from Saline Areas: Ecological Tolerance and Nitrogen-Status Dependent Effects on Plant Growth | Frontiers in Microbiology | 8 158 |
| 2017 | 10.1038/ismej.2016.118 | Shade, A. | Diversity is the question, not the answer | ISME Journal | 11(1) 45297 |
| 2017 | 10.7717/peerj.3486 | Yim, W. C. and J. C. Cushman | Divide and Conquer (DC) BLAST: fast and easy BLAST execution within HPC environments | PeerJ | 5 e3486 |
| 2017 | 10.1371/journal.ppat.1006578 | Uehling, J., A. Deveau and M. Paoletti | Do fungi have an innate immune response? An NLR-based comparison to plant and animal immune systems | PLoS Pathogens | 13(10) e1006578 |
| 2017 | 10.1093/gbe/evx174 | Carlson, C. H., Y. Choi, A. P. Chan, M. J. Serapiglia, C. D. Town and L. B. Smart | Dominance and Sexual Dimorphism Pervade the Salix purpurea L. Transcriptome | Genome Biology and Evolution | 9(9) 2377–94 |
| 2017 | 10.1128/genomeA.01620-16 | Pfaller, S., V. Tokarev, C. Kessler, C. McLimans, V. Gomez-Alvarez, J. Wright, D. King and R. Lamendella | Draft Genome Sequence of Mycobacterium chimaera Type Strain Fl-0169 | Genome Announcements | 5(8) |
| 2017 | 10.1128/genomeA.00610-17 | Nicholls, C., A. Kump, S. Ford, R. Gonser and K. H. Cho | Draft Genome Sequence of Streptococcus pyogenes Strain M3KCL | Genome Announcements | 5(26) |
| 2017 | 10.1128/genomeA.00653-17 | Crofts, T. S., B. Wang, A. Spivak, T. A. Gianoulis, K. J. Forsberg, M. K. Gibson, L. A. Johnsky, S. M. Broomall, C. N. Rosenzweig, E. W. Skowronski, H. S. Gibbons, M. O. A. Sommer and G. Dantas | Draft Genome Sequences of Three β-Lactam-Catabolizing Soil Proteobacteria | Genome Announcements | 5(32) |
| 2017 | 10.1128/genomeA.00582-17 | Wu, X., A. M. Deutschbauer, A. E. Kazakov, K. M. Wetmore, B. A. Cwick, R. M. Walker, P. S. Novichkov, A. P. Arkin and R. Chakraborty | Draft Genome Sequences of Two Janthinobacterium lividum Strains, Isolated from Pristine Groundwater Collected from the Oak Ridge Field Research Center | Genome Announcements | 5(26) |
| 2017 | 10.1128/genomeA.00617-17 | Starkenburg, S. R., J. E. W. Polle, B. Hovde, H. E. Daligault, K. W. Davenport, A. Huang, P. Neofotis and Z. McKie-Krisberg | Draft Nuclear Genome, Complete Chloroplast Genome, and Complete Mitochondrial Genome for the Biofuel/Bioproduct Feedstock Species Scenedesmus obliquus Strain DOE0152z | Genome Announcements | 5(32) |
| 2017 | 10.1039/c7lc00576h | Gach, P. C., K. Iwai, P. W. Kim, N. J. Hillson and A. K. Singh | Droplet microfluidics for synthetic biology | Lab on a Chip | 17(20) 3388–400 |
| 2017 | 10.1186/s13068-017-0954-2 | Rao, X., H. Shen, S. Pattathil, M. G. Hahn, I. Gelineo-Albersheim, D. Mohnen, Y. Pu, A. J. Ragauskas, X. Chen, F. Chen and R. A. Dixon | Dynamic changes in transcriptome and cell wall composition underlying brassinosteroid-mediated lignification of switchgrass suspension cells | Biotechnology for Biofuels | 10 266 |
| 2017 | 10.1002/bit.26180 | Shi, J., D. Wu, L. Zhang, B. A. Simmons, S. Singh, B. Yang and C. E. Wyman | Dynamic changes of substrate reactivity and enzyme adsorption on partially hydrolyzed cellulose | Biotechnology and Bioengineering | 114(3) 503–15 |
| 2017 | 10.1186/s12859-017-1478-2 | Erbilgin, O., B. P. Bowen, S. M. Kosina, S. Jenkins, R. K. Lau and T. R. Northen | Dynamic substrate preferences predict metabolic properties of a simple microbial consortium | BMC Bioinformatics | 18(1) 57 |
| 2017 | 10.1021/acs.est.6b02980 | Zhang, P., Z. He, J. D. Van Nostrand, Y. Qin, Y. Deng, L. Wu, Q. Tu, J. Wang, C. W. Schadt, W. F. M, T. C. Hazen, A. P. Arkin, D. A. Stahl and J. Zhou | Dynamic Succession of Groundwater Sulfate-Reducing Communities during Prolonged Reduction of Uranium in a Contaminated Aquifer | Environmental Science & Technology | 51(7) 3609–20 |
| 2017 | 10.1103/PhysRevLett.119.048101 | Liu, Z., J. Huang, M. Tyagi, H. O'Neill, Q. Zhang, E. Mamontov, N. Jain, Y. Wang, J. Zhang, J. C. Smith and L. Hong | Dynamical Transition of Collective Motions in Dry Proteins | Physical Review Letters | 119(4) 048101 |
| 2017 | 10.1186/s13068-017-0848-3 | Kebrom, T. H., B. McKinley and J. E. Mullet | Dynamics of gene expression during development and expansion of vegetative stem internodes of bioenergy sorghum | Biotechnology for Biofuels | 10 159 |
| 2017 | 10.1016/j.apenergy.2017.08.161 | Ng, R. T. L. and C. T. Maravelias | Economic and energetic analysis of biofuel supply chains | Applied Energy | 205 1571-1582 |
| 2017 | 10.1111/1462-2920.13670 | Dore, J., A. Kohler, A. Dubost, H. Hundley, V. Singan, Y. Peng, A. Kuo, I. V. Grigoriev, F. Martin, R. Marmeisse and G. Gay | The ectomycorrhizal basidiomycete Hebeloma cylindrosporum undergoes early waves of transcriptional reprogramming prior to symbiotic structures differentiation | Environmental Microbiology | 19(3) 1338–54 |
| 2017 | 10.1186/s13068-017-0962-2 | Harman-Ware, A. E., R. M. Happs, B. H. Davison and M. F. Davis | The effect of coumaryl alcohol incorporation on the structure and composition of lignin dehydrogenation polymers | Biotechnology for Biofuels | 10 281 |
| 2017 | 10.1021/acssuschemeng.7b01527 | Meng, X. Z., B. R. Evans, C. G. Yoo, Y. Q. Pu, B. H. Davison and A. J. Ragauskas | Effect of in Vivo Deuteration on Structure of Switchgrass Lignin | ACS Sustainable Chemistry & Engineering | 5(9) 8004–10 |
| 2017 | 10.1021/acs.energyfuels.7b01567 | Yuan, X. M., L. L. He, S. Singh, B. A. Simmons and G. Cheng | Effect of Ionic Liquid Pretreatment on the Porosity of Pine: Insights from Small-Angle Neutron Scattering, Nitrogen Adsorption Analysis, and X-ray Diffraction | Energy & Fuels | 31(10) 10874–9 |
| 2017 | 10.1186/s13068-017-0917-7 | Verbeke, T. J., G. M. Garcia and J. G. Elkins | The effect of switchgrass loadings on feedstock solubilization and biofuel production by Clostridium thermocellum | Biotechnology for Biofuels | 10 233 |
| 2017 | 10.1021/acssuschemeng.7b00449 | Akinosho, H., A. Dumitrache, J. Natzke, W. Muchero, S. S. Jawdy, G. A. Tuskan, S. D. Brown and A. J. Ragauskas | Effects of Biomass Accessibility and Klason Lignin Contents during Consolidated Bioprocessing in Populus trichocarpa | ACS Sustainable Chemistry & Engineering | 5(6) 5075–81 |
| 2017 | 10.1016/j.algal.2017.01.010 | Hildebrand, M., K. Manandhar-Shrestha and R. Abbriano | Effects of chrysolaminarin synthase knockdown in the diatom Thalassiosira pseudonana: Implications of reduced carbohydrate storage relative to green algae | Algal Research | 23 66–77 |
| 2017 | 10.1016/j.carbpol.2016.11.085 | Bhagia, S., R. Kumar and C. E. Wyman | Effects of dilute acid and flowthrough pretreatments and BSA supplementation on enzymatic deconstruction of poplar by cellulase and xylanase | Carbohydrate Polymers | 157 1940–8 |
| 2017 | 10.1039/c6gc03627a | Yoo, C. G., M. Li, X. Z. Meng, Y. Q. Pu and A. J. Ragauskas | Effects of organosolv and ammonia pretreatments on lignin properties and its inhibition for enzymatic hydrolysis | Green Chemistry | 19(8) 2006–16 |
| 2017 | 10.1186/s13068-017-0842-9 | Sun, J., J. Shi, N. Murthy Konda, D. Campos, D. Liu, S. Nemser, J. Shamshina, T. Dutta, P. Berton, G. Gurau, R. D. Rogers, B. A. Simmons and S. Singh | Efficient dehydration and recovery of ionic liquid after lignocellulosic processing using pervaporation | Biotechnology for Biofuels | 10 154 |
| 2017 | 10.1073/pnas.1701894114 | Rautengarten, C., D. Birdseye, S. Pattathil, H. E. McFarlane, S. Saez-Aguayo, A. Orellana, S. Persson, M. G. Hahn, H. V. Scheller, J. L. Heazlewood and B. Ebert | The elaborate route for UDP-arabinose delivery into the Golgi of plants | Proceedings of the National Academy of Sciences of the United States of America | 114(16) 4261–6 |
| 2017 | 10.1016/j.meteno.2017.05.002 | Johnson, C. W., P. E. Abraham, J. G. Linger, P. Khanna, R. L. Hettich and G. T. Beckham | Eliminating a global regulator of carbon catabolite repression enhances the conversion of aromatic lignin monomers to muconate in Pseudomonas putida KT2440 | Metabolic Engineering Communications | 5 19–25 |
| 2017 | 10.1038/srep46249 | Bordbar, A., J. T. Yurkovich, G. Paglia, O. Rolfsson, O. E. Sigurjonsson and B. O. Palsson | Elucidating dynamic metabolic physiology through network integration of quantitative time-course metabolomics | Scientific Reports | 7 46249 |
| 2017 | 10.1021/acssuschemeng.7b01203 | Akinosho, H. O., C. G. Yoo, A. Dumitrache, J. Natzke, W. Muchero, S. D. Brown and A. J. Ragauskas | Elucidating the Structural Changes to Populus Lignin during Consolidated Bioprocessing with Clostridium thermocellum | ACS Sustainable Chemistry & Engineering | 5(9) 7486–91 |
| 2017 | 10.1111/1751-7915.12855 | Zuniga, C., L. Zaramela and K. Zengler | Elucidation of complexity and prediction of interactions in microbial communities | Microbial Biotechnology | 10(6) 1500–22 |
| 2017 | 10.1080/00275514.2016.1271689 | Bonito, G., K. Hameed, M. Toome-Heller, R. Healy, C. Reid, H. L. Liao, M. C. Aime, C. Schadt and R. Vilgalys | Atractiella rhizophila, sp. nov., an endorrhizal fungus isolated from the Populus root microbiome | Mycologia | 109(1) 18–26 |
| 2017 | 10.1021/acs.jpclett.7b01877 | Nickels, J. D., S. Chatterjee, B. Mostofian, C. B. Stanley, M. Ohl, P. Zolnierczuk, R. Schulz, D. A. A. Myles, R. F. Standaert, J. G. Elkins, X. Cheng and J. Katsaras | Bacillus subtilis Lipid Extract, A Branched-Chain Fatty Acid Model Membrane | Journal of Physical Chemistry Letters | 8(17) 4214–7 |
| 2017 | 10.1111/1751-7915.12494 | Blumer-Schuette, S. E., J. V. Zurawski, J. M. Conway, P. Khatibi, D. L. Lewis, Q. Li, V. L. Chiang and R. M. Kelly | Caldicellulosiruptor saccharolyticus transcriptomes reveal consequences of chemical pretreatment and genetic modification of lignocellulose | Microbial Biotechnology | 10(6) 1546–57 |
| 2017 | 10.1111/1462-2920.13878 | Neumann, A. P., C. A. McCormick and G. Suen | Fibrobacter communities in the gastrointestinal tracts of diverse hindgut-fermenting herbivores are distinct from those of the rumen | Environmental Microbiology | 19(9) 3768–83 |
| 2017 | 10.1111/nph.14758 | Gou, J., C. Fu, S. Liu, C. Tang, S. Debnath, A. Flanagan, Y. Ge, Y. Tang, Q. Jiang, P. R. Larson, J. Wen and Z. Y. Wang | The miR156-SPL4 module predominantly regulates aerial axillary bud formation and controls shoot architecture | New Phytologist | 216(3) 829–40 |
| 2017 | 10.1093/jxb/erx264 | Yerramsetty, P., E. M. Agar, W. C. Yim, J. C. Cushman and J. O. Berry | An rbcL mRNA-binding protein is associated with C3 to C4 evolution and light-induced production of Rubisco in Flaveria | Journal of Experimental Botany | 68(16) 4635–49 |
| 2017 | 10.1128/AEM.03035-16 | Fritts, R. K., B. LaSarre, A. M. Stoner, A. L. Posto and J. B. McKinlay | A Rhizobiales-Specific Unipolar Polysaccharide Adhesin Contributes to Rhodopseudomonas palustris Biofilm Formation across Diverse Photoheterotrophic Conditions | Applied and Environmental Microbiology | 83(4) |
| 2017 | 10.1186/s13068-017-0927-5 | Yaegashi, J., J. Kirby, M. Ito, J. Sun, T. Dutta, et al. | Rhodosporidium toruloides: a new platform organism for conversion of lignocellulose into terpene biofuels and bioproducts | Biotechnology for Biofuels | 10 241 |
| 2017 | 10.1007/978-3-319-45105-3_11 | Sebastian, J. and J. R. Dinneny | Setaria viridis: A Model for Understanding Panicoid Grass Root Systems | Genetics and Genomics of Setaria | 19 177–93 |
| 2017 | 10.1038/nplants.2017.54 | Huang, P., H. Jiang, C. Zhu, K. Barry, J. Jenkins, L. Sandor, J. Schmutz, M. S. Box, E. A. Kellogg and T. P. Brutnell | Sparse panicle1 is required for inflorescence development in Setaria viridis and maize | Nature Plants | 3 17054 |
| 2017 | 10.3791/54631 | Steffan, S. A., P. S. Dharampal, L. Diaz-Garcia, C. R. Currie, J. Zalapa and C. T. Hittinger | Empirical, metagenomic, and computational techniques illuminate the mechanisms by which fungicides compromise bee health | Journal of Visualized Experiments | 2017(128) |
| 2017 | 10.1007/s10295-016-1864-1 | Li, Z. J., K. Qiao, N. Liu and G. Stephanopoulos | Engineering Yarrowia lipolytica for poly-3-hydroxybutyrate production | Journal of Industrial Microbiology and Biotechnology | 44(4–5) 605–12 |
| 2017 | 10.1021/acssynbio.6b00240 | Soh, L. M. J., W. S. Mak, P. P. Lin, L. Mi, F. Y. Chen, R. Damoiseaux, J. B. Siegel and J. C. Liao | Engineering a Thermostable Keto Acid Decarboxylase Using Directed Evolution and Computationally Directed Protein Design | ACS Synthetic Biology | 6(4) 610–8 |
| 2017 | 10.1111/pbi.12733 | Peng, A., S. Chen, T. Lei, L. Xu, Y. He, L. Wu, L. Yao and X. Zou | Engineering canker-resistant plants through CRISPR/Cas9-targeted editing of the susceptibility gene CsLOB1 promoter in citrus | Plant Biotechnology Journal | 15(12) 1509–19 |
| 2017 | 10.1016/j.ymben.2016.10.018 | Lo, J., D. G. Olson, S. J. Murphy, L. Tian, S. Hon, A. Lanahan, A. M. Guss and L. R. Lynd | Engineering electron metabolism to increase ethanol production in Clostridium thermocellum | Metabolic Engineering | 39 71–9 |
| 2017 | 10.1038/npjsba.2016.35 | Chubukov, V., J. J. Desmarais, G. Wang, L. J. G. Chan, E. E. Baidoo, C. J. Petzold, J. D. Keasling and A. Mukhopadhyay | Engineering glucose metabolism of Escherichia coli under nitrogen starvation | npj Systems Biology and Applications | 3 16035 |
| 2017 | 10.1002/bit.26285 | Xu, P., K. Qiao and G. Stephanopoulos | Engineering oxidative stress defense pathways to build a robust lipid production platform in Yarrowia lipolytica | Biotechnology and Bioengineering | 114(7) 1521–30 |
| 2017 | 10.1002/bit.26242 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | Engineering the N-terminal end of CelA results in improved performance and growth of Caldicellulosiruptor bescii on crystalline cellulose | Biotechnology and Bioengineering | 114(5) 945–50 |
| 2017 | 10.1111/gcb.13755 | Feng, W., J. Liang, L. E. Hale, C. G. Jung, J. Chen, J. Zhou, M. Xu, M. Yuan, L. Wu, R. Bracho, E. Pegoraro, E. A. G. Schuur and Y. Luo | Enhanced decomposition of stable soil organic carbon and microbial catabolic potentials by long-term field warming | Global Change Biology | 23(11) 4765–76 |
| 2017 | 10.1038/srep42121 | Singh, R., J. Hu, M. R. Regner, J. W. Round, J. Ralph, J. N. Saddler and L. D. Eltis | Enhanced delignification of steam-pretreated poplar by a bacterial laccase | Scientific Reports | 7 |
| 2017 | 10.1186/s12934-017-0783-9 | Tian, L., S. J. Perot, S. Hon, J. Zhou, X. Liang, J. T. Bouvier, A. M. Guss, D. G. Olson and L. R. Lynd | Enhanced ethanol formation by Clostridium thermocellum via pyruvate decarboxylase | Microbial Cell Factories | 16(1) 171 |
| 2017 | 10.1038/srep41174 | Banf, M. and S. Y. Rhee | Enhancing gene regulatory network inference through data integration with markov random fields | Scientific Reports | 7 41174 |
| 2017 | 10.1002/ehs2.1259 | Yang, Q., X. Zhang, M. Abraha, S. Del grosso, G. P. Robertson and J. Chen | Enhancing the soil and water assessment tool model for simulating N2O emissions of three agricultural systems | Ecosystem Health and Sustainability | 3(2) |
| 2017 | 10.1007/978-1-4939-6533-5_11 | Zeng, W., B. Ebert, H. T. Parsons, C. Rautengarten, A. Bacic and J. L. Heazlewood | Enrichment of Golgi Membranes from Triticum aestivum (Wheat) Seedlings | Isolation of Plant Organelles and Structures: Methods and Protocols | 1511 131–50 |
| 2017 | 10.1007/978-1-4939-6533-5_17 | Lao, J., A. M. Smith-Moritz, J. C. Mortimer and J. L. Heazlewood | Enrichment of the Plant Cytosolic Fraction | Isolation of Plant Organelles and Structures: Methods and Protocols | 1511 213–32 |
| 2017 | 10.1128/AEM.01253-17 | Justice, N. B., A. Sczesnak, T. C. Hazen and A. P. Arkin | Environmental Selection, Dispersal, and Organism Interactions Shape Community Assembly in High-Throughput Enrichment Culturing | Applied and Environmental Microbiology | 83(20) |
| 2017 | 10.1104/pp.17.00576 | Jun, S. Y., A. M. Walker, H. Kim, J. Ralph, W. Vermerris, S. E. Sattler and C. Kang | The enzyme activity and substrate specificity of two major cinnamyl alcohol dehydrogenases in Sorghum (Sorghum bicolor), SbCAD2 and SbCAD4 | Plant Physiology | 174(4) 2128-2145 |
| 2017 | 10.1016/j.ymben.2017.06.011 | Hon, S., D. G. Olson, E. K. Holwerda, A. A. Lanahan, S. J. L. Murphy, M. I. Maloney, T. Zheng, B. Papanek, A. M. Guss and L. R. Lynd | The ethanol pathway from Thermoanaerobacterium saccharolyticum improves ethanol production in Clostridium thermocellum | Metabolic Engineering | 42 175–84 |
| 2017 | 10.1016/j.coisb.2017.01.008 | Purdy, H. M. and J. L. Reed | Evaluating the capabilities of microbial chemical production using genome-scale metabolic models | Current Opinion in Systems Biology | 2 91–7 |
| 2017 | 10.1371/journal.pone.0176716 | Wen, C., L. Wu, Y. Qin, J. D. Van Nostrand, D. Ning, B. Sun, K. Xue, F. Liu, Y. Deng, Y. Liang and J. Zhou | Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform | PLoS One | 12(4) e0176716 |
| 2017 | 10.1007/978-1-4939-6658-5_7 | Joshi, T., J. Wang, H. Zhang, S. Chen, S. Zeng, B. Xu and D. Xu | The Evolution of Soybean Knowledge Base (SoyKB) | Plant Genomics Databases | 1533 149–59 |
| 2017 | 10.1073/pnas.1710798114 | Shih, P. M., L. M. Ward and W. W. Fischer | Evolution of the 3-hydroxypropionate bicycle and recent transfer of anoxygenic photosynthesis into the Chloroflexi | Proceedings of the National Academy of Sciences of the United States of America | 114(40) 10749–54 |
| 2017 | 10.3390/metabo7040050 | Lubbe, A., B. P. Bowen and T. Northen | Exometabolomic Analysis of Cross-Feeding Metabolites | Metabolites | 7(4) |
| 2017 | 10.1021/acssynbio.7b00204 | Morrell, W. C., G. W. Birkel, M. Forrer, T. Lopez, T. W. H. Backman, et al. | The Experiment Data Depot: A Web-Based Software Tool for Biological Experimental Data Storage, Sharing, and Visualization | ACS Synthetic Biology | 6(12) 2248–59 |
| 2017 | 10.1038/ismej.2016.180 | Zhang, X., E. R. Johnston, L. Li, K. T. Konstantinidis and X. Han | Experimental warming reveals positive feedbacks to climate change in the Eurasian Steppe | The ISME Journal | 11(4) 885–95 |
| 2017 | 10.1105/tpc.17.00338 | Gonzales-Vigil, E., C. A. Hefer, M. E. Von Loessl, J. La Mantia and S. D. Mansfield | Exploiting natural variation to uncover an alkene biosynthetic enzyme in poplar | Plant Cell | 29(8) 2000-2015 |
| 2017 | 10.1021/acsinfecdis.7b00003 | Goins, C. M., S. Dajnowicz, S. Thanna, S. J. Sucheck, J. M. Parks and D. R. Ronning | Exploring Covalent Allosteric Inhibition of Antigen 85C from Mycobacterium tuberculosis by Ebselen Derivatives | ACS Infectious Diseases | 3(5) 378–87 |
| 2017 | 10.1186/s13068-017-0940-8 | Zheng, T., J. Cui, H. R. Bae, L. R. Lynd and D. G. Olson | Expression of adhA from different organisms in Clostridium thermocellum | Biotechnology for Biofuels | 10 251 |
| 2017 | 10.1186/s13068-017-0700-9 | Daly, P., J. M. van Munster, M. J. Blythe, R. Ibbett, M. Kokolski, et al. | Expression of Aspergillus niger CAZymes is determined by compositional changes in wheat straw generated by hydrothermal or ionic liquid pretreatments | Biotechnology for Biofuels | 10 35 |
| 2017 | 10.1186/s13068-017-0750-z | Kim, S. K., J. Groom, D. Chung, J. Elkins and J. Westpheling | Expression of a heat-stable NADPH-dependent alcohol dehydrogenase from Thermoanaerobacter pseudethanolicus 39E in Clostridium thermocellum 1313 results in increased hydroxymethylfurfural resistance | Biotechnology for Biofuels | 10 66 |
| 2017 | 10.1371/journal.pone.0189604 | Amaike Campen, S., J. Lynn, S. J. Sibert, S. Srikrishnan, P. Phatale, et al. | Expression of naturally ionic liquid-tolerant thermophilic cellulases in Aspergillus niger | PLoS One | 12(12) e0189604 |
| 2017 | 10.1016/j.jmbbm.2017.01.009 | Khandaker, M. S. K., D. M. Dudek, E. P. Beers and D. A. Dillard | Expression, crosslinking, and developing modulus master curves of recombinant resilin | Journal of the Mechanical Behavior of Biomedical Materials | 69 385–94 |
| 2017 | 10.1021/acschembio.6b00890 | Baran, R., R. Lau, B. P. Bowen, S. Diamond, N. Jose, F. Garcia-Pichel and T. R. Northen | Extensive Turnover of Compatible Solutes in Cyanobacteria Revealed by Deuterium Oxide (D2O) Stable Isotope Probing | ACS Chemical Biology | 12(3) 674–81 |
| 2017 | 10.1126/sciadv.aao6741 | Yeung, L. Y., S. Li, I. E. Kohl, J. A. Haslun, N. E. Ostrom, H. Hu, T. P. Fischer, E. A. Schauble and E. D. Young | Extreme enrichment in atmospheric 15N15N | Science Advances | 3(11) |
| 2017 | 10.1016/j.copbio.2017.02.016 | Straub, C. T., B. M. Zeldes, G. J. Schut, M. W. Adams and R. M. Kelly | Extremely thermophilic energy metabolisms: biotechnological prospects | Current Opinion in Biotechnology | 45 104–12 |
| 2017 | 10.1007/s10295-017-1949-5 | Sarks, C., M. Jin, V. Balan and B. E. Dale | Fed-batch hydrolysate addition and cell separation by settling in high cell density lignocellulosic ethanol fermentations on AFEX™ corn stover in the Rapid Bioconversion with Integrated recycling Technology process | Journal of Industrial Microbiology and Biotechnology | 44(9) 1261-1272 |
| 2017 | 10.1038/srep42839 | Tanger, P., S. Klassen, J. P. Mojica, J. T. Lovell, B. T. Moyers, M. Baraoidan, M. E. Naredo, K. L. McNally, J. Poland, D. R. Bush, H. Leung, J. E. Leach and J. K. McKay | Field-based high throughput phenotyping rapidly identifies genomic regions controlling yield components in rice | Scientific Reports | 7 42839 |
| 2017 | 10.1186/s13068-017-0939-1 | Johnson, C. R., R. J. Millwood, Y. Tang, J. Gou, R. W. Sykes, G. B. Turner, M. F. Davis, Y. Sang, Z. Y. Wang and C. N. Stewart, Jr. | Field-grown miR156 transgenic switchgrass reproduction, yield, global gene expression analysis, and bioconfinement | Biotechnology for Biofuels | 10 255 |
| 2017 | 10.1111/gcbb.12407 | DeBruyn, J. M., D. A. Bevard, M. E. Essington, J. Y. McKnight, S. M. Schaeffer, H. L. Baxter, M. Mazarei, D. G. J. Mann, R. A. Dixon, F. Chen, C. Zhuo, Z.-Y. Wang and C. N. Stewart | Field-grown transgenic switchgrass (Panicum virgatum L.) with altered lignin does not affect soil chemistry, microbiology, and carbon storage potential | GCB Bioenergy | 9(6) 1100–9 |
| 2017 | 10.1016/j.meteno.2017.07.002 | Comer, A. D., M. R. Long, J. L. Reed and B. F. Pfleger | Flux Balance Analysis Indicates that Methane Is the Lowest Cost Feedstock for Microbial Cell Factories | Metabolic Engineering Communications | 5 26–33 |
| 2017 | 10.1074/jbc.M117.777417 | Li, Z., T. Mukherjee, K. Bowler, S. Namdari, Z. Snow, S. Prestridge, A. Carlton and M. Bar-Peled | A four-gene operon in Bacillus cereus produces two rare spore-decorating sugars | Journal of Biological Chemistry | 292(18) 7636–50 |
| 2017 | 10.1039/c7gc00944e | Zhao, W. W., L. P. Xiao, G. Y. Song, R. C. Sun, L. L. He, S. Singh, B. A. Simmons and G. Cheng | From lignin subunits to aggregates: insights into lignin solubilization | Green Chemistry | 19(14) 3272–81 |
| 2017 | 10.1128/AEM.01828-17 | Conway, J. M., B. S. McKinley, N. L. Seals, D. Hernandez, P. A. Khatibi, S. Poudel, R. J. Giannone, R. L. Hettich, A. M. Williams-Rhaesa, G. L. Lipscomb, M. W. W. Adams and R. M. Kelly | Functional Analysis of the Glucan Degradation Locus in Caldicellulosiruptor bescii Reveals Essential Roles of Component Glycoside Hydrolases in Plant Biomass Deconstruction | Applied and Environmental Microbiology | 83(24) |
| 2017 | 10.1007/s00253-017-8168-x | Li, B. and J. D. Walton | Functional diversity for biomass deconstruction in family 5 subfamily 5 (GH5_5) of fungal endo-β1,4-glucanases | Applied Microbiology and Biotechnology | 101(10) 4093-4101 |
| 2017 | 10.1007/s10295-016-1846-3 | Youngquist, J. T., T. C. Korosh and B. F. Pfleger | Functional genomics analysis of free fatty acid production under continuous phosphate limiting conditions | Journal of Industrial Microbiology and Biotechnology | 44(45387) 759-772 |
| 2017 | 10.1039/c6gc03515a | McClelland, D. J., A. H. Motagamwala, Y. Li, M. R. Rover, A. M. Wittrig, C. Wu, J. S. Buchanan, R. C. Brown, J. Ralph, J. A. Dumesic and G. W. Huber | Functionality and molecular weight distribution of red oak lignin before and after pyrolysis and hydrogenation | Green Chemistry | 19(5) 1378-1389 |
| 2017 | 10.1111/nph.14279 | Fochi, V., W. Chitarra, A. Kohler, S. Voyron, V. R. Singan, E. A. Lindquist, K. W. Barry, M. Girlanda, I. V. Grigoriev, F. Martin, R. Balestrini and S. Perotto | Fungal and plant gene expression in the Tulasnella calospora-Serapias vomeracea symbiosis provides clues about nitrogen pathways in orchid mycorrhizas | New Phytologist | 213(1) 365–79 |
| 2017 | 10.1201/9781315119496 | Dighton, J. and J. F. White | The Fungal Community: Its Organization and Role in the Ecosystem (Fourth Edition) | CRC Press | |
| 2017 | 10.1371/journal.pgen.1006737 | Xiong, Y., V. W. Wu, A. Lubbe, L. Qin, S. Deng, M. Kennedy, D. Bauer, V. R. Singan, K. Barry, T. R. Northen, I. V. Grigoriev and N. L. Glass | A fungal transcription factor essential for starch degradation affects integration of carbon and nitrogen metabolism | PLoS Genetics | 13(5) e1006737 |
| 2017 | 10.1128/microbiolspec.FUNK-0053-2016 | Spatafora, J. W., M. C. Aime, I. V. Grigoriev, F. Martin, J. E. Stajich and M. Blackwell | The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies | Microbiology Spectrum | 5(5) |
| 2017 | 10.1104/pp.17.00731 | Joo, S., Y. Nishimura, E. Cronmiller, R. H. Hong, T. Kariyawasam, M. H. Wang, N. C. Shao, S. E. D. El Akkad, T. Suzuki, T. Higashiyama, E. Jin and J. H. Lee | Gene regulatory networks for the haploid-to-diploid transition of Chlamydomonas reinhardtii | Plant Physiology | 175(1) 314-332 |
| 2017 | 10.1038/s41598-017-02628-w | Wu, C. W., T. Spike, D. M. Klingeman, M. Rodriguez, V. R. Bremer and S. D. Brown | Generation and Characterization of Acid Tolerant Fibrobacter succinogenes S85 | Scientific Reports | 7(1) 2277 |
| 2017 | 10.1093/infdis/jiw465 | Henry, C. S., E. Rotman, W. W. Lathem, K. E. Tyo, A. R. Hauser and M. J. Mandel | Generation and Validation of the iKp1289 Metabolic Model for Klebsiella pneumoniae KPPR1 | The Journal of Infectious Diseases | 215(Supplement 1) S37–43 |
| 2017 | 10.1007/s12155-016-9795-2 | Yoon, S., S. Aucar, B. J. Hernlem, S. Edme, N. Palmer, G. Sarath, R. Mitchell, E. Blumwald and C. M. Tobias | Generation of Octaploid Switchgrass by Seedling Treatment with Mitotic Inhibitors | Bioenergy Research | 10(2) 344–52 |
| 2017 | 10.1093/molbev/msw238 | Nagy, L. G., R. Riley, P. J. Bergmann, K. Krizsan, F. M. Martin, I. V. Grigoriev, D. Cullen and D. S. Hibbett | Genetic Bases of Fungal White Rot Wood Decay Predicted by Phylogenomic Analysis of Correlated Gene-Phenotype Evolution | Molecular Biology and Evolution | 34(1) 35–44 |
| 2017 | 10.1007/s00122-017-2876-6 | Zhang, X., O. Valdes-Lopez, C. Arellano, G. Stacey and P. Balint-Kurti | Genetic dissection of the maize (Zea mays L.) MAMP response | Theoretical and Applied Genetics | 130(6) 1155–68 |
| 2017 | 10.1007/978-3-319-45105-3_3 | Huang, P. and M. Feldman | Genetic Diversity and Geographic Distribution of North American Setaria viridis Populations | Genetics and Genomics of Setaria | 19 45–59 |
| 2017 | 10.3389/fpls.2017.01364 | Gao, W., L. Long, X. Tian, F. Xu, J. Liu, P. K. Singh, J. R. Botella and C. Song | Genome Editing in Cotton with the CRISPR/Cas9 System | Frontiers in Plant Science | 8 1364 |
| 2017 | 10.1093/femsyr/fox019 | Haase, M. A., J. Kominek, Q. K. Langdon, C. P. Kurtzman and C. T. Hittinger | Genome sequence and physiological analysis of Yamadazyma laniorum f.a. sp. nov. and a reevaluation of the apocryphal xylose fermentation of its sister species, Candida tenuis | FEMS Yeast Research | 17(3) |
| 2017 | 10.1128/AEM.00444-17 | Williams-Rhaesa, A. M., F. L. Poole, 2nd, J. T. Dinsmore, G. L. Lipscomb, G. M. Rubinstein, I. M. Scott, J. M. Conway, L. L. Lee, P. A. Khatibi, R. M. Kelly and M. W. W. Adams | Genome Stability in Engineered Strains of the Extremely Thermophilic Lignocellulose-Degrading Bacterium Caldicellulosiruptor bescii | Applied and Environmental Microbiology | 83(14) |
| 2017 | 10.1038/s41467-017-01407-5 | Zomorrodi, A. R. and D. Segrè | Genome-driven evolutionary game theory helps understand the rise of metabolic interdependencies in microbial communities | Nature Communications | 8(1) |
| 2017 | 10.1016/j.celrep.2017.08.066 | Reznik, E., D. Christodoulou, J. E. Goldford, E. Briars, U. Sauer, D. Segrè and E. Noor | Genome-Scale Architecture of Small Molecule Regulatory Networks and the Fundamental Trade-Off between Regulation and Enzymatic Activity | Cell Reports | 20(11) 2666-2677 |
| 2017 | 10.17226/24751 | Reed, J. L. | Genome-Scale Metabolic Modeling and Its Application to Microbial Communities | The Chemistry of Microbiomes: Proceedings of a Seminar Series | 85–92 |
| 2017 | 10.1111/nph.14154 | Fahrenkrog, A. M., L. G. Neves, M. F. Resende, Jr., A. I. Vazquez, G. de Los Campos, C. Dervinis, R. Sykes, M. Davis, R. Davenport, W. B. Barbazuk and M. Kirst | Genome-wide association study reveals putative regulators of bioenergy traits in Populus deltoides | New Phytologist | 213(2) 799–811 |
| 2017 | 10.1111/nph.14101 | Grabowski, P. P., J. Evans, C. Daum, S. Deshpande, K. W. Barry, M. Kennedy, G. Ramstein, S. M. Kaeppler, C. R. Buell, Y. Jiang and M. D. Casler | Genome-wide associations with flowering time in switchgrass using exome-capture sequencing data | New Phytologist | 213(1) 154–69 |
| 2017 | 10.1371/journal.pbio.2002860 | Cole, B. J., M. E. Feltcher, R. J. Waters, K. M. Wetmore, T. S. Mucyn, E. M. Ryan, G. Wang, S. Ul-Hasan, M. McDonald, Y. Yoshikuni, R. R. Malmstrom, A. M. Deutschbauer, J. L. Dangl and A. Visel | Genome-wide identification of bacterial plant colonization genes | PLoS Biology | 15(9) e2002860 |
| 2017 | 10.1038/nbt.3718 | Garst, A. D., M. C. Bassalo, G. Pines, S. A. Lynch, A. L. Halweg-Edwards, R. Liu, L. Liang, Z. Wang, R. Zeitoun, W. G. Alexander and R. T. Gill | Genome-wide mapping of mutations at single-nucleotide resolution for protein, metabolic and genome engineering | Nature Biotechnology | 35(1) 48–55 |
| 2017 | 10.1104/pp.16.01942 | Schläpfer, P., P. Zhang, C. Wang, T. Kim, M. Banf, L. Chae, K. Dreher, A. K. Chavali, R. Nilo-Poyanco, T. Bernard, D. Kahn and S. Y. Rhee | Genome-wide prediction of metabolic enzymes, pathways, and gene clusters in plants | Plant Physiology | 173(4) 2041-2059 |
| 2017 | 10.1186/s12864-017-4036-4 | Gilmore, S. P., J. K. Henske, J. A. Sexton, K. V. Solomon, S. Seppälä, J. I. Yoo, L. M. Huyett, A. Pressman, J. Z. Cogan, V. Kivenson, X. Peng, Y. P. Tan, D. L. Valentine and M. A. O'Malley | Genomic analysis of methanogenic archaea reveals a shift towards energy conservation | BMC Genomics | 18(1) |
| 2017 | 10.1038/s41588-017-0012-9 | Levy, A., I. Salas Gonzalez, M. Mittelviefhaus, S. Clingenpeel, S. Herrera Paredes, et al. | Genomic features of bacterial adaptation to plants | Nature Genetics | 50(1) 138–50 |
| 2017 | 10.1007/978-3-319-66365-4_1 | Blaby, I. K. a. C. E. B.-H. | Genomics and Functional Genomics in Chlamydomonas reinhardtii | Chlamydomonas: Molecular Genetics and Physiology | 30 1–26 |
| 2017 | 10.1007/7397_2016_17 | He, X. and A. T. Groover | The Genomics of Wood Formation in Angiosperm Trees | Comparative and Evolutionary Genomics of Angiosperm Trees | 21 205–25 |
| 2017 | 10.1086/692439 | Fukami, T., M. Nakajima, C. Fortunel, P. V. A. Fine, C. Baraloto, S. E. Russo and K. G. Peay | Geographical Variation in Community Divergence: Insights from Tropical Forest Monodominance by Ectomycorrhizal Trees | American Naturalist | 190(S1) S105–22 |
| 2017 | 10.1073/pnas.1702581114 | Fang, X., A. Sastry, N. Mih, D. Kim, J. Tan, J. T. Yurkovich, C. J. Lloyd, Y. Gao, L. Yang and B. O. Palsson | Global transcriptional regulatory network for Escherichia coli robustly connects gene expression to transcription factor activities | Proceedings of the National Academy of Sciences of the United States of America | 114(38) 10286–91 |
| 2017 | 10.1038/nbt.3976 | Lynd, L. R. | The grand challenge of cellulosic biofuels | Nature Biotechnology | 35(10) 912–5 |
| 2017 | 10.1002/2016jg003600 | Wilson, R. M., L. Fitzhugh, G. J. Whiting, S. Frolking, M. D. Harrison, N. Dimova, W. C. Burnett and J. P. Chanton | Greenhouse gas balance over thaw-freeze cycles in discontinuous zone permafrost | Journal of Geophysical Research: Biogeosciences | 122(2) 387–404 |
| 2017 | 10.1111/gcbb.12473 | Jones, C. D., X. Zhang, A. D. Reddy, G. P. Robertson and R. C. Izaurralde | The greenhouse gas intensity and potential biofuel production capacity of maize stover harvest in the US Midwest | GCB Bioenergy | 9(10) 1543-1554 |
| 2017 | 10.1128/JB.00827-16 | Chubiz, L. M. and C. J. Marx | Growth Trade-Offs Accompany the Emergence of Glycolytic Metabolism in Shewanella oneidensis MR-1 | Journal of Bacteriology | 199(11) |
| 2017 | 10.1111/1462-2920.13847 | McCully, A. L., B. LaSarre and J. B. McKinlay | Growth-independent cross-feeding modifies boundaries for coexistence in a bacterial mutualism | Environmental Microbiology | 19(9) 3538–50 |
| 2017 | 10.1007/s10295-017-1982-4 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | Heterologous expression of a β-D-glucosidase in Caldicellulosiruptor bescii has a surprisingly modest effect on the activity of the exoproteome and growth on crystalline cellulose | Journal of Industrial Microbiology and Biotechnology | 44(12) 1643–51 |
| 2017 | 10.1021/acschembio.7b00714 | Yuzawa, S., C. B. Bailey, T. Fujii, R. Jocic, J. F. Barajas, V. T. Benites, E. E. K. Baidoo, Y. Chen, C. J. Petzold, L. Katz and J. D. Keasling | Heterologous Gene Expression of N-Terminally Truncated Variants of LipPks1 Suggests a Functionally Critical Structural Motif in the N-terminus of Modular Polyketide Synthase | ACS Chemical Biology | 12(11) 2725–9 |
| 2017 | 10.1016/j.pbi.2017.05.006 | Shakoor, N., S. Lee and T. C. Mockler | High throughput phenotyping to accelerate crop breeding and monitoring of diseases in the field | Current Opinion in Plant Biology | 38 184–92 |
| 2017 | 10.1128/genomeA.00300-17 | Woo, H. L., K. M. DeAngelis, H. Teshima, K. Davenport, H. Daligault, et al. | High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp. | Genome Announcements | 5(18) |
| 2017 | 10.1016/j.ymben.2017.03.010 | Kang, A., C. W. Meadows, N. Canu, J. D. Keasling and T. S. Lee | High-throughput enzyme screening platform for the IPP-bypass mevalonate pathway for isopentenol production | Metabolic Engineering | 41 125–34 |
| 2017 | 10.1016/j.chroma.2017.02.028 | Cocuron, J. C., E. Tsogtbaatar and A. P. Alonso | High-throughput quantification of the levels and labeling abundance of free amino acids by liquid chromatography tandem mass spectrometry | Journal of Chromatography A | 1490 148–55 |
| 2017 | 10.1104/pp.17.01172 | Karlen, S. D., R. A. Smith, H. Kim, D. Padmakshan, A. Bartuce, J. K. Mobley, H. C. A. Free, B. G. Smith, P. J. Harris and J. Ralph | Highly decorated lignins in leaf tissues of the canary island date palm phoenix canariensis | Plant Physiology | 175(3) 1058-1067 |
| 2017 | 10.1128/AEM.03044-16 | Thorgersen, M. P., W. A. Lancaster, L. Rajeev, X. Ge, B. J. Vaccaro, F. L. Poole, A. P. Arkin, A. Mukhopadhyay and M. W. W. Adams | A Highly Expressed High-Molecular-Weight S-Layer Complex of Pelosinus sp. Strain UFO1 Binds Uranium | Applied and Environmental Microbiology | 83(4) |
| 2017 | 10.1016/j.biocel.2017.06.016 | Shaul, O. | How introns enhance gene expression | The International Journal of Biochemistry & Cell Biology | 91(Part B) 145–55 |
| 2017 | 10.1186/s13068-017-0763-7 | Peris, D., R. V. Moriarty, W. G. Alexander, E. Baker, K. Sylvester, et al. | Hybridization and adaptive evolution of diverse Saccharomyces species for cellulosic biofuel production | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1016/j.orggeochem.2017.06.011 | Wilson, R. M., M. M. Tfaily, V. I. Rich, J. K. Keller, S. D. Bridgham, et al. | Hydrogenation of organic matter as a terminal electron sink sustains high CO2:CH4 production ratios during anaerobic decomposition | Organic Geochemistry | 112 22–32 |
| 2017 | 10.1104/pp.17.00362 | del Río, J. C., J. Rencoret, A. Gutiérrez, H. Kim and R. John | Hydroxystilbenes are monomers in palm fruit endocarp lignins | Plant Physiology | 174(4) 2072-2082 |
| 2017 | 10.1128/JB.00286-17 | Zeng, L., E. Wooton, D. A. Stahl and P. J. Walian | Identification and Characterization of the Major Porin of Desulfovibrio vulgaris Hildenborough | Journal of Bacteriology | 199(23) |
| 2017 | 10.1186/s13068-017-0870-5 | Crowe, J. D., N. Feringa, S. Pattathil, B. Merritt, C. Foster, D. Dines, R. G. Ong and D. B. Hodge | Identification of developmental stage and anatomical fraction contributions to cell wall recalcitrance in switchgrass | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1128/mBio.01739-16 | Herivaux, A., T. Duge de Bernonville, C. Roux, M. Clastre, V. Courdavault, A. Gastebois, J. P. Bouchara, T. Y. James, J. P. Latge, F. Martin and N. Papon | The Identification of Phytohormone Receptor Homologs in Early Diverging Fungi Suggests a Role for Plant Sensing in Land Colonization by Fungi | mBio | 8(1) |
| 2017 | 10.1371/journal.pone.0174345 | Douglas, S. M., L. M. Chubiz, W. R. Harcombe and C. J. Marx | Identification of the potentiating mutations and synergistic epistasis that enabled the evolution of inter-species cooperation | PLoS One | 12(5) e0174345 |
| 2017 | 10.1038/srep41569 | Mueller, T. J., J. L. Ungerer, H. B. Pakrasi and C. D. Maranas | Identifying the Metabolic Differences of a Fast-Growth Phenotype in Synechococcus UTEX 2973 | Scientific Reports | 7 41569 |
| 2017 | 10.3791/55971 | Aufrecht, J. A., J. M. Ryan, S. Hasim, D. P. Allison, A. Nebenfuhr, M. J. Doktycz and S. T. Retterer | Imaging the Root Hair Morphology of Arabidopsis Seedlings in a Two-layer Microfluidic Platform | Journal of Visualized Experiments | (126) e55971 |
| 2017 | 10.1186/s13068-017-0784-2 | Kim, K. H., T. Dutta, J. Ralph, S. D. Mansfield, B. A. Simmons and S. Singh | Impact of lignin polymer backbone esters on ionic liquid pretreatment of poplar | Biotechnology for Biofuels | 10 101 |
| 2017 | 10.1016/j.tibtech.2017.08.011 | Campbell, K., J. Xia and J. Nielsen | The Impact of Systems Biology on Bioprocessing | Trends in Biotechnology | 35(12) 1156–68 |
| 2017 | 10.1016/j.rser.2016.11.253 | Neupane, B. and J. Rubin | Implications of U.S. biofuels policy for sustainable transportation energy in Maine and the Northeast | Renewable and Sustainable Energy Reviews | 70 729–35 |
| 2017 | 10.1016/j.ymben.2017.09.008 | Seppala, S., S. E. Wilken, D. Knop, K. V. Solomon and M. A. O'Malley | The importance of sourcing enzymes from non-conventional fungi for metabolic engineering and biomass breakdown | Metabolic Engineering | 44 45–59 |
| 2017 | 10.1186/s13068-016-0684-x | Biswas, R., C. M. Wilson, R. J. Giannone, D. M. Klingeman, T. Rydzak, M. B. Shah, R. L. Hettich, S. D. Brown and A. M. Guss | Improved growth rate in Clostridium thermocellum hydrogenase mutant via perturbed sulfur metabolism | Biotechnology for Biofuels | 10 6 |
| 2017 | 10.3390/pr5040061 | Faraji, M. and E. O. Voit | Improving Bioenergy Crops through Dynamic Metabolic Modeling | Processes | 5(4) |
| 2017 | 10.2134/agronj2017.03.0129 | Jean, M., D. Pennington, M. Y. Quigley and K. D. Thelen | Improving biomass and ethanol yield by intercropping a winter cereal with corn | Agronomy Journal | 109(6) 2530-2536 |
| 2017 | 10.1093/bioinformatics/btw706 | Long, M. R. and J. L. Reed | Improving flux predictions by integrating data from multiple strains | Bioinformatics | 33(6) 893–900 |
| 2017 | 10.1038/s41598-017-12901-7 | Jensen, H. M., T. Eng, V. Chubukov, R. A. Herbert and A. Mukhopadhyay | Improving membrane protein expression and function using genomic edits | Scientific Reports | 7(1) 13030 |
| 2017 | 10.15252/msb.20167411 | Sanchez, B. J., C. Zhang, A. Nilsson, P. J. Lahtvee, E. J. Kerkhoven and J. Nielsen | Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints | Molecular Systems Biology | 13(8) 935 |
| 2017 | 10.1007/s00425-017-2687-7 | Kim, S. J., S. Zemelis-Durfee, C. Wilkerson and F. Brandizzi | In Brachypodium a complex signaling is actuated to protect cells from proteotoxic stress and facilitate seed filling | Planta | 246(1) 75-89 |
| 2017 | 10.1371/journal.pbio.2002214 | Nickels, J. D., S. Chatterjee, C. B. Stanley, S. Qian, X. Cheng, D. A. A. Myles, R. F. Standaert, J. G. Elkins and J. Katsaras | The in vivo structure of biological membranes and evidence for lipid domains | PLoS Biology | 15(5) e2002214 |
| 2017 | 10.1002/bit.26366 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | In vivo synergistic activity of a CAZyme cassette from Acidothermus cellulolyticus significantly improves the cellulolytic activity of the C. bescii exoproteome | Biotechnology and Bioengineering | 114(11) 2474–80 |
| 2017 | 10.1007/s00253-016-8078-3 | Masukawa, H., H. Sakurai, R. P. Hausinger and K. Inoue | Increased heterocyst frequency by patN disruption in Anabaena leads to enhanced photobiological hydrogen production at high light intensity and high cell density | Applied Microbiology and Biotechnology | 101(5) 2177-2188 |
| 2017 | 10.1128/AEM.03034-16 | Christensen, D. G., J. S. Orr, C. V. Rao and A. J. Wolfe | Increasing Growth Yield and Decreasing Acetylation in Escherichia coli by Optimizing the Carbon-to-Magnesium Ratio in Peptide-Based Media | Applied and Environmental Microbiology | 83(6) |
| 2017 | 10.1073/pnas.1703088114 | Brawley, S. H., N. A. Blouin, E. Ficko-Blean, G. L. Wheeler, M. Lohr, et al. | Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta) | Proceedings of the National Academy of Sciences of the United States of America | 114(31) E6361–70 |
| 2017 | 10.1039/c7gc02219k | Yoo, C. G., Y. I. Yang, Y. Q. Pu, X. Z. Meng, W. Muchero, et al. | Insights of biomass recalcitrance in natural Populus trichocarpa variants for biomass conversion | Green Chemistry | 19(22) 5467–78 |
| 2017 | 10.1186/s13068-016-0697-5 | Poudel, S., R. J. Giannone, M. Rodriguez, Jr., B. Raman, M. Z. Martin, N. L. Engle, J. R. Mielenz, I. Nookaew, S. D. Brown, T. J. Tschaplinski, D. Ussery and R. L. Hettich | Integrated omics analyses reveal the details of metabolic adaptation of Clostridium thermocellum to lignocellulose-derived growth inhibitors released during the deconstruction of switchgrass | Biotechnology for Biofuels | 10 14 |
| 2017 | 10.1111/1462-2920.13605 | Li, Z., Q. Yao, S. P. Dearth, M. R. Entler, H. F. Castro Gonzalez, J. K. Uehling, R. J. Vilgalys, G. B. Hurst, S. R. Campagna, J. L. Labbe and C. Pan | Integrated proteomics and metabolomics suggests symbiotic metabolism and multimodal regulation in a fungal-endobacterial system | Environmental Microbiology | 19(3) 1041–53 |
| 2017 | 10.1128/mSystems.00142-16 | Levering, J., C. L. Dupont, A. E. Allen, B. O. Palsson and K. Zengler | Integrated Regulatory and Metabolic Networks of the Marine Diatom Phaeodactylum tricornutum Predict the Response to Rising CO2 Levels | mSystems | 2(1) |
| 2017 | 10.3390/ijms18102045 | Jardine, K. J., V. Fernandes de Souza, P. Oikawa, N. Higuchi, M. Bill, R. Porras, U. Niinemets and J. Q. Chambers | Integration of C1 and C2 Metabolism in Trees | International Journal of Molecular Sciences | 18(10) |
| 2017 | 10.1016/j.biortech.2017.05.001 | Parisutham, V., S. P. Chandran, A. Mukhopadhyay, S. K. Lee and J. D. Keasling | Intracellular cellobiose metabolism and its applications in lignocellulose-based biorefineries | Bioresource Technology | 239 496–506 |
| 2017 | 10.1016/j.cogsc.2017.03.003 | Yoo, C. G., Y. Q. Pu and A. J. Ragauskas | Ionic liquids: Promising green solvents for lignocellulosic biomass utilization | Current Opinion in Green and Sustainable Chemistry | 5 5–11 |
| 2017 | 10.1016/j.ymben.2017.05.001 | Jazmin, L. J., Y. Xu, Y. E. Cheah, A. O. Adebiyi, C. H. Johnson and J. D. Young | Isotopically nonstationary 13C flux analysis of cyanobacterial isobutyraldehyde production | Metabolic Engineering | 42 9–18 |
| 2017 | 10.1038/ismej.2016.89 | Bolduc, B., K. Youens-Clark, S. Roux, B. L. Hurwitz and M. B. Sullivan | iVirus: facilitating new insights in viral ecology with software and community data sets imbedded in a cyberinfrastructure | The ISME Journal | 11(1) 7–14 |
| 2017 | 10.1038/s41467-017-01491-7 | Yang, X., R. Hu, H. Yin, J. Jenkins, S. Shu, et al. | The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism | Nature Communications | 8(1) |
| 2017 | 10.1128/mBio.01780-17 | Zhou, A., R. Lau, R. Baran, J. Ma, F. von Netzer, et al. | Key Metabolites and Mechanistic Changes for Salt Tolerance in an Experimentally Evolved Sulfate-Reducing Bacterium, Desulfovibrio vulgaris | mBio | 8(6) |
| 2017 | 10.1016/j.ymben.2017.03.011 | Lafontaine Rivera, J. G., M. K. Theisen, P. W. Chen and J. C. Liao | Kinetically accessible yield (KAY) for redirection of metabolism to produce exo-metabolites | Metabolic Engineering | 41 144–51 |
| 2017 | 10.1021/jacs.6b10727 | Fu, D., W. Yang and X. S. Xie | Label-free Imaging of Neurotransmitter Acetylcholine at Neuromuscular Junctions with Stimulated Raman Scattering | Journal of the American Chemical Society | 139(2) 583–6 |
| 2017 | 10.1186/s13068-017-0849-2 | Choi, J., D. M. Klingeman, S. D. Brown and C. D. Cox | The LacI family protein GlyR3 co-regulates the celC operon and manB in Clostridium thermocellum | Biotechnology for Biofuels | 10 163 |
| 2017 | 10.1128/AEM.02751-16 | Wilson, C. M., D. M. Klingeman, C. Schlachter, M. H. Syed, C. W. Wu, A. M. Guss and S. D. Brown | LacI Transcriptional Regulatory Networks in Clostridium thermocellum DSM1313 | Applied and Environmental Microbiology | 83(5) |
| 2017 | 10.1128/mBio.00644-17 | McDonald, B. R. and C. R. Curriea | Lateral gene transfer dynamics in the ancient bacterial genus Streptomyces | mBio | 8(3) |
| 2017 | 10.2135/cropsci2017.04.0266 | Jakubowski, A. R., M. D. Casler and R. D. Jackson | Legume addition to perennial warm-season grass swards increases harvested biomass | Crop Science | 57(6) 3343-3351 |
| 2017 | 10.1128/mBio.00857-17 | Kerkhoven, E. J., Y. M. Kim, S. Wei, C. D. Nicora, T. L. Fillmore, S. O. Purvine, B. J. Webb-Robertson, R. D. Smith, S. E. Baker, T. O. Metz and J. Nielsen | Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica | mBio | 8(3) |
| 2017 | 10.1021/acssuschemeng.7b02116 | Neupane, B., N. V. S. N. M. Konda, S. Singh, B. A. Simmons and C. D. Scown | Life-Cycle Greenhouse Gas and Water Intensity of Cellulosic Biofuel Production Using Cholinium Lysinate Ionic Liquid Pretreatment | ACS Sustainable Chemistry & Engineering | 5(11) 10176–85 |
| 2017 | 10.1002/pld3.26 | Johnson, C. R., R. J. Millwood, Z. Y. Wang and C. N. Stewart, Jr. | Light and temperature effects on miR156 transgenic switchgrass flowering: A simulated latitudinal study | Plant Direct | 1(5) e00026 |
| 2017 | 10.1093/femsyr/fox076 | D'Ambrosio, V. and M. K. Jensen | Lighting up yeast cell factories by transcription factor-based biosensors | FEMS Yeast Research | 17(7) |
| 2017 | 10.1002/slct.201701572 | Akinosho, H., K. Yee, M. Rodriguez, W. Muchero, C. G. Yoo, M. Li, O. Thompson, Y. Q. Pu, S. Brown, J. Mielenz and A. J. Ragauskas | Lignin Exhibits Recalcitrance-Associated Features Following the Consolidated Bioprocessing of Populus trichocarpa Natural Variants | ChemistrySelect | 2(33) 10642–7 |
| 2017 | 10.1002/cssc.201700101 | Yue, F., F. Lu, M. Regner, R. Sun and J. Ralph | Lignin-derived thioacidolysis dimers: Reevaluation, new products, authentication, and quantification | ChemSusChem | 10(5) 830-835 |
| 2017 | 10.1016/j.cbpa.2017.10.013 | Bomble, Y. J., C. Y. Lin, A. Amore, H. Wei, E. K. Holwerda, P. N. Ciesielski, B. S. Donohoe, S. R. Decker, L. R. Lynd and M. E. Himmel | Lignocellulose deconstruction in the biosphere | Current Opinion in Chemical Biology | 41 61–70 |
| 2017 | 10.1039/c6ee03748h | Balch, M. L., E. K. Holwerda, M. F. Davis, R. W. Sykes, R. M. Happs, R. Kumar, C. E. Wyman and L. R. Lynd | Lignocellulose fermentation and residual solids characterization for senescent switchgrass fermentation by Clostridium thermocellum in the presence and absence of continuous in situ ball-milling | Energy & Environmental Science | 10(5) 1252–61 |
| 2017 | 10.1073/pnas.1618360114 | Li, H., D. J. Yelle, C. Li, M. Yang, J. Ke, R. Zhang, Y. Liu, N. Zhu, S. Liang, X. Mo, J. Ralph, C. R. Currie and J. Mo | Lignocellulose pretreatment in a fungus-cultivating termite | Proceedings of the National Academy of Sciences of the United States of America | 114(18) 4709-4714 |
| 2017 | 10.1371/journal.pone.0184991 | Maltz, M. R., K. K. Treseder and K. L. McGuire | Links between plant and fungal diversity in habitat fragments of coastal shrubland | PLoS One | 12(9) e0184991 |
| 2017 | 10.1016/j.ymben.2017.03.002 | Degreif, D., T. de Rond, A. Bertl, J. D. Keasling and I. Budin | Lipid engineering reveals regulatory roles for membrane fluidity in yeast flocculation and oxygen-limited growth | Metabolic Engineering | 41 46–56 |
| 2017 | 10.3791/55310 | Oates, L. G., H. W. Read, J. L. M. Gutknecht, D. S. Duncan, T. B. Balser and R. D. Jackson | A lipid extraction and analysis method for characterizing soil microbes in experiments with many samples | Journal of Visualized Experiments | 2017(125) |
| 2017 | 10.1038/nbt.3763 | Qiao, K., T. M. Wasylenko, K. Zhou, P. Xu and G. Stephanopoulos | Lipid production in Yarrowia lipolytica is maximized by engineering cytosolic redox metabolism | Nature Biotechnology | 35(2) 173–7 |
| 2017 | 10.1172/jci.insight.96783 | He, C., X. Hu, R. S. Jung, M. Larsson, Y. Tu, et al. | Lipoprotein lipase reaches the capillary lumen in chickens despite an apparent absence of GPIHBP1 | JCI Insight | 2(20) |
| 2017 | 10.1126/science.aan2874 | Melillo, J. M., S. D. Frey, K. M. DeAngelis, W. J. Werner, M. J. Bernard, F. P. Bowles, G. Pold, M. A. Knorr and A. S. Grandy | Long-term pattern and magnitude of soil carbon feedback to the climate system in a warming world | Science | 358(6359) 101–5 |
| 2017 | 10.1093/bioinformatics/btx207 | Sastry, A., J. Monk, H. Tegel, M. Uhlen, B. O. Palsson, J. Rockberg and E. Brunk | Machine learning in computational biology to accelerate high-throughput protein expression | Bioinformatics | 33(16) 2487–95 |
| 2017 | 10.1128/microbiolspec.FUNK-0081-2016 | Blackwell, M. | Made for Each Other: Ascomycete Yeasts and Insects | Microbiology Spectrum | 5(3) |
| 2017 | 10.1111/tpj.13449 | Angelos, E., C. Ruberti, S. J. Kim and F. Brandizzi | Maintaining the factory: the roles of the unfolded protein response in cellular homeostasis in plants | Plant Journal | 90(4) 671-682 |
| 2017 | 10.1371/journal.pone.0177189 | Gontang, E. A., F. O. Aylward, C. Carlos, T. G. Del Rio, M. Chovatia, A. Fern, C. C. Lo, S. A. Malfatti, S. G. Tringe, C. R. Currie and R. Kolter | Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach | PLoS ONE | 12(5) |
| 2017 | 10.21769/BioProtoc.2263 | Stuart, R. K., X. Mayali, M. P. Thelen, J. Pett-Ridge and P. K. Weber | Measuring Cyanobacterial Metabolism in Biofilms with NanoSIMS Isotope Imaging and Scanning Electron Microscopy (SEM) | Bio-Protocol | 7(9) e2263 |
| 2017 | 10.3389/fmicb.2017.01529 | Thorgersen, M. P., W. A. Lancaster, X. Ge, G. M. Zane, K. M. Wetmore, B. J. Vaccaro, F. L. Poole, 2nd, A. D. Younkin, A. M. Deutschbauer, A. P. Arkin, J. D. Wall and M. W. W. Adams | Mechanisms of Chromium and Uranium Toxicity in Pseudomonas stutzeri RCH2 Grown under Anaerobic Nitrate-Reducing Conditions | Frontiers in Microbiology | 8 1529 |
| 2017 | 10.3389/fmicb.2017.02185 | Shi, S. and H. Zhao | Metabolic Engineering of Oleaginous Yeasts for Production of Fuels and Chemicals | Frontiers in Microbiology | 8 2185 |
| 2017 | 10.1186/s13068-017-0751-y | Tran, T. N. T., R. J. Breuer, R. Avanasi Narasimhan, L. S. Parreiras, Y. Zhang, T. K. Sato and T. P. Durrett | Metabolic engineering of Saccharomyces cerevisiae to produce a reduced viscosity oil from lignocellulose | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1128/mSystems.00091-17 | Hamilton, J. J., S. L. Garcia, B. S. Brown, B. O. Oyserman, F. Moya-Flores, S. Bertilsson, R. R. Malmstrom, K. T. Forest and K. D. McMahon | Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI | mSystems | 2(4) |
| 2017 | 10.1038/s41598-017-08877-z | Marshall, C. W., D. E. Ross, K. M. Handley, P. B. Weisenhorn, J. N. Edirisinghe, C. S. Henry, J. A. Gilbert, H. D. May and R. S. Norman | Metabolic Reconstruction and Modeling Microbial Electrosynthesis | Scientific Reports | 7(1) 8391 |
| 2017 | 10.1021/acs.analchem.7b00396 | Su, X., W. Lu and J. D. Rabinowitz | Metabolite Spectral Accuracy on Orbitraps | Analytical Chemistry | 89(11) 5940–8 |
| 2017 | 10.1016/j.tibtech.2016.12.010 | Warth, B., N. Levin, D. Rinehart, J. Teijaro, H. P. Benton and G. Siuzdak | Metabolizing Data in the Cloud | Trends in Biotechnology | 35(6) 481–3 |
| 2017 | 10.1186/s13068-017-0961-3 | Tian, L., S. J. Perot, D. Stevenson, T. Jacobson, A. A. Lanahan, D. Amador-Noguez, D. G. Olson and L. R. Lynd | Metabolome analysis reveals a role for glyceraldehyde 3-phosphate dehydrogenase in the inhibition of C. thermocellum by ethanol | Biotechnology for Biofuels | 10 276 |
| 2017 | 10.1016/j.soilbio.2016.12.017 | Tu, Q. C., Z. L. He, L. Y. Wu, K. Xue, G. Xie, P. Chain, P. B. Reich, S. E. Hobbie and J. Z. Zhou | Metagenomic reconstruction of nitrogen cycling pathways in a CO2- enriched grassland ecosystem | Soil Biology and Biochemistry | 106 99–108 |
| 2017 | 10.3389/fmicb.2017.00040 | Jewell, T. N., U. Karaoz, M. Bill, R. Chakraborty, E. L. Brodie, K. H. Williams and H. R. Beller | Metatranscriptomic Analysis Reveals Unexpectedly Diverse Microbial Metabolism in a Biogeochemical Hot Spot in an Alluvial Aquifer | Frontiers in Microbiology | 8 40 |
| 2017 | 10.1128/AEM.00223-17 | Holmes, D. E., P. M. Shrestha, D. J. F. Walker, Y. Dang, K. P. Nevin, T. L. Woodard and D. R. Lovley | Metatranscriptomic Evidence for Direct Interspecies Electron Transfer between Geobacter and Methanothrix Species in Methanogenic Rice Paddy Soils | Applied and Environmental Microbiology | 83(9) |
| 2017 | 10.1021/acscatal.6b02724 | Gerceker, D., A. H. Motagamwala, K. R. Rivera-Dones, J. B. Miller, G. W. Huber, M. Mavrikakis and J. A. Dumesic | Methane Conversion to Ethylene and Aromatics on PtSn Catalysts | ACS Catalysis | 7(3) 2088-2100 |
| 2017 | 10.1128/mBio.00530-17 | Skennerton, C. T., K. Chourey, R. Iyer, R. L. Hettich, G. W. Tyson and V. J. Orphan | Methane-Fueled Syntrophy through Extracellular Electron Transfer: Uncovering the Genomic Traits Conserved within Diverse Bacterial Partners of Anaerobic Methanotrophic Archaea | mBio | 8(4) |
| 2017 | 10.1038/s41467-017-01753-4 | Angle, J. C., T. H. Morin, L. M. Solden, A. B. Narrowe, G. J. Smith, M. A. Borton, C. Rey-Sanchez, R. A. Daly, G. Mirfenderesgi, D. W. Hoyt, W. J. Riley, C. S. Miller, G. Bohrer and K. C. Wrighton | Methanogenesis in oxygenated soils is a substantial fraction of wetland methane emissions | Nature Communications | 8(1) 1567 |
| 2017 | 10.1038/ismej.2016.141 | LaSarre, B., A. L. McCully, J. T. Lennon and J. B. McKinlay | Microbial mutualism dynamics governed by dose-dependent toxicity of cross-fed nutrients | The ISME Journal | 11(2) 337–48 |
| 2017 | 10.1111/1462-2920.13809 | Mondav, R., C. K. McCalley, S. B. Hodgkins, S. Frolking, S. R. Saleska, V. I. Rich, J. P. Chanton and P. M. Crill | Microbial network, phylogenetic diversity and community membership in the active layer across a permafrost thaw gradient | Environmental Microbiology | 19(8) 3201–18 |
| 2017 | 10.1111/1462-2920.13706 | Freedman, A. J. E., B. Tan and J. R. Thompson | Microbial potential for carbon and nutrient cycling in a geogenic supercritical carbon dioxide reservoir | Environmental Microbiology | 19(6) 2228–45 |
| 2017 | 10.1007/978-3-319-31421-1_219-1 | Wong, J., L. Rios-Solis and J. D. Keasling | Microbial Production of Isoprenoids | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Production of Fuels and Chemicals | 1–24 |
| 2017 | 10.1111/nph.14609 | Pruitt, R. N., A. Joe, W. Zhang, W. Feng, V. Stewart, B. Schwessinger, J. R. Dinneny and P. C. Ronald | A microbially derived tyrosine-sulfated peptide mimics a plant peptide hormone | New Phytologist | 215(2) 725–36 |
| 2017 | 10.1111/1758-2229.12523 | Larkin, A. A. and A. C. Martiny | Microdiversity shapes the traits, niche space, and biogeography of microbial taxa | Environmental Microbiology Reports | 9(2) 55–70 |
| 2017 | 10.1186/s13059-017-1223-1 | Goodman, D. B., G. Kuznetsov, M. J. Lajoie, B. W. Ahern, M. G. Napolitano, K. Y. Chen, C. Chen and G. M. Church | Millstone: software for multiplex microbial genome analysis and engineering | Genome Biology | 18(1) 101 |
| 2017 | 10.1186/s13068-017-0736-x | Li, T., C. T. Li, K. Butler, S. G. Hays, M. T. Guarnieri, G. A. Oyler and M. J. Betenbaugh | Mimicking lichens: incorporation of yeast strains together with sucrose-secreting cyanobacteria improves survival, growth, ROS removal, and lipid production in a stable mutualistic co-culture production platform | Biotechnology for Biofuels | 10 55 |
| 2017 | 10.1186/s12864-017-3980-3 | Yang, X., J. Song, Q. You, D. R. Paudel, J. Zhang and J. Wang | Mining sequence variations in representative polyploid sugarcane germplasm accessions | BMC Genomics | 18(1) 594 |
| 2017 | 10.1007/s10533-017-0301-5 | Ostrom, N. E. and P. H. Ostrom | Mining the isotopic complexity of nitrous oxide: a review of challenges and opportunities | Biogeochemistry | 132(3) 359-372 |
| 2017 | 10.1128/mBio.02045-16 | Chu, N. D., S. A. Clarke, S. Timberlake, M. F. Polz, A. D. Grossman and E. J. Alm | A Mobile Element in mutS Drives Hypermutation in a Marine Vibrio | mBio | 8(1) |
| 2017 | 10.1038/nmeth.4285 | Kalyaanamoorthy, S., B. Q. Minh, T. K. F. Wong, A. von Haeseler and L. S. Jermiin | ModelFinder: fast model selection for accurate phylogenetic estimates | Nature Methods | 14(6) 587–9 |
| 2017 | 10.1021/acs.est.7b02204 | Zhou, J., M. D. Smith, C. J. Cooper, X. Cheng, J. C. Smith and J. M. Parks | Modeling of the Passive Permeation of Mercury and Methylmercury Complexes Through a Bacterial Cytoplasmic Membrane | Environmental Science & Technology | 51(18) 10595–604 |
| 2017 | 10.1021/jacs.7b06560 | Fukushima, T., S. Gupta, B. Rad, J. A. Cornejo, C. J. Petzold, L. J. G. Chan, R. A. Mizrahi, C. Y. Ralston and C. M. Ajo-Franklin | The Molecular Basis for Binding of an Electron Transfer Protein to a Metal Oxide Surface | Journal of the American Chemical Society | 139(36) 12647–54 |
| 2017 | 10.1186/s13068-016-0687-7 | Bredeweg, E. L., K. R. Pomraning, Z. Dai, J. Nielsen, E. J. Kerkhoven and S. E. Baker | A molecular genetic toolbox for Yarrowia lipolytica | Biotechnology for Biofuels | 10 2 |
| 2017 | 10.1111/pce.12879 | Jardine, K. J., A. B. Jardine, J. A. Holm, D. L. Lombardozzi, R. I. Negron-Juarez, S. T. Martin, H. R. Beller, B. O. Gimenez, N. Higuchi and J. Q. Chambers | Monoterpene 'thermometer' of tropical forest-atmosphere response to climate warming | Plant Cell & Environment | 40(3) 441–52 |
| 2017 | 10.1021/acs.analchem.7b00599 | Gao, J., K. B. Louie, P. Steinke, B. P. Bowen, M. Raad, R. N. Zuckermann, G. Siuzdak and T. R. Northen | Morphology-Driven Control of Metabolite Selectivity Using Nanostructure-Initiator Mass Spectrometry | Analytical Chemistry | 89(12) 6521–6 |
| 2017 | 10.1038/s41598-017-08985-w | Brunecky, R., B. S. Donohoe, J. M. Yarbrough, A. Mittal, B. R. Scott, H. Ding, L. E. Taylor Ii, J. F. Russell, D. Chung, J. Westpheling, S. A. Teter, M. E. Himmel and Y. J. Bomble | The Multi Domain Caldicellulosiruptor bescii CelA Cellulase Excels at the Hydrolysis of Crystalline Cellulose | Scientific Reports | 7(1) 9622 |
| 2017 | 10.1016/j.bbagen.2017.06.001 | Rawle, R. A., T. Hamerly, B. P. Tripet, R. J. Giannone, L. Wurch, R. L. Hettich, M. Podar, V. Copie and B. Bothner | Multi-omics analysis provides insight to the Ignicoccus hospitalis-Nanoarchaeum equitans association | Biochimica et Biophysica Acta - General Subjects | 1861(9) 2218–27 |
| 2017 | 10.1111/tpj.13743 | Hooper, C. M., T. J. Stevens, A. Saukkonen, I. R. Castleden, P. Singh, G. W. Mann, B. Fabre, J. Ito, M. J. Deery, K. S. Lilley, C. J. Petzold, A. H. Millar, J. L. Heazlewood and H. T. Parsons | Multiple marker abundance profiling: combining selected reaction monitoring and data-dependent acquisition for rapid estimation of organelle abundance in subcellular samples | The Plant Journal | 92(6) 1202–17 |
| 2017 | 10.1105/tpc.16.00922 | Čermák, T., S. J. Curtin, J. Gil-Humanes, R. Čegan, T. J. Y. Kono, E. Konečná, J. J. Belanto, C. G. Starker, J. W. Mathre, R. L. Greenstein and D. F. Voytas | A multipurpose toolkit to enable advanced genome engineering in plants | Plant Cell | 29(6) 1196-1217 |
| 2017 | 10.1128/mBio.00513-17 | Lemmer, K. C., W. Zhang, S. J. Langer, A. C. Dohnalkova, D. Hu, R. A. Lemke, J. S. Piotrowski, G. Orr, D. R. Noguera and T. J. Donohue | Mutations that alter the bacterial cell envelope increase lipid production | mBio | 8(3) |
| 2017 | 10.1016/j.bbrc.2017.05.131 | He, H., J. Yan, X. Yu, Y. Liang, L. Fang, H. V. Scheller and A. Zhang | The NADPH-oxidase AtRbohI plays a positive role in drought-stress response in Arabidopsis thaliana | Biochemical and Biophysical Research Communications | 491(3) 834–9 |
| 2017 | 10.1186/s13068-016-0686-8 | Zienkiewicz, K., A. Zienkiewicz, E. Poliner, Z. Y. Du, K. Vollheyde, C. Herrfurth, S. Marmon, E. M. Farré, I. Feussner and C. Benning | Nannochloropsis, a rich source of diacylglycerol acyltransferases for engineering of triacylglycerol content in different hosts | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1186/s13068-017-0734-z | Johnson, A. M., H. Kim, J. Ralph and S. D. Mansfield | Natural acetylation impacts carbohydrate recovery during deconstruction of Populus trichocarpa wood | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1016/j.cell.2017.06.008 | Li, W., Z. Zhu, M. Chern, J. Yin, C. Yang, et al. | A Natural Allele of a Transcription Factor in Rice Confers Broad-Spectrum Blast Resistance | Cell | 170(1) 114–26.e15 |
| 2017 | 10.1186/s13068-017-0951-5 | Brunecky, R., M. Alahuhta, D. W. Sammond, Q. Xu, M. Chen, D. B. Wilson, J. W. Brady, M. E. Himmel, Y. J. Bomble and V. V. Lunin | Natural diversity of glycoside hydrolase family 48 exoglucanases: insights from structure | Biotechnology for Biofuels | 10 274 |
| 2017 | 10.1111/1462-2920.13765 | Takemura, A. F., C. H. Corzett, F. Hussain, P. Arevalo, M. Datta, X. Yu, F. Le Roux and M. F. Polz | Natural resource landscapes of a marine bacterium reveal distinct fitness-determining genes across the genome | Environmental Microbiology | 19(6) 2422–33 |
| 2017 | 10.1007/10_2016_46 | Weighill, D. A. and D. Jacobson | Network Metamodeling: Effect of Correlation Metric Choice on Phylogenomic and Transcriptomic Network Topology | Advances in Biochemical Engineering/Biotechnology | 160 143–83 |
| 2017 | 10.1073/pnas.1620119114 | Mizrachi, E., L. Verbeke, N. Christie, A. C. Fierro, S. D. Mansfield, M. F. Davis, E. Gjersing, G. A. Tuskan, M. Van Montagu, Y. Van de Peer, K. Marchal and A. A. Myburg | Network-based integration of systems genetics data reveals pathways associated with lignocellulosic biomass accumulation and processing | Proceedings of the National Academy of Sciences of the United States of America | 114(5) 1195–200 |
| 2017 | 10.1016/j.bpj.2016.11.1234 | Nickels, J. D., S. Chatterjee, C. Stanley, S. Qian, X. Cheng, D. A. A. Myles, R. Standaert, J. Elkins and J. Katsaras | Neutron Scattering to Study Membrane Systems: From Model Membranes to Living Cells | Biophysical Journal | 112(3) |
| 2017 | 10.3791/54771 | Miquel Guennoc, C., C. Rose, F. Guinnet, I. Miquel, J. Labbe and A. Deveau | A New Method for Qualitative Multi-scale Analysis of Bacterial Biofilms on Filamentous Fungal Colonies Using Confocal and Electron Microscopy | Journal of Visualized Experiments | (119) e54771 |
| 2017 | 10.1038/hortres.2017.31 | Liu, D., R. Mewalal, R. Hu, G. A. Tuskan and X. Yang | New technologies accelerate the exploration of non-coding RNAs in horticultural plants | Horticulture Research | 4 17031 |
| 2017 | 10.1105/tpc.16.00910 | McCarthy, J. K., S. R. Smith, J. P. McCrow, M. Tan, H. Zheng, K. Beeri, R. Roth, C. Lichtle, U. Goodenough, C. P. Bowler, C. L. Dupont and A. E. Allen | Nitrate Reductase Knockout Uncouples Nitrate Transport from Nitrate Assimilation and Drives Repartitioning of Carbon Flux in a Model Pennate Diatom | The Plant Cell | 29(8) 2047–70 |
| 2017 | 10.1016/j.procbio.2016.11.002 | Yu, C. W., D. R. Harrold, J. T. Claypool, B. A. Simmons, S. W. Singer, C. W. Simmons and J. S. VanderGheynst | Nitrogen amendment of green waste impacts microbial community, enzyme secretion and potential for lignocellulose decomposition | Process Biochemistry | 52 214–22 |
| 2017 | 10.1039/9781782623946-00353 | York, W. S., M. Allahyari and J. D. Hogan | NMR Databases for Plant Cell Wall Biopolymers | NMR in Glycoscience and Glycotechnology | 353–68 |
| 2017 | 10.3389/fpls.2017.02236 | Ray, P., Y. Guo, J. Kolape and K. D. Craven | Non-targeted Colonization by the Endomycorrhizal Fungus, Serendipita vermifera, in Three Weeds Typically Co-occurring with Switchgrass | Frontiers in Plant Science | 8 2236 |
| 2017 | 10.1016/j.mbs.2016.08.004 | Faraji, M. and E. O. Voit | Nonparametric dynamic modeling | Mathematical Biosciences | 287 130–46 |
| 2017 | 10.1124/mol.116.105031 | Toutounchian, J. J., J. Pagadala, D. D. Miller, J. Baudry, F. Park, E. Chaum, V. Morales-Tirado and C. R. Yates | Novel Small Molecule JP-153 Targets the Src-FAK-Paxillin Signaling Complex to Inhibit VEGF-Induced Retinal Angiogenesis | Molecular Pharmacology | 91(1) 1–13 |
| 2017 | Pareja Hernández, L. | Nursing and sleep disorders | Revista de Patologia Respiratoria | 20 S131-S132 | |
| 2017 | 10.1039/c6lc01182a | Heinemann, J., K. Deng, S. C. Shih, J. Gao, P. D. Adams, A. K. Singh and T. R. Northen | On-chip integration of droplet microfluidics and nanostructure-initiator mass spectrometry for enzyme screening | Lab on a Chip | 17(2) 323–31 |
| 2017 | 10.1039/c7gc01179b | Sun, J., N. V. S. N. M. Konda, R. Parthasarathi, T. Dutta, M. Valiev, F. Xu, B. A. Simmons and S. Singh | One-pot integrated biofuel production using low-cost biocompatible protic ionic liquids | Green Chemistry | 19(13) 3152–63 |
| 2017 | 10.1186/s13059-017-1217-z | Kuznetsov, G., D. B. Goodman, G. T. Filsinger, M. Landon, N. Rohland, J. Aach, M. J. Lajoie and G. M. Church | Optimizing complex phenotypes through model-guided multiplex genome engineering | Genome Biology | 18(1) 100 |
| 2017 | 10.1038/s41598-017-15048-7 | Smith, M. D., X. Cheng, L. Petridis, B. Mostofian and J. C. Smith | Organosolv-Water Cosolvent Phase Separation on Cellulose and its Influence on the Physical Deconstruction of Cellulose: A Molecular Dynamics Analysis | Scientific Reports | 7(1) 14494 |
| 2017 | 10.1073/pnas.1704652114 | Nguyen, T. Y., C. M. Cai, R. Kumar and C. E. Wyman | Overcoming factors limiting high-solids fermentation of lignocellulosic biomass to ethanol | Proceedings of the National Academy of Sciences of the United States of America | 114(44) 11673–8 |
| 2017 | 10.1186/s13068-017-0760-x | Yang, Y., C. G. Yoo, H. B. Guo, W. Rottmann, K. A. Winkeler, C. M. Collins, L. E. Gunter, S. S. Jawdy, X. Yang, H. Guo, Y. Pu, A. J. Ragauskas, G. A. Tuskan and J. G. Chen | Overexpression of a Domain of Unknown Function 266-containing protein results in high cellulose content, reduced recalcitrance, and enhanced plant growth in the bioenergy crop Populus | Biotechnology for Biofuels | 10 74 |
| 2017 | 10.1186/s12284-017-0166-1 | Park, C. J., T. Wei, R. Sharma and P. C. Ronald | Overexpression of Rice Auxilin-Like Protein, XB21, Induces Necrotic Lesions, up-Regulates Endocytosis-Related Genes, and Confers Enhanced Resistance to Xanthomonas oryzae pv. oryzae | Rice | 10(1) 27 |
| 2017 | 10.1002/bit.26374 | Thompson, R. A. and C. T. Trinh | Overflow metabolism and growth cessation in Clostridium thermocellum DSM1313 during high cellulose loading fermentations | Biotechnology and Bioengineering | 114(11) 2592–604 |
| 2017 | 10.1038/nchembio.2471 | de Rond, T., P. Stow, I. Eigl, R. E. Johnson, L. J. G. Chan, G. Goyal, E. E. K. Baidoo, N. J. Hillson, C. J. Petzold, R. Sarpong and J. D. Keasling | Oxidative cyclization of prodigiosin by an alkylglycerol monooxygenase-like enzyme | Nature Chemical Biology | 13(11) 1155–7 |
| 2017 | 10.1016/j.cels.2017.08.003 | Yurkovich, J. T., B. J. Yurkovich, A. Drager, B. O. Palsson and Z. A. King | A Padawan Programmer's Guide to Developing Software Libraries | Cell Systems | 5(5) 431–7 |
| 2017 | 10.1128/mSystems.00039-17 | Price, M. N. and A. P. Arkin | PaperBLAST: Text Mining Papers for Information about Homologs | mSystems | 2(4) |
| 2017 | 10.1016/j.biortech.2017.05.167 | Papa, G., T. Feldman, K. L. Sale, F. Adani, S. Singh and B. A. Simmons | Parametric study for the optimization of ionic liquid pretreatment of corn stover | Bioresource Technology | 241 627–37 |
| 2017 | 10.1038/nmicrobiol.2017.87 | Haitjema, C. H., S. P. Gilmore, J. K. Henske, K. V. Solomon, R. de Groot, et al. | A parts list for fungal cellulosomes revealed by comparative genomics | Nature Microbiology | 2 17087 |
| 2017 | 10.3389/fmicb.2017.01657 | Edwards, J. E., R. J. Forster, T. M. Callaghan, V. Dollhofer, S. S. Dagar, et al. | PCR and Omics Based Techniques to Study the Diversity, Ecology and Biology of Anaerobic Fungi: Insights, Challenges and Opportunities | Frontiers in Microbiology | 8 1657 |
| 2017 | 10.1038/srep43355 | Verbeke, T. J., R. J. Giannone, D. M. Klingeman, N. L. Engle, T. Rydzak, A. M. Guss, T. J. Tschaplinski, S. D. Brown, R. L. Hettich and J. G. Elkins | Pentose sugars inhibit metabolism and increase expression of an AgrD-type cyclic pentapeptide in Clostridium thermocellum | Scientific Reports | 7 43355 |
| 2017 | 10.1007/7397_2016_30 | Brunner, A. M., E. Varkonyi-Gasic and R. C. Jones | Phase Change And Phenology In Trees | Comparative and Evolutionary Genomics of Angiosperm Trees | 21 227–74 |
| 2017 | Todd, J., H. Sandhu, A. Hale, B. Glaz and J. P. Wang | Phenotypic evaluation of a diversity panel selected from the world collection of sugarcane (Saccharum spp) and related grasses | Maydica | 62(2) | |
| 2017 | 10.1105/tpc.17.00301 | Boxall, S. F., L. V. Dever, J. Knerová, P. D. Gould and J. Hartwell | Phosphorylation of phosphoenolpyruvate carboxylase is essential for maximal and sustained dark CO2 fixation and core circadian clock operation in the obligate crassulacean acid metabolism species Kalanchoë fedtschenkoi | Plant Cell | 29(10) 2519-2536 |
| 2017 | 10.1016/j.jenvman.2016.09.060 | Mohapatra, S., S. J. Dandapat and H. Thatoi | Physicochemical characterization, modelling and optimization of ultrasono-assisted acid pretreatment of two Pennisetum sp. using Taguchi and artificial neural networking for enhanced delignification | Journal of Environmental Management | 187 537–49 |
| 2017 | 10.1002/wsbm.1377 | Counts, J. A., B. M. Zeldes, L. L. Lee, C. T. Straub, M. W. W. Adams and R. M. Kelly | Physiological, metabolic and biotechnological features of extremely thermophilic microorganisms | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 9(3) |
| 2017 | 10.1016/j.bpj.2017.01.008 | Smith, J. C. | Pickin' Up Good Vibrations | Biophysical Journal | 112(5) 829–30 |
| 2017 | 10.1371/journal.pone.0177591 | Welner, D. H., D. Shin, G. P. Tomaleri, A. M. DeGiovanni, A. Y. Tsai, H. M. Tran, S. F. Hansen, D. T. Green, H. V. Scheller and P. D. Adams | Plant cell wall glycosyltransferases: High-throughput recombinant expression screening and general requirements for these challenging enzymes | PLoS One | 12(6) e0177591 |
| 2017 | 10.1038/nplants.2017.24 | Scheller, H. V. | Plant cell wall: Never too much acetate | Nature Plants | 3 17024 |
| 2017 | 10.1016/j.plantsci.2017.07.008 | Zogli, P. and M. Libault | Plant response to biotic stress: Is there a common epigenetic response during plant-pathogenic and symbiotic interactions? | Plant Science | 263 89–93 |
| 2017 | 10.1016/j.tplants.2017.08.006 | Libault, M., L. Pingault, P. Zogli and J. Schiefelbein | Plant Systems Biology at the Single-Cell Level | Trends in Plant Science | 22(11) 949–60 |
| 2017 | 10.7717/peerj.4088 | Gehan, M. A., N. Fahlgren, A. Abbasi, J. C. Berry, S. T. Callen, et al. | PlantCV v2: Image analysis software for high-throughput plant phenotyping | PeerJ | 5 e4088 |
| 2017 | 10.1038/s41598-017-00234-4 | Farahi, R. H., A. M. Charrier, A. Tolbert, A. L. Lereu, A. Ragauskas, B. H. Davison and A. Passian | Plasticity, elasticity, and adhesion energy of plant cell walls: nanometrology of lignin loss using atomic force microscopy | Scientific Reports | 7(1) 152 |
| 2017 | 10.1105/tpc.17.00397 | Wang, K., J. E. Froehlich, A. Zienkiewicz, H. L. Hersh and C. Benning | A plastid phosphatidylglycerol lipase contributes to the export of acyl groups from plastids for seed oil biosynthesis | Plant Cell | 29(7) 1678-1696 |
| 2017 | 10.1128/AEM.03020-16 | Yeager, C. M., V. Gallegos-Graves, J. Dunbar, C. N. Hesse, H. Daligault and C. R. Kuske | Polysaccharide Degradation Capability of Actinomycetales Soil Isolates from a Semiarid Grassland of the Colorado Plateau | Applied and Environmental Microbiology | 83(6) |
| 2017 | 10.1111/tpj.13413 | Dash, M., Y. S. Yordanov, T. Georgieva, T. J. Tschaplinski, E. Yordanova and V. Busov | Poplar PtabZIP1-like enhances lateral root formation and biomass growth under drought stress | The Plant Journal | 89(4) 692–705 |
| 2017 | 10.1002/ece3.3466 | Fahrenkrog, A. M., L. G. Neves, M. F. R. Resende, Jr., C. Dervinis, R. Davenport, W. B. Barbazuk and M. Kirst | Population genomics of the eastern cottonwood (Populus deltoides) | Ecology and Evolution | 7(22) 9426–40 |
| 2017 | 10.1016/j.cell.2017.10.034 | Barbieri, E. M., P. Muir, B. O. Akhuetie-Oni, C. M. Yellman and F. J. Isaacs | Precise Editing at DNA Replication Forks Enables Multiplex Genome Engineering in Eukaryotes | Cell | 171(6) 1453–67.e13 |
| 2017 | 10.1007/s12155-016-9798-z | Li, M. Y., D. L. Williams, M. Heckwolf, N. de Leon, S. Kaeppler, R. W. Sykes and D. Hodge | Prediction of Cell Wall Properties and Response to Deconstruction Using Alkaline Pretreatment in Diverse Maize Genotypes Using Py-MBMS and NIR | BioEnergy Research | 10(2) 329–43 |
| 2017 | 10.1002/jqs.2952 | Nichols, J. E., D. M. Peteet, S. Frolking and J. Karavias | A probabilistic method of assessing carbon accumulation rate at Imnavait Creek Peatland, Arctic Long Term Ecological Research Station, Alaska | Journal of Quaternary Science | 32(5) 579–86 |
| 2017 | 10.1002/bit.26296 | Mendez-Perez, D., J. Alonso-Gutierrez, Q. Hu, M. Molinas, E. E. K. Baidoo, G. Wang, L. J. G. Chan, P. D. Adams, C. J. Petzold, J. D. Keasling and T. S. Lee | Production of jet fuel precursor monoterpenoids from engineered Escherichia coli | Biotechnology and Bioengineering | 114(8) 1703–12 |
| 2017 | 10.3390/molecules22060981 | Forman, V., R. Callari, C. Folly, H. Heider and B. R. Hamberger | Production of putative diterpene carboxylic acid intermediates of triptolide in yeast | Molecules | 22(6) |
| 2017 | 10.1038/ncomms15128 | Venturelli, O. S., M. Tei, S. Bauer, L. J. G. Chan, C. J. Petzold and A. P. Arkin | Programming mRNA decay to modulate synthetic circuit resource allocation | Nature Communications | 8 15128 |
| 2017 | 10.1038/nature24624 | Whiteley, M., S. P. Diggle and E. P. Greenberg | Progress in and promise of bacterial quorum sensing research | Nature | 551(7680) 313–20 |
| 2017 | 10.1186/s13068-017-0971-1 | Gilna, P., L. R. Lynd, D. Mohnen, M. F. Davis and B. H. Davison | Progress in understanding and overcoming biomass recalcitrance: a BioEnergy Science Center (BESC) perspective | Biotechnology for Biofuels | 10 285 |
| 2017 | 10.3389/fpls.2017.01134 | Lin, F., B. J. Williams, P. A. V. Thangella, A. Ladak, A. A. Schepmoes, H. J. Olivos, K. Zhao, S. J. Callister and L. E. Bartley | Proteomics Coupled with Metabolite and Cell Wall Profiling Reveal Metabolic Processes of a Developing Rice Stem Internode | Frontiers in Plant Science | 8 1134 |
| 2017 | 10.1021/acs.analchem.7b02555 | Hurst, G. B., K. G. Asano, C. J. Doktycz, E. J. Consoli, W. L. Doktycz, C. M. Foster, J. L. Morrell-Falvey, R. F. Standaert and M. J. Doktycz | Proteomics-Based Tools for Evaluation of Cell-Free Protein Synthesis | Analytical Chemistry | 89(21) 11443–51 |
| 2017 | 10.19080/rapsci.2017.01.555551 | Ragauskas, A. J. | Pseudo-Lignin Formation during Dilute acid Pretreatment for Cellulosic Ethanol | Recent Advances in Petrochemical Science | 1(1) 1–5 |
| 2017 | 10.1093/jxb/erx197 | Caspari, O. D., M. T. Meyer, D. Tolleter, T. M. Wittkopp, N. J. Cunniffe, T. Lawson, A. R. Grossman and H. Griffiths | Pyrenoid loss in Chlamydomonas reinhardtii causes limitations in CO2 supply, but not thylakoid operating efficiency | Journal of Experimental Botany | 68(14) 3903-3913 |
| 2017 | 10.1074/jbc.M117.804914 | Yurkovich, J. T., D. C. Zielinski, L. Yang, G. Paglia, O. Rolfsson, O. E. Sigurjonsson, J. T. Broddrick, A. Bordbar, K. Wichuk, S. Brynjolfsson, S. Palsson, S. Gudmundsson and B. O. Palsson | Quantitative time-course metabolomics in human red blood cells reveal the temperature dependence of human metabolic networks | Journal of Biological Chemistry | 292(48) 19556–64 |
| 2017 | 10.1021/acssynbio.6b00376 | Zeitoun, R. I., G. Pines, W. C. Grau and R. T. Gill | Quantitative Tracking of Combinatorially Engineered Populations with Multiplexed Binary Assemblies | ACS Synthetic Biology | 6(4) 619–27 |
| 2017 | 10.1016/j.bbagen.2016.06.015 | Vural, D., X. Hu, B. Lindner, N. Jain, Y. Miao, X. Cheng, Z. Liu, L. Hong and J. C. Smith | Quasielastic neutron scattering in biology: Theory and applications | Biochimica et Biophysica Acta - General Subjects | 1861(1 Part B) 3638–50 |
| 2017 | 10.1371/journal.pone.0180808 | He, H., R. L. Weir, J. J. Toutounchian, J. Pagadala, J. J. Steinle, J. Baudry, D. D. Miller and C. R. Yates | The quinic acid derivative KZ-41 prevents glucose-induced caspase-3 activation in retinal endothelial cells through an IGF-1 receptor dependent mechanism | PLoS One | 12(8) e0180808 |
| 2017 | 10.1016/j.envsoft.2016.11.010 | Xu, X., X. Zhang, H. Fang, R. Lai, Y. Zhang, L. Huang and X. Liu | A real-time probabilistic channel flood-forecasting model based on the Bayesian particle filter approach | Environmental Modelling and Software | 88 151-167 |
| 2017 | 10.1016/j.copbio.2017.02.010 | Wang, C., B. F. Pfleger and S. W. Kim | Reassessing Escherichia coli as a cell factory for biofuel production | Current Opinion in Biotechnology | 45 92-103 |
| 2017 | 10.1016/j.copbio.2016.11.006 | Martien, J. I. and D. Amador-Noguez | Recent applications of metabolomics to advance microbial biofuel production | Current Opinion in Biotechnology | 43 118-126 |
| 2017 | 10.1128/mBio.01620-17 | McCully, A. L., B. LaSarre and J. B. McKinlay | Recipient-Biased Competition for an Intracellularly Generated Cross-Fed Nutrient Is Required for Coexistence of Microbial Mutualists | mBio | 8(6) |
| 2017 | 10.1038/s41564-017-0012-7 | Parks, D. H., C. Rinke, M. Chuvochina, P. A. Chaumeil, B. J. Woodcroft, P. N. Evans, P. Hugenholtz and G. W. Tyson | Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life | Nature Microbiology | 2(11) 1533–42 |
| 2017 | 10.1016/j.pbi.2017.06.005 | Blaby-Haas, C. E. and S. S. Merchant | Regulating cellular trace metal economy in algae | Current Opinion in Plant Biology | 39 88–96 |
| 2017 | 10.1128/mSphere.00038-17 | Pomraning, K. R., E. L. Bredeweg and S. E. Baker | Regulation of Nitrogen Metabolism by GATA Zinc Finger Transcription Factors in Yarrowia lipolytica | mSphere | 2(1) |
| 2017 | 10.1186/s12864-017-4114-7 | Daguerre, Y., E. Levati, J. Ruytinx, E. Tisserant, E. Morin, A. Kohler, B. Montanini, S. Ottonello, A. Brun, C. Veneault-Fourrey and F. Martin | Regulatory networks underlying mycorrhizal development delineated by genome-wide expression profiling and functional analysis of the transcription factor repertoire of the plant symbiotic fungus Laccaria bicolor | BMC Genomics | 18(1) 737 |
| 2017 | 10.1093/jxb/erx185 | Ellsworth, P. Z., P. V. Ellsworth and A. B. Cousins | Relationship of leaf oxygen and carbon isotopic composition with transpiration efficiency in the C4 grasses Setaria viridis and Setaria italica | Journal of Experimental Botany | 68(13) 3513–28 |
| 2017 | 10.1016/j.aca.2017.09.023 | Tuomivaara, S. T., P. Schliekelman, A. V. Nairn, K. W. Moremen and W. S. York | RElative QUantitation Inferred by Evaluating Mixtures (REQUIEM) | Analytica Chimica Acta | 993 22–37 |
| 2017 | 10.1111/1751-7915.12463 | Adams, M. W. and R. M. Kelly | The renaissance of life near the boiling point - at last, genetics and metabolic engineering | Microbial Biotechnology | 10(1) 37–9 |
| 2017 | 10.1073/pnas.1708124114 | McAndrew, R. P., N. Sathitsuksanoh, M. M. Mbughuni, R. A. Heins, J. H. Pereira, A. George, K. L. Sale, B. G. Fox, B. A. Simmons and P. D. Adams | Reply to Kiser: Dioxygen binding in NOV1 crystal structures | Proceedings of the National Academy of Sciences of the United States of America | 114(30) E6029–30 |
| 2017 | 10.1111/1755-0998.12639 | Clark, L. V. and A. D. Schreier | Resolving microsatellite genotype ambiguity in populations of allopolyploid and diploidized autopolyploid organisms using negative correlations between allelic variables | Molecular Ecology Resources | 17(5) 1090–103 |
| 2017 | 10.1371/journal.pone.0172135 | Cuvelier, M. L., J. Guo, A. C. Ortiz, M. J. van Baren, M. A. Tariq, F. Partensky and A. Z. Worden | Responses of the picoprasinophyte Micromonas commoda to light and ultraviolet stress | PLoS One | 12(3) e0172135 |
| 2017 | 10.1038/nmicrobiol.2017.45 | Paul, B. G., D. Burstein, C. J. Castelle, S. Handa, D. Arambula, E. Czornyj, B. C. Thomas, P. Ghosh, J. F. Miller, J. F. Banfield and D. L. Valentine | Retroelement-guided protein diversification abounds in vast lineages of Bacteria and Archaea | Nature Microbiology | 2 17045 |
| 2017 | 10.1016/j.plantsci.2017.07.007 | Aznar-Moreno, J. A. and T. P. Durrett | Review: Metabolic engineering of unusual lipids in the synthetic biology era | Plant Science | 263 126–31 |
| 2017 | 10.1007/978-1-4939-7136-7_23 | Lakshmanan, V., P. Ray and K. D. Craven | Rhizosphere Sampling Protocols for Microbiome (16S/18S/ITS rRNA) Library Preparation and Enrichment for the Isolation of Drought Tolerance-Promoting Microbes | Plant Stress Tolerance: Methods and Protocols | 1631 349–62 |
| 2017 | 10.1002/jcc.25054 | Mills, M. J. L., K. L. Sale, B. A. Simmons and P. L. A. Popelier | Rhorix: An interface between quantum chemical topology and the 3D graphics program blender | Journal of Computational Chemistry | 38(29) 2538–52 |
| 2017 | 10.1371/journal.pone.0179410 | Park, J. J., E. Dempewolf, W. Zhang and Z. Y. Wang | RNA-guided transcriptional activation via CRISPR/dCas9 mimics overexpression phenotypes in Arabidopsis | PLoS One | 12(6) e0179410 |
| 2017 | 10.1093/nar/gkw900 | Orellana, L. H., L. M. Rodriguez-R and K. T. Konstantinidis | ROCker: accurate detection and quantification of target genes in short-read metagenomic data sets by modeling sliding-window bitscores | Nucleic Acids Research | 45(3) e14 |
| 2017 | 10.1016/j.fgb.2017.06.003 | Zhang, J. and J. S. Schilling | Role of carbon source in the shift from oxidative to hydrolytic wood decomposition by Postia placenta | Fungal Genetics and Biology | 106 1–8 |
| 2017 | 10.1038/srep43925 | Chen, X., W. C. Chou, Q. Ma and Y. Xu | SeqTU: A Web Server for Identification of Bacterial Transcription Units | Scientific Reports | 7 43925 |
| 2017 | 10.1105/tpc.17.00154 | Li, G., R. Jain, M. Chern, N. T. Pham, J. A. Martin, et al. | The Sequences of 1504 Mutants in the Model Rice Variety Kitaake Facilitate Rapid Functional Genomic Studies | The Plant Cell | 29(6) 1218–31 |
| 2017 | 10.1111/tpj.13582 | Hsia, M. M., R. O'Malley, A. Cartwright, R. Nieu, S. P. Gordon, et al. | Sequencing and functional validation of the JGI Brachypodium distachyon T-DNA collection | The Plant Journal | 91(3) 361–70 |
| 2017 | 10.3389/fpls.2017.01562 | Zhu, C., J. Yang and C. Shyu | Setaria Comes of Age: Meeting Report on the Second International Setaria Genetics Conference | Frontiers in Plant Science | 8 1562 |
| 2017 | 10.1104/pp.17.00920 | Saleme, M. L. S., I. Cesarino, L. Vargas, H. Kim, R. Vanholme, et al. | Silencing CAFFEOYL SHIKIMATE ESTERASE affects lignification and improves saccharification in poplar | Plant Physiology | 175(3) 1040-1057 |
| 2017 | 10.1104/pp.16.01108 | Eloy, N. B., W. Voorend, W. Lan, M. L. S. Saleme, I. Cesarino, R. Vanholme, R. A. Smith, G. Goeminne, A. Pallidis, K. Morreel, J. Nicomedes, J. Ralph and W. Boerjan | Silencing CHALCONE SYNTHASE in maize impedes the incorporation of tricin into lignin and increases lignin content | Plant Physiology | 173(2) 998-1016 |
| 2017 | 10.1128/AEM.00696-17 | Steven, B., C. Hesse, J. Soghigian, V. Gallegos-Graves and J. Dunbar | Simulated rRNA/DNA Ratios Show Potential To Misclassify Active Populations as Dormant | Applied and Environmental Microbiology | 83(11) |
| 2017 | 10.3389/fpls.2017.00982 | Liu, S., C. Fu, J. Gou, L. Sun, D. Huhman, Y. Zhang and Z. Y. Wang | Simultaneous Downregulation of MTHFR and COMT in Switchgrass Affects Plant Performance and Induces Lesion-Mimic Cell Death | Frontiers in Plant Science | 8 982 |
| 2017 | 10.1364/OL.42.000523 | Yang, W., A. Li, Y. Suo, F. K. Lu and X. Sunney Xie | Simultaneous two-color stimulated Raman scattering microscopy by adding a fiber amplifier to a 2 ps OPO-based SRS microscope | Optics Letters | 42(3) 523–6 |
| 2017 | 10.1021/acs.iecr.7b01689 | Kong, L., Y. Wu and C. T. Maravelias | Simultaneous utility and heat exchanger area targeting for integrated process synthesis and heat integration | Industrial and Engineering Chemistry Research | 56(41) 11847-11859 |
| 2017 | 10.1371/journal.pbio.2004050 | Gasch, A. P., F. B. Yu, J. Hose, L. E. Escalante, M. Place, R. Bacher, J. Kanbar, D. Ciobanu, L. Sandor, I. V. Grigoriev, C. Kendziorski, S. R. Quake and M. N. McClean | Single-cell RNA sequencing reveals intrinsic and extrinsic regulatory heterogeneity in yeast responding to stress | PLoS Biology | 15(12) |
| 2017 | 10.1038/ncomms15892 | Martinez-Hernandez, F., O. Fornas, M. Lluesma Gomez, B. Bolduc, M. J. de la Cruz Pena, J. M. Martinez, J. Anton, J. M. Gasol, R. Rosselli, F. Rodriguez-Valera, M. B. Sullivan, S. G. Acinas and M. Martinez-Garcia | Single-virus genomics reveals hidden cosmopolitan and abundant viruses | Nature Communications | 8 15892 |
| 2017 | 10.1016/j.soilbio.2017.04.019 | Zhang, B., C. R. Penton, C. Xue, J. F. Quensen, S. S. Roley, J. Guo, A. Garoutte, T. Zheng and J. M. Tiedje | Soil depth and crop determinants of bacterial communities under ten biofuel cropping systems | Soil Biology and Biochemistry | 112 140-152 |
| 2017 | 10.1128/microbiolspec.FUNK-0057-2016 | Taylor, J. W., S. Branco, C. Gao, C. Hann-Soden, L. Montoya, I. Sylvain and P. Gladieux | Sources of Fungal Genetic Variation and Associating It with Phenotypic Diversity | Microbiology Spectrum | 5(5) |
| 2017 | 10.1099/ijsem.0.002186 | Morais, C. G., T. M. Batista, J. Kominek, B. M. Borelli, C. Furtado, R. G. Moreira, G. R. Franco, L. H. Rosa, C. Fonseca, C. T. Hittinger, M. A. Lachance and C. A. Rosa | Spathaspora boniae sp. nov., a D-xylose-fermenting species in the Candida albicans/lodderomyces clade | International Journal of Systematic and Evolutionary Microbiology | 67(10) 3798-3805 |
| 2017 | 10.1016/j.jaridenv.2017.03.005 | Chung, Y. A., R. L. Sinsabaugh, C. R. Kuske, S. C. Reed and J. A. Rudgers | Spatial variation in edaphic characteristics is a stronger control than nitrogen inputs in regulating soil microbial effects on a desert grass | Journal of Arid Environments | 142 59–65 |
| 2017 | 10.1007/s12155-016-9774-7 | Cronin, K. R., T. M. Runge, X. Zhang, R. C. Izaurralde, D. J. Reinemann and J. C. Sinistore | Spatially explicit life cycle analysis of cellulosic ethanol production scenarios in southwestern michigan | Bioenergy Research | 10(1) 13-25 |
| 2017 | 10.1038/srep43583 | Dumitrache, A., D. M. Klingeman, J. Natzke, M. Rodriguez, Jr., R. J. Giannone, R. L. Hettich, B. H. Davison and S. D. Brown | Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells | Scientific Reports | 7 43583 |
| 2017 | 10.1093/bioinformatics/btx126 | Faraji, M. and E. O. Voit | Stepwise inference of likely dynamic flux distributions from metabolic time series data | Bioinformatics | 33(14) 2165–72 |
| 2017 | 10.1128/MMBR.00002-17 | Zhou, J. and D. Ning | Stochastic Community Assembly: Does It Matter in Microbial Ecology? | Microbiology and Molecular Biology Reviews | 81(4) |
| 2017 | 10.1002/cssc.201601515 | Kim, K. H., R. C. Brown, T. Daugaard, W. F. Tivol, M. Auer, B. Simmons and S. Singh | Strategy for Extending the Stability of Bio-oil-Derived Phenolic Oligomers by Mild Hydrotreatment with Ionic-Liquid-Stabilized Nanoparticles | ChemSusChem | 10(5) 884–93 |
| 2017 | 10.1007/978-1-4939-6722-3_16 | Mortimer, J. C. | Structural Analysis of Cell Wall Polysaccharides Using PACE | Xylem: Methods and Protocols | 1544 223–31 |
| 2017 | 10.1007/s10570-017-1549-6 | Yang, H., T. Wang, D. Oehme, L. Petridis, M. Hong and J. D. Kubicki | Structural factors affecting 13C NMR chemical shifts of cellulose: a computational study | Cellulose | 25(1) 23–36 |
| 2017 | 10.1039/c7cp04013j | Perticaroli, S., B. Mostofian, G. Ehlers, J. C. Neuefeind, S. O. Diallo, C. B. Stanley, L. Daemen, T. Egami, J. Katsaras, X. Cheng and J. D. Nickels | Structural relaxation, viscosity, and network connectivity in a hydrogen bonding liquid | Physical Chemistry Chemical Physics | 19(38) 25859–69 |
| 2017 | 10.1016/j.jes.2016.10.005 | Fernandez-Bayo, J. D., J. Toniato, B. A. Simmons and C. W. Simmons | Structure and activity of thermophilic methanogenic microbial communities exposed to quaternary ammonium sanitizer | Journal of Environmental Sciences | 56 164–8 |
| 2017 | 10.1186/s13068-017-0925-7 | Kruer-Zerhusen, N., M. Alahuhta, V. V. Lunin, M. E. Himmel, Y. J. Bomble and D. B. Wilson | Structure of a Thermobifida fusca lytic polysaccharide monooxygenase and mutagenesis of key residues | Biotechnology for Biofuels | 10 243 |
| 2017 | 10.1073/pnas.1619263114 | Kohler, A. C., M. J. L. Mills, P. D. Adams, B. A. Simmons and K. L. Sale | Structure of aryl O-demethylase offers molecular insight into a catalytic tyrosine-dependent mechanism | Proceedings of the National Academy of Sciences of the United States of America | 114(16) E3205–14 |
| 2017 | 10.1038/nature24627 | Blees, A., D. Januliene, T. Hofmann, N. Koller, C. Schmidt, S. Trowitzsch, A. Moeller and R. Tampe | Structure of the human MHC-I peptide-loading complex | Nature | 551(7681) 525–8 |
| 2017 | 10.1016/j.vaccine.2016.11.065 | Dale, J. B., P. R. Smeesters, H. S. Courtney, T. A. Penfound, C. M. Hohn, J. C. Smith and J. Y. Baudry | Structure-based design of broadly protective group a streptococcal M protein-based vaccines | Vaccine | 35(1) 19–26 |
| 2017 | 10.1186/s13068-016-0695-7 | Li, M., Y. Pu, C. G. Yoo, E. Gjersing, S. R. Decker, et al. | Study of traits and recalcitrance reduction of field-grown COMT down-regulated switchgrass | Biotechnology for Biofuels | 10 12 |
| 2017 | 10.1016/j.ejsobi.2017.04.003 | Horton, D. J., M. W. Kershner and C. B. Blackwood | Suitability of PCR primers for characterizing invertebrate communities from soil and leaf litter targeting metazoan 18S ribosomal or cytochrorne oxidase I (COI) genes | European Journal of Soil Biology | 80 43–8 |
| 2017 | 10.1002/slct.201700735 | Li, M., Y. Pu, T. J. Tschaplinski and A. J. Ragauskas | 31P NMR Characterization of Tricin and Its Structurally Similar Flavonoids | ChemistrySelect | 2(12) 3557–61 |
| 2017 | 10.1021/acssuschemeng.7b03602 | Li, M., C. G. Yoo, Y. Pu and A. J. Ragauskas | 31P NMR Chemical Shifts of Solvents and Products Impurities in Biomass Pretreatments | ACS Sustainable Chemistry & Engineering | 6(1) 1265–70 |
| 2017 | 10.1016/j.compchemeng.2016.10.007 | Wu, W., K. Yenkie and C. T. Maravelias | A superstructure-based framework for bio-separation network synthesis | Computers and Chemical Engineering | 96 45308 |
| 2017 | 10.1186/s13068-017-0793-1 | Smith, R. A., C. L. Cass, M. Mazaheri, R. S. Sekhon, M. Heckwolf, H. Kaeppler, N. De Leon, S. D. Mansfield, S. M. Kaeppler, J. C. Sedbrook, S. D. Karlen and J. Ralph | Suppression of CINNAMOYL-CoA REDUCTASE increases the level of monolignol ferulates incorporated into maize lignins | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1021/acssuschemeng.6b01877 | Tolbert, A. K., J. M. Young, S. Jung, D. Chung, A. Passian, J. Westpheling and A. J. Ragauskus | Surface Characterization of Populus during Caldicellulosiruptor bescii Growth by TOF-SIMS Analysis | ACS Sustainable Chemistry & Engineering | 5(3) 2084–9 |
| 2017 | 10.1021/acssuschemeng.7b02123 | Dutta, T., N. G. Isern, J. Sun, E. Wang, S. Hull, J. R. Cort, B. A. Simmons and S. Singh | Survey of Lignin-Structure Changes and Depolymerization during Ionic Liquid Pretreatment | ACS Sustainable Chemistry & Engineering | 5(11) 10116–27 |
| 2017 | 10.1038/ncomms15526 | Korman, T. P., P. H. Opgenorth and J. U. Bowie | A synthetic biochemistry platform for cell free production of monoterpenes from glucose | Nature Communications | 8 |
| 2017 | 10.1186/s13036-017-0048-5 | Hays, S. G., L. L. W. Yan, P. A. Silver and D. C. Ducat | Synthetic photosynthetic consortia define interactions leading to robustness and photoproduction | Journal of Biological Engineering | 11 4 |
| 2017 | 10.1016/j.coisb.2017.07.008 | Rouached, H. and S. Y. Rhee | System-level understanding of plant mineral nutrition in the big data era | Current Opinion in Systems Biology | 4 71–7 |
| 2017 | 10.1093/nar/gkx691 | Lubock, N. B., D. Zhang, A. M. Sidore, G. M. Church and S. Kosuri | A systematic comparison of error correction enzymes by next-generation sequencing | Nucleic Acids Research | 45(15) 9206-9217 |
| 2017 | 10.1371/journal.pone.0176085 | Choi, J., A. Rajagopal, Y. F. Xu, J. D. Rabinowitz and E. K. O'Shea | A systematic genetic screen for genes involved in sensing inorganic phosphate availability in Saccharomyces cerevisiae | PLoS One | 12(5) e0176085 |
| 2017 | 10.1111/mmi.13625 | Nelson, C. E., A. Rogowski, C. Morland, J. A. Wilhide, H. J. Gilbert and J. G. Gardner | Systems analysis in Cellvibrio japonicus resolves predicted redundancy of β-glucosidases and determines essential physiological functions | Molecular Microbiology | 104(2) 294–305 |
| 2017 | 10.1038/nmeth.4260 | Huan, T., E. M. Forsberg, D. Rinehart, C. H. Johnson, J. Ivanisevic, et al. | Systems biology guided by XCMS Online metabolomics | Nature Methods | 14(5) 461–2 |
| 2017 | 10.1038/srep44150 | Cao, H., D. Wei, Y. Yang, Y. Shang, G. Li, Y. Zhou, Q. Ma and Y. Xu | Systems-level understanding of ethanol-induced stresses and adaptation in E. coli | Scientific Reports | 7 44150 |
| 2017 | 10.1002/pca.2672 | Jaini, R., P. Wang, N. Dudareva, C. Chapple and J. A. Morgan | Targeted Metabolomics of the Phenylpropanoid Pathway in Arabidopsis thaliana using Reversed Phase Liquid Chromatography Coupled with Tandem Mass Spectrometry | Phytochemical Analysis | 28(4) 267–76 |
| 2017 | 10.1186/s13068-017-0960-4 | Sander, K., K. G. Asano, D. Bhandari, G. J. Van Berkel, S. D. Brown, B. Davison and T. J. Tschaplinski | Targeted redox and energy cofactor metabolomics in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum | Biotechnology for Biofuels | 10 270 |
| 2017 | 10.1186/s13068-017-0918-6 | Willis, J. D., J. N. Grant, M. Mazarei, L. M. Kline, C. S. Rempe, A. G. Collins, G. B. Turner, S. R. Decker, R. W. Sykes, M. F. Davis, N. Labbe, J. L. Jurat-Fuentes and C. N. Stewart, Jr. | The TcEG1 beetle (Tribolium castaneum) cellulase produced in transgenic switchgrass is active at alkaline pH and auto-hydrolyzes biomass for increased cellobiose release | Biotechnology for Biofuels | 10 230 |
| 2017 | 10.1111/tpj.13630 | Wai, C. M., R. VanBuren, J. Zhang, L. Huang, W. Miao, P. P. Edger, W. C. Yim, H. D. Priest, B. C. Meyers, T. Mockler, J. A. C. Smith, J. C. Cushman and R. Ming | Temporal and spatial transcriptomic and microRNA dynamics of CAM photosynthesis in pineapple | The Plant Journal | 92(1) 19–30 |
| 2017 | 10.1021/acs.est.6b04751 | King, A. J., S. P. Preheim, K. L. Bailey, M. S. Robeson, 2nd, T. Roy Chowdhury, et al. | Temporal Dynamics of In-Field Bioreactor Populations Reflect the Groundwater System and Respond Predictably to Perturbation | Environmental Science & Technology | 51(5) 2879–89 |
| 2017 | 10.1111/tpj.13410 | Hansen, N. L., A. M. Heskes, B. Hamberger, C. E. Olsen, B. M. Hallström, J. Andersen-Ranberg and B. Hamberger | The terpene synthase gene family in Tripterygium wilfordii harbors a labdane-type diterpene synthase among the monoterpene synthase TPS-b subfamily | Plant Journal | 89(3) 429-441 |
| 2017 | 10.1021/acs.jpcb.7b04519 | Jing, X., W. Evangelista Falcon, J. Baudry and E. H. Serpersu | Thermophilic Enzyme or Mesophilic Enzyme with Enhanced Thermostability: Can We Draw a Line? | Journal of Physical Chemistry B | 121(29) 7086–94 |
| 2017 | 10.1088/1361-648X/aa4e68 | Cortini, R., X. Cheng and J. C. Smith | The tilt-dependent potential of mean force of a pair of DNA oligomers from all-atom molecular dynamics simulations | Journal of Physics: Condensed Matter | 29(8) 084002 |
| 2017 | 10.1371/journal.pgen.1006841 | Feldman, M. J., R. E. Paul, D. Banan, J. F. Barrett, J. Sebastian, M. C. Yee, H. Jiang, A. E. Lipka, T. P. Brutnell, J. R. Dinneny, A. D. B. Leakey and I. Baxter | Time dependent genetic analysis links field and controlled environment phenotypes in the model C4 grass Setaria | PLoS Genetics | 13(6) e1006841 |
| 2017 | 10.1186/s13007-017-0172-8 | Gage, J. L., N. D. Miller, E. P. Spalding, S. M. Kaeppler and N. de Leon | TIPS: A system for automated image-based phenotyping of maize tassels | Plant Methods | 13(1) |
| 2017 | 10.1186/s12864-017-3902-4 | MacMillan, C. P., H. Birke, A. Chuah, E. Brill, Y. Tsuji, J. Ralph, E. S. Dennis, D. Llewellyn and F. A. Pettolino | Tissue and cell-specific transcriptomes in cotton reveal the subtleties of gene regulation underlying the diversity of plant secondary cell walls | BMC Genomics | 18(1) |
| 2017 | 10.1007/978-1-4939-7136-7_4 | Lakshmanan, V., P. Ray and K. D. Craven | Toward a Resilient, Functional Microbiome: Drought Tolerance-Alleviating Microbes for Sustainable Agriculture | Plant Stress Tolerance: Methods and Protocols | 1631 69–84 |
| 2017 | 10.1002/bit.26229 | Jin, M., C. Sarks, B. D. Bals, N. Posawatz, C. Gunawan, B. E. Dale and V. Balan | Toward high solids loading process for lignocellulosic biofuel production at a low cost | Biotechnology and Bioengineering | 114(5) 980-989 |
| 2017 | 10.1111/cbdd.13004 | Pavlova, A., J. M. Parks, A. K. Oyelere and J. C. Gumbart | Toward the rational design of macrolide antibiotics to combat resistance | Chemical Biology & Drug Design | 90(5) 641–52 |
| 2017 | 10.1039/c6se00080k | Lam, C. H., S. Das, N. C. Erickson, C. D. Hyzer, M. Garedew, J. E. Anderson, T. J. Wallington, M. A. Tamor, J. E. Jackson and C. M. Saffron | Towards sustainable hydrocarbon fuels with biomass fast pyrolysis oil and electrocatalytic upgrading | Sustainable Energy and Fuels | 1(2) 258-266 |
| 2017 | 10.1007/s12155-017-9832-9 | Tornqvist, C. E., B. Vaillancourt, J. Kim, C. R. Buell, S. M. Kaeppler and M. D. Casler | Transcriptional Analysis of Flowering Time in Switchgrass | Bioenergy Research | 10(3) 700-713 |
| 2017 | 10.1016/j.cub.2017.03.003 | Floss, D. S., S. K. Gomez, H. J. Park, A. M. MacLean, L. M. Muller, K. K. Bhattarai, V. Levesque-Tremblay, I. E. Maldonado-Mendoza and M. J. Harrison | A Transcriptional Program for Arbuscule Degeneration during AM Symbiosis Is Regulated by MYB1 | Current Biology | 27(8) 1206–12 |
| 2017 | 10.1186/s13068-017-0997-4 | Henske, J. K., S. P. Gilmore, D. Knop, F. J. Cunningham, J. A. Sexton, C. R. Smallwood, V. Shutthanandan, J. E. Evans, M. K. Theodorou and M. A. O'Malley | Transcriptomic characterization of Caecomyces churrovis: a novel, non-rhizoid-forming lignocellulolytic anaerobic fungus | Biotechnology for Biofuels | 10 305 |
| 2017 | 10.1099/ijsem.0.002202 | Dobritsa, A. P., E. V. Linardopoulou and M. Samadpour | Transfer of 13 species of the genus Burkholderia to the genus Caballeronia and reclassification of Burkholderia jirisanensis as Paraburkholderia jirisanensis comb. nov | International Journal of Systematic and Evolutionary Microbiology | 67(10) 3846–53 |
| 2017 | 10.1111/pbi.12666 | Dumitrache, A., J. Natzke, M. Rodriguez, Jr., K. L. Yee, O. A. Thompson, et al. | Transgenic switchgrass (Panicum virgatum L.) targeted for reduced recalcitrance to bioconversion: a 2-year comparative analysis of field-grown lines modified for target gene or genetic element expression | Plant Biotechnology Journal | 15(6) 688–97 |
| 2017 | 10.1016/j.fuel.2017.04.051 | To, T. Q., K. Shah, P. Tremain, B. A. Simmons, B. Moghtaderi and R. Atkin | Treatment of lignite and thermal coal with low cost amino acid based ionic liquid-water mixtures | Fuel | 202 296–306 |
| 2017 | 10.1016/j.phytochem.2017.02.022 | Hansen, N. L., J. N. Nissen and B. Hamberger | Two residues determine the product profile of the class II diterpene synthases TPS14 and TPS21 of Tripterygium wilfordii | Phytochemistry | 138 52-56 |
| 2017 | 10.1099/mic.0.000546 | Moreira-Soto, R. D., E. Sanchez, C. R. Currie and A. A. Pinto-Tomás | Ultrastructural and microbial analyses of cellulose degradation in leaf-cutter ant colonies | Microbiology (United Kingdom) | 163(11) 1578-1589 |
| 2017 | 10.1186/s13068-017-0974-y | Himmel, M. E., C. A. Abbas, J. O. Baker, E. A. Bayer, Y. J. Bomble, et al. | Undefined cellulase formulations hinder scientific reproducibility | Biotechnology for Biofuels | 10 283 |
| 2017 | 10.1039/c6gc03379b | Zeng, J., M. J. L. Mills, B. A. Simmons, M. S. Kent and K. L. Sale | Understanding factors controlling depolymerization and polymerization in catalytic degradation of β-ether linked model lignin compounds by versatile peroxidase | Green Chemistry | 19(9) 2145–54 |
| 2017 | 10.1002/cplu.201700138 | Tolbert, A. K., C. G. Yoo and A. J. Ragauskas | Understanding the Changes to Biomass Surface Characteristics after Ammonia and Organosolv Pretreatments by Using Time-of-Flight Secondary-Ion Mass Spectrometry (TOF-SIMS) | ChemPlusChem | 82(5) 686–90 |
| 2017 | 10.1371/journal.pone.0170164 | Jacobs, C., L. Lambourne, Y. Xia and D. Segrè | Upon accounting for the impact of isoenzyme loss, gene deletion costs anticorrelate with their evolutionary rates | PLoS ONE | 12(1) |
| 2017 | 10.4236/ojic.2017.72003 | Majumder, E. L. W. and J. D. Wall | Uranium Bio-Transformations: Chemical or Biological Processes? | Open Journal of Inorganic Chemistry | 7(2) 28–60 |
| 2017 | 10.1002/cpmc.37 | Allen, B., M. Drake, N. Harris and T. Sullivan | Using KBase to Assemble and Annotate Prokaryotic Genomes | Current Protocols in Microbiology | 46 1E.13.1–18 |
| 2017 | 10.1016/j.rhisph.2017.04.016 | Pett-Ridge, J. and M. K. Firestone | Using stable isotopes to explore root-microbe-mineral interactions in soil | Rhizosphere | 3 244–53 |
| 2017 | 10.1109/CCTA.2017.8062584 | Yurkovich, J. T., L. Yang and B. O. Palsson | Utilizing biomarkers to forecast quantitative metabolite concentration profiles in human red blood cells | 2017 IEEE Conference on Control Technology and Applications | 961–6 |
| 2017 | 10.1371/journal.pone.0178258 | Sagawa, S., M. N. Price, A. M. Deutschbauer and A. P. Arkin | Validating regulatory predictions from diverse bacteria with mutant fitness data | PLoS One | 12(5) e0178258 |
| 2017 | 10.2136/vzj2017.06.0125 | Doro, L., C. Jones, J. R. Williams, M. L. Norfleet, R. C. Izaurralde, X. Wang and J. Jeong | The variable saturation hydraulic conductivity method for improving soil water content simulation in EPIC and APEX models | Vadose Zone Journal | 16(13) 45305 |
| 2017 | 10.7717/peerj.3243 | Bolduc, B., H. B. Jang, G. Doulcier, Z. Q. You, S. Roux and M. B. Sullivan | vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria | PeerJ | 5 e3243 |
| 2017 | 10.1038/srep40712 | Zhang, Q., S. R. Jun, M. Leuze, D. Ussery and I. Nookaew | Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer | Scientific Reports | 7 40712 |
| 2017 | 10.1186/s13068-017-0953-3 | Zeng, Y., M. E. Himmel and S. Y. Ding | Visualizing chemical functionality in plant cell walls | Biotechnology for Biofuels | 10 263 |
| 2017 | 10.1038/ismej.2017.48 | Cheng, L., N. Zhang, M. Yuan, J. Xiao, Y. Qin, et al. | Warming enhances old organic carbon decomposition through altering functional microbial communities | The ISME Journal | 11(8) 1825–35 |
| 2017 | 10.1016/j.biortech.2017.08.200 | Williams, D. L., J. D. Crowe, R. G. Ong and D. B. Hodge | Water sorption in pretreated grasses as a predictor of enzymatic hydrolysis yields | Bioresource Technology | 245 242-249 |
| 2017 | 10.1038/ng.3859 | Mondo, S. J., R. O. Dannebaum, R. C. Kuo, K. B. Louie, A. J. Bewick, et al. | Widespread adenine N6-methylation of active genes in fungi | Nature Genetics | 49(6) 964–8 |
| 2017 | 10.1111/nph.14571 | Valverde-Barrantes, O. J., G. T. Freschet, C. Roumet and C. B. Blackwood | A worldview of root traits: the influence of ancestry, growth form, climate and mycorrhizal association on the functional trait variation of fine-root tissues in seed plants | New Phytologist | 215(4) 1562–73 |
| 2017 | 10.1107/S2053230X17004587 | Welner, D. H., A. Y. Tsai, A. M. DeGiovanni, H. V. Scheller and P. D. Adams | X-ray diffraction analysis and in vitro characterization of the UAM2 protein from Oryza sativa | Acta Crystallographica Section F Structural Biology Communications | 73(Part 4) 241–5 |
| 2017 | 10.1186/s13068-017-0935-5 | Peralta, A. G., S. Venkatachalam, S. C. Stone and S. Pattathil | Xylan epitope profiling: an enhanced approach to study organ development-dependent changes in xylan structure, biosynthesis, and deposition in plant cell walls | Biotechnology for Biofuels | 10 245 |
| 2017 | 10.1111/nph.14704 | Zhao, C., T. Lasses, L. Bako, D. Kong, B. Zhao, B. Chanda, A. Bombarely, A. Cruz-Ramirez, B. Scheres, A. M. Brunner and E. P. Beers | XYLEM NAC DOMAIN1, an angiosperm NAC transcription factor, inhibits xylem differentiation through conserved motifs that interact with RETINOBLASTOMA-RELATED | New Phytologist | 216(1) 76–89 |
| 2017 | 10.1186/s13068-017-0965-z | Schuerg, T., J. P. Prahl, R. Gabriel, S. Harth, F. Tachea, et al. | Xylose induces cellulase production in Thermoascus aurantiacus | Biotechnology for Biofuels | 10 271 |
| 2017 | 10.1128/IAI.00601-16 | Hasim, S., D. P. Allison, S. T. Retterer, A. Hopke, R. T. Wheeler, M. J. Doktycz and T. B. Reynolds | β-(1,3)-Glucan Unmasking in Some Candida albicans Mutants Correlates with Increases in Cell Wall Surface Roughness and Decreases in Cell Wall Elasticity | Infection and Immunity | 85(1) |
| 2016 | 10.1073/pnas.1606287113 | Sawaya, M. R., J. Rodriguez, D. Cascio, M. J. Collazo, D. Shi, F. E. Reyes, J. Hattne, T. Gonen and D. S. Eisenberg | Ab initio structure determination from prion nanocrystals at atomic resolution by MicroED | Proceedings of the National Academy of Sciences of the United States of America | 113(40) 11232-11236 |
| 2016 | 10.1128/AEM.02730-15 | Simmons, M. P., S. Sudek, A. Monier, A. J. Limardo, V. Jimenez, C. R. Perle, V. A. Elrod, J. T. Pennington and A. Z. Worden | Abundance and Biogeography of Picoprasinophyte Ecotypes and Other Phytoplankton in the Eastern North Pacific Ocean | Applied and Environmental Microbiology | 82(6) 1693–705 |
| 2016 | 10.1126/science.aaf8818 | Bale, J. B., S. Gonen, Y. Liu, W. Sheffler, D. Ellis, C. Thomas, D. Cascio, T. O. Yeates, T. Gonen, N. P. King and D. Baker | Accurate design of megadalton-scale two-component icosahedral protein complexes | Science | 353(6297) 389-394 |
| 2016 | 10.1371/journal.pone.0159715 | Houtman, C. J., P. Kitin, J. C. Houtman, K. E. Hammel and C. G. Hunt | Acridine Orange Indicates Early Oxidation of Wood Cell Walls by Fungi | PLoS One | 11(7) e0159715 |
| 2016 | 10.1038/ismej.2015.145 | Dekas, A. E., S. A. Connon, G. L. Chadwick, E. Trembath-Reichert and V. J. Orphan | Activity and interactions of methane seep microorganisms assessed by parallel transcription and FISH-NanoSIMS analyses | The ISME Journal | 10(3) 678–92 |
| 2016 | 10.1038/ncomms12860 | Hehemann, J. H., P. Arevalo, M. S. Datta, X. Yu, C. H. Corzett, A. Henschel, S. P. Preheim, S. Timberlake, E. J. Alm and M. F. Polz | Adaptive radiation by waves of gene transfer leads to fine-scale resource partitioning in marine microbes | Nature Communications | 7 12860 |
| 2016 | 10.1111/evo.12973 | Harcombe, W. R., A. Betts, J. W. Shapiro and C. J. Marx | Adding biotic complexity alters the metabolic benefits of mutualism | Evolution | 70(8) 1871–81 |
| 2016 | 10.1016/j.pbi.2016.01.007 | Liu, D., R. Hu, K. J. Palla, G. A. Tuskan and X. Yang | Advances and perspectives on the use of CRISPR/Cas9 systems in plant genomics research | Current Opinion in Plant Biology | 30 70–7 |
| 2016 | 10.1016/j.apenergy.2016.05.100 | Field, J. L., P. Tanger, S. J. Shackley and S. M. Haefele | Agricultural residue gasification for low-cost, low-carbon decentralized power: An empirical case study in Cambodia | Applied Energy | 177 612–24 |
| 2016 | 10.1016/j.plaphy.2016.04.020 | Kim, J., Y. Liu, X. Zhang, B. Zhao and K. L. Childs | Analysis of salt-induced physiological and proline changes in 46 switchgrass (Panicum virgatum) lines indicates multiple response modes | Plant Physiology and Biochemistry | 105 203–12 |
| 2016 | 10.1128/mBio.00976-16 | Xue, K., M. M. Yuan, J. Xie, D. Li, Y. Qin, L. E. Hale, L. Wu, Y. Deng, Z. He, J. D. Van Nostrand, Y. Luo, J. M. Tiedje and J. Zhou | Annual Removal of Aboveground Plant Biomass Alters Soil Microbial Responses to Warming | mBio | 7(5) |
| 2016 | 10.1016/B978-0-444-63475-7.00008-X | Cotten, C. and J. L. Reed | Applications of Constraint-Based Models for Biochemical Production | Biotechnology for Biofuel Production and Optimization | 201-226 |
| 2016 | 10.1126/science.aad7154 | Scheller, S., H. Yu, G. L. Chadwick, S. E. McGlynn and V. J. Orphan | Artificial electron acceptors decouple archaeal methane oxidation from sulfate reduction | Science | 351(6274) 703–7 |
| 2016 | 10.1038/ncomms10373 | Couradeau, E., U. Karaoz, H. C. Lim, U. Nunes da Rocha, T. Northen, E. Brodie and F. Garcia-Pichel | Bacteria increase arid-land soil surface temperature through the production of sunscreens | Nature Communications | 7 10373 |
| 2016 | 10.1007/s10681-016-1672-8 | Arro, J., J. W. Park, C. M. Wai, R. VanBuren, Y. B. Pan, C. Nagai, J. da Silva and R. Ming | Balancing selection contributed to domestication of autopolyploid sugarcane (Saccharum officinarum L.) | Euphytica | 209(2) 477–93 |
| 2016 | 10.1209/0295-5075/116/18007 | Trizac, E. and T. Shen | Bending stiff charged polymers: The electrostatic persistence length | Europhysics Letters | 116(1) |
| 2016 | 10.1093/nar/gkv1049 | King, Z. A., J. Lu, A. Drager, P. Miller, S. Federowicz, J. A. Lerman, A. Ebrahim, B. O. Palsson and N. E. Lewis | BiGG Models: A platform for integrating, standardizing and sharing genome-scale models | Nucleic Acids Research | 44(D1) D515–22 |
| 2016 | 10.1016/j.agee.2016.09.008 | Oates, L. G., D. S. Duncan, G. R. Sanford, C. Liang and R. D. Jackson | Bioenergy cropping systems that incorporate native grasses stimulate growth of plant-associated soil microbes in the absence of nitrogen fertilization | Agriculture, Ecosystems and Environment | 233 396-403 |
| 2016 | 10.1016/j.ymben.2016.01.004 | Li, Z. J., K. Qiao, W. Shi, B. Pereira, H. Zhang, B. D. Olsen and G. Stephanopoulos | Biosynthesis of poly(glycolate-co-lactate-co-3-hydroxybutyrate) from glucose by metabolically engineered Escherichia coli | Metabolic Engineering | 35 45299 |
| 2016 | 10.1016/B978-0-444-63475-7.00009-1 | Halweg-Edwards, A., M. Bassalo, J. Winkler and R. Gill | Biotechnological strategies for advanced biofuel production: enhancing tolerance phenotypes through genome-scale modifications | Biotechnology for Biofuel Production and Optimization | 227–63 |
| 2016 | 10.1101/cshperspect.a024018 | Polka, J. K., S. G. Hays and P. A. Silver | Building Spatial Synthetic Biology with Compartments, Scaffolds, and Communities | Cold Spring Harbor Perspectives in Biology | 8(8) |
| 2016 | 10.1016/j.pbi.2016.04.006 | Ellsworth, P. Z. and A. B. Cousins | Carbon isotopes and water use efficiency in C4 plants | Current Opinion in Plant Biology | 31 155–61 |
| 2016 | 10.3389/fmicb.2016.00491 | Bible, A. N., S. J. Fletcher, D. A. Pelletier, C. W. Schadt, S. S. Jawdy, D. J. Weston, N. L. Engle, T. Tschaplinski, R. Masyuko, S. Polisetti, P. W. Bohn, T. A. Coutinho, M. J. Doktycz and J. L. Morrell-Falvey | A Carotenoid-Deficient Mutant in Pantoea sp. YR343, a Bacteria Isolated from the Rhizosphere of Populus deltoides, Is Defective in Root Colonization | Frontiers in Microbiology | 7 491 |
| 2016 | 10.1016/j.molp.2015.12.020 | Jia, Q. and F. Chen | Catalytic Functions of the Isoprenyl Diphosphate Synthase Superfamily in Plants: A Growing Repertoire | Molecular Plant | 9(2) 189–91 |
| 2016 | 10.1039/c5gc01748c | Bansal, N., A. Bhalla, S. Pattathil, S. L. Adelman, M. G. Hahn, D. B. Hodge and E. L. Hegg | Cell wall-associated transition metals improve alkaline-oxidative pretreatment in diverse hardwoods | Green Chemistry | 18(5) 1405-1415 |
| 2016 | 10.3389/fmicb.2016.01155 | Geng, H., M. B. Tran-Gyamfi, T. W. Lane, K. L. Sale and E. T. Yu | Changes in the Structure of the Microbial Community Associated with Nannochloropsis salina following Treatments with Antibiotics and Bioactive Compounds | Frontiers in Microbiology | 7 1155 |
| 2016 | 10.1038/srep21593 | Zheng, K., X. Wang, D. A. Weighill, H. B. Guo, M. Xie, Y. Yang, J. Yang, S. Wang, D. A. Jacobson, H. Guo, W. Muchero, G. A. Tuskan and J. G. Chen | Characterization of DWARF14 Genes in Populus | Scientific Reports | 6 21593 |
| 2016 | 10.1101/pdb.top086793 | Braff, J. L., S. J. Yaung, K. M. Esvelt and G. M. Church | Characterization of Cas9–guide RNA orthologs | Cold Spring Harbor Protocols | 2016(5) 422-425 |
| 2016 | 10.7717/peerj.1913 | Trembath-Reichert, E., D. H. Case and V. J. Orphan | Characterization of microbial associations with methanotrophic archaea and sulfate-reducing bacteria through statistical comparison of nested Magneto-FISH enrichments | PeerJ | 2016(4) |
| 2016 | 10.1111/jipb.12375 | Scully, E. D., T. Gries, D. L. Funnell-Harris, Z. Xin, F. A. Kovacs, W. Vermerris and S. E. Sattler | Characterization of novel Brown midrib 6 mutations affecting lignin biosynthesis in sorghum | Journal of Integrative Plant Biology | 58(2) 136–49 |
| 2016 | 10.1101/pdb.prot090183 | Braff, J. L., S. J. Yaung, K. M. Esvelt and G. M. Church | Characterizing Cas9 protospacer-adjacent motifs with high-throughput sequencing of library depletion experiments | Cold Spring Harbor Protocols | 2016(5) 474-477 |
| 2016 | 10.1016/j.ijadhadh.2016.05.002 | Yelle, D. J. and J. Ralph | Characterizing phenol-formaldehyde adhesive cure chemistry within the wood cell wall | International Journal of Adhesion and Adhesives | 70 26-36 |
| 2016 | 10.1890/15-0883/suppinfo | Ibáñez, I., D. R. Zak, A. J. Burton and K. S. Pregitzer | Chronic nitrogen deposition alters tree allometric relationships: Implications for biomass production and carbon storage | Ecological Applications | 26(3) 913-925 |
| 2016 | 10.1890/15-0882.1 | Nuccio, E. E., J. Anderson-Furgeson, K. Y. Estera, J. Pett-Ridge, P. De Valpine, E. L. Brodie and M. K. Firestone | Climate and edaphic controllers influence rhizosphere community assembly for a wild annual grass | Ecology | 97(5) 1307–18 |
| 2016 | 10.1128/mBio.02214-15 | Johnson, T. A., R. D. Stedtfeld, Q. Wang, J. R. Cole, S. A. Hashsham, T. Looft, Y. G. Zhu and J. M. Tiedje | Clusters of Antibiotic Resistance Genes Enriched Together Stay Together in Swine Agriculture | mBio | 7(2) e02214–5 |
| 2016 | 10.1002/biot.201600013 | Zhang, H. and G. Stephanopoulos | Co-culture engineering for microbial biosynthesis of 3-amino-benzoic acid in Escherichia coli | Biotechnology Journal | 11(7) 981–7 |
| 2016 | 10.1016/j.ymeth.2016.01.013 | Lohnes, K., N. R. Quebbemann, K. Liu, F. Kobzeff, J. A. Loo and R. R. Ogorzalek Loo | Combining high-throughput MALDI-TOF mass spectrometry and isoelectric focusing gel electrophoresis for virtual 2D gel-based proteomics | Methods | 104 163-169 |
| 2016 | 10.1002/jcc.23982 | Lv, C., E. W. Aitchison, D. Wu, L. Zheng, X. Cheng and W. Yang | Comparative exploration of hydrogen sulfide and water transmembrane free energy surfaces via orthogonal space tempering free energy sampling | Journal of Computational Chemistry | 37(6) 567–74 |
| 2016 | 10.1073/pnas.1603941113 | Riley, R., S. Haridas, K. H. Wolfe, M. R. Lopes, C. T. Hittinger, et al. | Comparative genomics of biotechnologically important yeasts | Proceedings of the National Academy of Sciences of the United States of America | 113(35) 9882-9887 |
| 2016 | 10.1186/s12864-016-3244-7 | Bellora, N., M. Moliné, M. David-Palma, M. A. Coelho, C. T. Hittinger, J. P. Sampaio, P. Gonçalves and D. Libkind | Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma | BMC Genomics | 17(1) |
| 2016 | 10.1016/j.agee.2015.10.018 | Sanford, G. R., L. G. Oates, P. Jasrotia, K. D. Thelen, G. Robertson and R. D. Jackson | Comparative productivity of alternative cellulosic bioenergy cropping systems in the North Central USA | Agriculture, Ecosystems and Environment | 216 344-355 |
| 2016 | 10.3389/fmicb.2016.00191 | Otwell, A. E., S. J. Callister, E. M. Zink, R. D. Smith and R. E. Richardson | Comparative Proteomic Analysis of Desulfotomaculum reducens MI-1: Insights into the Metabolic Versatility of a Gram-Positive Sulfate- and Metal-Reducing Bacterium | Frontiers in Microbiology | 7 191 |
| 2016 | 10.1186/s12864-016-2817-9 | Zhang, J., A. Sharma, Q. Yu, J. Wang, L. Li, L. Zhu, X. Zhang, Y. Chen and R. Ming | Comparative structural analysis of Bru1 region homeologs in Saccharum spontaneum and S. officinarum | BMC Genomics | 17 446 |
| 2016 | 10.1093/nar/gkw055 | Yoneda, A., W. R. Henson, N. K. Goldner, K. J. Park, K. J. Forsberg, S. J. Kim, M. W. Pesesky, M. Foston, G. Dantas and T. S. Moon | Comparative transcriptomics elucidates adaptive phenol tolerance and utilization in lipid-accumulating Rhodococcus opacus PD630 | Nucleic Acids Research | 44(5) 2240–54 |
| 2016 | 10.3389/fmicb.2016.01979 | Brumm, P. J., K. Gowda, F. T. Robb and D. A. Mead | The complete genome sequence of hyperthermophile Dictyoglomus turgidum DSM 6724™ reveals a specialized carbohydrate fermentor | Frontiers in Microbiology | 7(DEC) |
| 2016 | 10.1186/s40793-015-0124-8 | Gunsalus, R. P., L. E. Cook, B. Crable, L. Rohlin, E. McDonald, et al. | Complete genome sequence of Methanospirillum hungatei type strain JF1 | Standards in Genomic Sciences | 11(1) |
| 2016 | 10.1186/s40793-016-0153-y | Brumm, P. J., M. L. Land and D. A. Mead | Complete genome sequences of Geobacillus sp. WCH70, a thermophilic strain isolated from wood compost | Standards in Genomic Sciences | 11(1) |
| 2016 | 10.1021/acs.accounts.6b00204 | Walden, D. M., O. M. Ogba, R. C. Johnston and P. H. Cheong | Computational Insights into the Central Role of Nonbonding Interactions in Modern Covalent Organocatalysis | Accounts of Chemical Research | 49(6) 1279–91 |
| 2016 | 10.1126/scisignal.aaf5034 | Xiao, Z., D. Riccardi, H. A. Velazquez, A. L. Chin, C. R. Yates, J. D. Carrick, J. C. Smith, J. Baudry and L. D. Quarles | A computationally identified compound antagonizes excess FGF-23 signaling in renal tubules and a mouse model of hypophosphatemia | Science Signaling | 9(455) ra113 |
| 2016 | 10.1016/j.biombioe.2015.12.004 | Tumbalam, P., K. D. Thelen, A. Adkins, B. Dale, V. Balan, C. Gunawan and J. Gao | Corn stover ethanol yield as affected by grain yield, Bt trait, and environment | Biomass and Bioenergy | 85 119-125 |
| 2016 | 10.1039/c5gc01952d | Smith, M. D., B. Mostofian, X. Cheng, L. Petridis, C. M. Cai, C. E. Wyman and J. C. Smith | Cosolvent pretreatment in cellulosic biofuel production: effect of tetrahydrofuran-water on lignin structure and dynamics | Green Chemistry | 18(5) 1268–77 |
| 2016 | 10.1016/j.agee.2016.07.003 | Fox, A. F., T. N. Kim, C. A. Bahlai, J. M. Woltz, C. Gratton and D. A. Landis | Cover crops have neutral effects on predator communities and biological control services in annual cellulosic bioenergy cropping systems | Agriculture, Ecosystems and Environment | 232 101-109 |
| 2016 | 10.1016/j.ymben.2016.07.007 | Gordon, G. C., T. C. Korosh, J. C. Cameron, A. L. Markley, M. B. Begemann and B. F. Pfleger | CRISPR interference as a titratable, trans-acting regulatory tool for metabolic engineering in the cyanobacterium Synechococcus sp. strain PCC 7002 | Metabolic Engineering | 38 170-179 |
| 2016 | 10.1002/pro.3050 | Filippova, E. V., Z. Wawrzak, J. Ruan, S. Pshenychnyi, R. M. Schultz, A. J. Wolfe and W. F. Anderson | Crystal structure of nonphosphorylated receiver domain of the stress response regulator RcsB from Escherichia coli | Protein Science | 25(12) 2216–24 |
| 2016 | 10.1371/journal.pone.0167763 | Kattke, M. D., A. H. Chan, A. Duong, D. L. Sexton, M. R. Sawaya, D. Cascio, M. A. Elliot and R. T. Clubb | Crystal structure of the Streptomyces coelicolor sortase E1 transpeptidase provides insight into the binding mode of the novel class e sorting signal | PLoS ONE | 11(12) |
| 2016 | 10.3389/fmicb.2016.01221 | Bird, J. T., B. J. Baker, A. J. Probst, M. Podar and K. G. Lloyd | Culture Independent Genomic Comparisons Reveal Environmental Adaptations for Altiarchaeales | Frontiers in Microbiology | 7 1221 |
| 2016 | 10.1016/j.mimet.2016.09.013 | Nelson, C. E., N. R. Beri and J. G. Gardner | Custom fabrication of biomass containment devices using 3-D printing enables bacterial growth analyses with complex insoluble substrates | Journal of Microbiological Methods | 130 136–43 |
| 2016 | 10.1038/ismej.2015.180 | Stuart, R. K., X. Mayali, J. Z. Lee, R. Craig Everroad, M. Hwang, B. M. Bebout, P. K. Weber, J. Pett-Ridge and M. P. Thelen | Cyanobacterial reuse of extracellular organic carbon in microbial mats | The ISME Journal | 10(5) 1240–51 |
| 2016 | 10.1038/nature19825 | Colletier, J. P., M. R. Sawaya, M. Gingery, J. A. Rodriguez, D. Cascio, et al. | De novo phasing with X-ray laser reveals mosquito larvicide BinAB structure | Nature | 539(7627) 43-47 |
| 2016 | 10.1155/2016/4182071 | Nourbakhsh-Rey, M. and M. Libault | Decipher the Molecular Response of Plant Single Cell Types to Environmental Stresses | Biomed Research International | 2016 4182071 |
| 2016 | 10.1038/srep21471 | Chen, C. L., A. Mahjoubfar, L. C. Tai, I. K. Blaby, A. Huang, K. R. Niazi and B. Jalali | Deep Learning in Label-free Cell Classification | Scientific Reports | 6 |
| 2016 | 10.1042/BSR20160277 | Bansal, S. and T. P. Durrett | Defining the extreme substrate specificity of Euonymus alatus diacylglycerol acetyltransferase, an unusual membrane-bound O-Acyltransferase | Bioscience Reports | 36(6) |
| 2016 | 10.1093/femsyr/fow041 | Kurtzman, C. P., C. J. Robnett and M. Blackwell | Description of Teunomyces gen. nov. for the Candida kruisii clade, Suhomyces gen. nov. for the Candida tanzawaensis clade and Suhomyces kilbournensis sp. nov | FEMS Yeast Research | 16(5) |
| 2016 | 10.1021/acs.iecr.5b03677 | Ng, R. T. L. and C. T. Maravelias | Design of Cellulosic Ethanol Supply Chains with Regional Depots | Industrial and Engineering Chemistry Research | 55(12) 3420-3432 |
| 2016 | 10.1126/science.aaf3639 | Ostrov, N., M. Landon, M. Guell, G. Kuznetsov, J. Teramoto, et al. | Design, synthesis, and testing toward a 57-codon genome | Science | 353(6301) 819–22 |
| 2016 | 10.1016/j.copbio.2015.10.009 | Mottiar, Y., R. Vanholme, W. Boerjan, J. Ralph and S. D. Mansfield | Designer lignins: Harnessing the plasticity of lignification | Current Opinion in Biotechnology | 37 190-200 |
| 2016 | 10.1126/sciadv.1501855 | Lai, Y. T., G. L. Hura, K. N. Dyer, H. Y. H. Tang, J. A. Tainer and T. O. Yeates | Designing and defining dynamic protein cage nanoassemblies in solution | Science Advances | 2(12) |
| 2016 | 10.1128/AEM.00243-16 | Higgins, S. A., A. Welsh, L. H. Orellana, K. T. Konstantinidis, J. C. Chee-Sanford, R. A. Sanford, C. W. Schadt and F. E. Löffler | Detection and diversity of fungal nitric oxide reductase genes (p450nor) in agricultural soils | Applied and Environmental Microbiology | 82(10) 2919-2928 |
| 2016 | 10.1016/j.soilbio.2016.02.002 | Duncan, D. S., K. A. Jewell, G. Suen and R. D. Jackson | Detection of short-term cropping system-induced changes to soil bacterial communities differs among four molecular characterization methods | Soil Biology and Biochemistry | 96 160-168 |
| 2016 | 10.1126/sciadv.1600886 | Hong, L., N. Jain, X. Cheng, A. Bernal, M. Tyagi and J. C. Smith | Determination of functional collective motions in a protein at atomic resolution using coherent neutron scattering | Science Advances | 2(10) e1600886 |
| 2016 | 10.1128/JB.01025-15 | Spero, M. A., J. R. Brickner, J. T. Mollet, T. Pisithkul, D. Amador-Noguez and T. J. Donohue | Different functions of phylogenetically distinct bacterial complex I isozymes | Journal of Bacteriology | 198(8) 1268-1280 |
| 2016 | 10.1016/j.copbio.2016.03.016 | Bassalo, M. C., R. Liu and R. T. Gill | Directed evolution and synthetic biology applications to microbial systems | Current Opinion in Biotechnology | 39 126–33 |
| 2016 | 10.1021/acs.jcim.5b00596 | Kapoor, K., N. McGill, C. B. Peterson, H. V. Meyers, M. N. Blackburn and J. Baudry | Discovery of Novel Nonactive Site Inhibitors of the Prothrombinase Enzyme Complex | Journal of Chemical Information and Modeling | 56(3) 535–47 |
| 2016 | 10.1016/j.ijhydene.2016.01.003 | McCully, A. L. and J. B. McKinlay | Disrupting Calvin cycle phosphoribulokinase activity in Rhodopseudomonas palustris increases the H2 yield and specific production rate proportionately | International Journal of Hydrogen Energy | 41(7) 4143–9 |
| 2016 | 10.1007/s00248-015-0659-7 | Tu, Q., X. Zhou, Z. He, K. Xue, L. Wu, P. Reich, S. Hobbie and J. Zhou | The Diversity and Co-occurrence Patterns of N2-Fixing Communities in a CO2-Enriched Grassland Ecosystem | Microbial Ecology | 71(3) 604–15 |
| 2016 | 10.1128/AEM.02612-15 | Jun, S. R., T. M. Wassenaar, I. Nookaew, L. Hauser, V. Wanchai, M. Land, C. M. Timm, T. Y. Lu, C. W. Schadt, M. J. Doktycz, D. A. Pelletier and D. W. Ussery | Diversity of Pseudomonas Genomes, Including Populus-Associated Isolates, as Revealed by Comparative Genome Analysis | Applied and Environmental Microbiology | 82(1) 375–83 |
| 2016 | 10.1002/bip.22924 | Lindsay, R. J., Q. R. Johnson, W. Evangelista, R. B. Nellas and T. Shen | DMSO enhanced conformational switch of an interfacial enzyme | Biopolymers | 105(12) 864–72 |
| 2016 | 10.3389/fpls.2016.01455 | Kalluri, U. C., R. S. Payyavula, J. L. Labbe, N. Engle, G. Bali, S. S. Jawdy, R. W. Sykes, M. Davis, A. Ragauskas, G. A. Tuskan and T. J. Tschaplinski | Down-Regulation of KORRIGAN-Like Endo-β-1,4-Glucanase Genes Impacts Carbon Partitioning, Mycorrhizal Colonization and Biomass Production in Populus | Frontiers in Plant Science | 7 1455 |
| 2016 | 10.1105/tpc.16.00353 | Hirsch, C. N., C. D. Hirsch, A. B. Brohammer, M. J. Bowman, I. Soifer, et al. | Draft assembly of elite inbred line PH207 provides insights into genomic and transcriptome diversity in maize | Plant Cell | 28(11) 2700-2714 |
| 2016 | 10.1038/srep33655 | Xue, L. J., C. J. Frost, C. J. Tsai and S. A. Harding | Drought response transcriptomes are altered in poplar with reduced tonoplast sucrose transporter expression | Scientific Reports | 6 33655 |
| 2016 | 10.1101/gr.198135.115 | Lovell, J. T., S. Schwartz, D. B. Lowry, E. V. Shakirov, J. E. Bonnette, X. Weng, M. Wang, J. Johnson, A. Sreedasyam, C. Plott, J. Jenkins, J. Schmutz and T. E. Juenger | Drought responsive gene expression regulatory divergence between upland and lowland ecotypes of a perennial C4 grass | Genome Research | 26(4) 510–8 |
| 2016 | 10.1051/matecconf/20168002007 | Akpama, H. K., M. B. Bettaieb and F. Abed-Meraim | Ductility prediction of substrate-supported metal layers based on rate-independent crystal plasticity theory | MATEC Web of Conferences | 80 |
| 2016 | 10.1093/molbev/msw073 | Wisecaver, J. H., W. G. Alexander, S. B. King, C. Todd Hittinger and A. Rokas | Dynamic Evolution of Nitric Oxide Detoxifying Flavohemoglobins, a Family of Single-Protein Metabolic Modules in Bacteria and Eukaryotes | Molecular Biology and Evolution | 33(8) 1979-1987 |
| 2016 | 10.1126/science.aad1431 | Solomon, K. V., C. H. Haitjema, J. K. Henske, S. P. Gilmore, D. Borges-Rivera, A. Lipzen, H. M. Brewer, S. O. Purvine, A. T. Wright, M. K. Theodorou, I. V. Grigoriev, A. Regev, D. A. Thompson and M. A. O'Malley | Early-branching gut fungi possess a large, comprehensive array of biomass-degrading enzymes | Science | 351(6278) 1192–5 |
| 2016 | 10.1093/aob/mcw137 | Clark, L. V., E. Dzyubenko, N. Dzyubenko, L. Bagmet, A. Sabitov, et al. | Ecological characteristics and in situ genetic associations for yield-component traits of wild Miscanthus from eastern Russia | Annals of Botany | 118(5) 941–55 |
| 2016 | 10.1007/s10021-016-9981-2 | Abraha, M., I. Gelfand, S. K. Hamilton, C. Shao, Y. J. Su, G. P. Robertson and J. Chen | Ecosystem Water-Use Efficiency of Annual Corn and Perennial Grasslands: Contributions from Land-Use History and Species Composition | Ecosystems | 19(6) 1001-1012 |
| 2016 | 10.1038/ncomms12662 | Peter, M., A. Kohler, R. A. Ohm, A. Kuo, J. Krutzmann, et al. | Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum | Nature Communications | 7 12662 |
| 2016 | 10.1186/s13068-016-0442-0 | Bhalla, A., N. Bansal, R. J. Stoklosa, M. Fountain, J. Ralph, D. B. Hodge and E. L. Hegg | Effective alkaline metal-catalyzed oxidative delignification of hybrid poplar | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1016/j.coviro.2016.06.008 | Malmstrom, C. M. and H. M. Alexander | Effects of crop viruses on wild plants | Current Opinion in Virology | 19 30-36 |
| 2016 | 10.1016/j.fgb.2015.11.002 | Alexander, W. G., D. Peris, B. T. Pfannenstiel, D. A. Opulente, M. Kuang and C. T. Hittinger | Efficient engineering of marker-free synthetic allotetraploids of Saccharomyces | Fungal Genetics and Biology | 89 45582 |
| 2016 | 10.1039/C5RA23519G | Tang, Y., Y. Zhang, J. N. Rosenberg, N. Sharif, M. J. Betenbaugh and F. Wang | Efficient lipid extraction and quantification of fatty acids from algal biomass using accelerated solvent extraction (ASE) | RSC Advances | 6(35) 29127-29134 |
| 2016 | 10.3732/apps.1600031 | Carlson, C. H. and L. B. Smart | Electrical capacitance as a predictor of root dry weight in shrub willow (Salix; Salicaceae) parents and progeny | Applications in Plant Sciences | 4(8) |
| 2016 | 10.1016/j.gca.2016.05.015 | Hodgkins, S. B., M. M. Tfaily, D. C. Podgorski, C. K. McCalley, S. R. Saleska, P. M. Crill, V. I. Rich, J. P. Chanton and W. T. Cooper | Elemental composition and optical properties reveal changes in dissolved organic matter along a permafrost thaw chronosequence in a subarctic peatland | Geochimica et Cosmochimica Acta | 187 123–40 |
| 2016 | 10.1111/gcb.13098 | Deng, Y., Z. He, J. Xiong, H. Yu, M. Xu, S. E. Hobbie, P. B. Reich, C. W. Schadt, A. Kent, E. Pendall, M. Wallenstein and J. Zhou | Elevated carbon dioxide accelerates the spatial turnover of soil microbial communities | Global Change Biology | 22(2) 957–64 |
| 2016 | 10.1071/FP15244 | Schneebeli, K., U. Mathesius, A. B. Zwart, J. N. Bragg, J. P. Vogel and M. Watt | Brachypodium distachyon genotypes vary in resistance to Rhizoctonia solani AG8 | Functional Plant Biology | 43(2) 189–98 |
| 2016 | 10.1016/j.biochi.2015.06.009 | Bansal, S. and T. P. Durrett | Camelina sativa: An ideal platform for the metabolic engineering and field production of industrial lipids | Biochimie | 120 9–16 |
| 2016 | 10.3389/fmicb.2016.01894 | Penton, C. R., C. Yang, L. Wu, Q. Wang, J. Zhang, F. Liu, Y. Qin, Y. Deng, C. L. Hemme, T. Zheng, E. A. Schuur, J. Tiedje and J. Zhou | NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient | Frontiers in Microbiology | 7 1894 |
| 2016 | 10.1016/j.algal.2016.06.020 | Gallina, A. A., M. Layer, Z. A. King, J. Levering, B. O. Palsson, K. Zengler and G. Peers | A Phaeodactylum tricornutum literature database for interactive annotation of content | Algal Research | 18 241–3 |
| 2016 | 10.3389/fmolb.2016.00070 | Liu, Y., J. Miao, S. Traore, D. Kong, Y. Liu, X. Zhang, Z. L. Nimchuk, Z. Liu and B. Zhao | SacB-SacR Gene Cassette As the Negative Selection Marker to Suppress Agrobacterium Overgrowth in Agrobacterium-Mediated Plant Transformation | Frontiers in Molecular Biosciences | 3 70 |
| 2016 | 10.1111/nph.13993 | Kostka, J. E., D. J. Weston, J. B. Glass, E. A. Lilleskov, A. J. Shaw and M. R. Turetsky | The Sphagnum microbiome: new insights from an ancient plant lineage | New Phytologist | 211(1) 57–64 |
| 2016 | 10.1073/pnas.1605856113 | Napolitano, M. G., M. Landon, C. J. Gregg, M. J. Lajoie, L. Govindarajan, J. A. Mosberg, G. Kuznetsov, D. B. Goodman, O. Vargas-Rodriguez, F. J. Isaacs, D. Soll and G. M. Church | Emergent rules for codon choice elucidated by editing rare arginine codons in Escherichia coli | Proceedings of the National Academy of Sciences of the United States of America | 113(38) E5588–97 |
| 2016 | 10.1016/j.pbi.2016.03.019 | Hartwell, J., L. V. Dever and S. F. Boxall | Emerging model systems for functional genomics analysis of Crassulacean acid metabolism | Current Opinion in Plant Biology | 31 100–8 |
| 2016 | 10.1016/j.foodhyd.2015.07.018 | Xiang, Z. and T. Runge | Emulsifying properties of succinylated arabinoxylan-protein gum produced from corn ethanol residuals | Food Hydrocolloids | 52 423-430 |
| 2016 | 10.1021/acs.analchem.6b02479 | Broeckling, C. D., A. Ganna, M. Layer, K. Brown, B. Sutton, E. Ingelsson, G. Peers and J. E. Prenni | Enabling Efficient and Confident Annotation of LC-MS Metabolomics Data through MS1 Spectrum and Time Prediction | Analytical Chemistry | 88(18) 9226–34 |
| 2016 | 10.1039/c6gc02297a | Motagamwala, A. H., W. Won, C. T. Maravelias and J. A. Dumesic | An engineered solvent system for sugar production from lignocellulosic biomass using biomass derived γ-valerolactone | Green Chemistry | 18(21) 5756-5763 |
| 2016 | 10.1073/pnas.1607295113 | Xu, P., K. Qiao, W. S. Ahn and G. Stephanopoulos | Engineering Yarrowia lipolytica as a platform for synthesis of drop-in transportation fuels and oleochemicals | Proceedings of the National Academy of Sciences of the United States of America | 113(39) 10848–53 |
| 2016 | 10.1016/j.ymben.2016.10.017 | Kirby, J., K. L. Dietzel, G. Wichmann, R. Chan, E. Antipov, et al. | Engineering a functional 1-deoxy-D-xylulose 5-phosphate (DXP) pathway in Saccharomyces cerevisiae | Metabolic Engineering | 38 494–503 |
| 2016 | 10.1002/bit.25717 | Pereira, B., H. Zhang, M. De Mey, C. G. Lim, Z. J. Li and G. Stephanopoulos | Engineering a novel biosynthetic pathway in Escherichia coli for production of renewable ethylene glycol | Biotechnology and Bioengineering | 113(2) 376–83 |
| 2016 | 10.1038/nmeth.3696 | Taylor, N. D., A. S. Garruss, R. Moretti, S. Chan, M. A. Arbing, D. Cascio, J. K. Rogers, F. J. Isaacs, S. Kosuri, D. Baker, S. Fields, G. M. Church and S. Raman | Engineering an allosteric transcription factor to respond to new ligands | Nature Methods | 13(2) 177–83 |
| 2016 | 10.1021/acssynbio.6b00115 | Brown, M. E., A. Mukhopadhyay and J. D. Keasling | Engineering Bacteria to Catabolize the Carbonaceous Component of Sarin: Teaching E. coli to Eat Isopropanol | ACS Synthetic Biology | 5(12) 1485–96 |
| 2016 | 10.1016/B978-0-444-63475-7.00001-7 | Immethun, C. M., W. R. Henson, X. Wang, D. R. Nielsen and T. S. Moon | Engineering Central Metabolism for Production of Higher Alcohol-based Biofuels | Biotechnology for Biofuel Production and Optimization | 1–34 |
| 2016 | 10.1039/c5cp07088k | Smith, M. D., L. Petridis, X. Cheng, B. Mostofian and J. C. Smith | Enhanced sampling simulation analysis of the structure of lignin in the THF-water miscibility gap | Physical Chemistry Chemical Physics | 18(9) 6394–8 |
| 2016 | 10.1038/ncomms11989 | Cai, Y., K. Zhang, H. Kim, G. Hou, X. Zhang, H. Yang, H. Feng, L. Miller, J. Ralph and C. J. Liu | Enhancing digestibility and ethanol yield of Populus wood via expression of an engineered monolignol 4-O-methyltransferase | Nature Communications | 7 |
| 2016 | 10.1128/AEM.01285-16 | Utturkar, S. M., W. N. Cude, M. S. Robeson, Jr., Z. K. Yang, D. M. Klingeman, M. L. Land, S. L. Allman, T. Y. Lu, S. D. Brown, C. W. Schadt, M. Podar, M. J. Doktycz and D. A. Pelletier | Enrichment of Root Endophytic Bacteria from Populus deltoides and Single-Cell-Genomics Analysis | Applied and Environmental Microbiology | 82(18) 5698–708 |
| 2016 | 10.1016/j.bmc.2016.07.064 | Evangelista, W., R. L. Weir, S. R. Ellingson, J. B. Harris, K. Kapoor, J. C. Smith and J. Baudry | Ensemble-based docking: From hit discovery to metabolism and toxicity predictions | Bioorganic & Medicinal Chemistry | 24(20) 4928–35 |
| 2016 | 10.7287/peerj.preprints.1900v1 | Rodriguez-R, L. M. and K. T. Konstantinidis | The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes | PeerJ Preprints | 4 e1900v1 |
| 2016 | 10.3389/fenrg.2016.00036 | Al Abdallah, Q., B. T. Nixon and J. R. Fortwendel | The Enzymatic Conversion of Major Algal and Cyanobacterial Carbohydrates to Bioethanol | Frontiers in Energy Research | 4 36 |
| 2016 | 10.1016/j.algal.2016.02.019 | De-Bashan, L. E., X. Mayali, B. M. Bebout, P. K. Weber, A. M. Detweiler, J. P. Hernandez, L. Prufert-Bebout and Y. Bashan | Establishment of stable synthetic mutualism without co-evolution between microalgae and bacteria demonstrated by mutual transfer of metabolites (NanoSIMS isotopic imaging) and persistent physical association (Fluorescent in situ hybridization) | Algal Research | 15 179–86 |
| 2016 | 10.1007/s11104-016-2897-y | Wang, M. M., S. P. Wang, L. W. Wu, D. P. Xu, Q. Y. Lin, Y. G. Hu, X. Z. Li, J. Z. Zhou and Y. F. Yang | Evaluating the lingering effect of livestock grazing on functional potentials of microbial communities in Tibetan grassland soils | Plant and Soil | 407(1–2) 385–99 |
| 2016 | 10.1016/j.talanta.2016.01.062 | Wang, M., P. Z. Ellsworth, J. Zhou, A. B. Cousins and S. Sankaran | Evaluation of water-use efficiency in foxtail millet (Setaria italica) using visible-near infrared and thermal spectral sensing techniques | Talanta | 152 531–9 |
| 2016 | 10.3389/fmicb.2016.01874 | Chase, A. B., P. Arevalo, M. F. Polz, R. Berlemont and J. B. Martiny | Evidence for Ecological Flexibility in the Cosmopolitan Genus Curtobacterium | Frontiers in Microbiology | 7 1874 |
| 2016 | 10.1210/en.2015-2010 | Pi, M., K. Kapoor, R. Ye, S. K. Nishimoto, J. C. Smith, J. Baudry and L. D. Quarles | Evidence for Osteocalcin Binding and Activation of GPRC6A in β-Cells | Endocrinology | 157(5) 1866–80 |
| 2016 | 10.1038/ismej.2016.83 | Raveh-Sadka, T., B. Firek, I. Sharon, R. Baker, C. T. Brown, B. C. Thomas, M. J. Morowitz and J. F. Banfield | Evidence for persistent and shared bacterial strains against a background of largely unique gut colonization in hospitalized premature infants | The ISME Journal | 10(12) 2817–30 |
| 2016 | 10.1186/s12864-016-2585-6 | van Baren, M. J., C. Bachy, E. N. Reistetter, S. O. Purvine, J. Grimwood, et al. | Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants | BMC Genomics | 17 267 |
| 2016 | 10.1186/s13068-016-0630-y | Hollinshead, W. D., S. Rodriguez, H. G. Martin, G. Wang, E. E. Baidoo, K. L. Sale, J. D. Keasling, A. Mukhopadhyay and Y. J. Tang | Examining Escherichia coli glycolytic pathways, catabolite repression, and metabolite channeling using Δpfk mutants | Biotechnology for Biofuels | 9 212 |
| 2016 | 10.1007/978-3-319-46326-1_5 | Lubbe, A. and T. Northen | Exometabolomics for Linking Soil Carbon Dynamics to Microbial Communities | Microbial Metabolomics: Applications in Clinical, Environmental, and Industrial Microbiology | 119–45 |
| 2016 | 10.1021/acs.jafc.6b04273 | Gao, R., F. Lu, Y. Zhu, M. G. Hahn and J. Ralph | Flexible Method for Conjugation of Phenolic Lignin Model Compounds to Carrier Proteins | Journal of Agricultural and Food Chemistry | 64(41) 7782–8 |
| 2016 | 10.1186/s13068-016-0660-5 | Bhagia, S., H. Li, X. Gao, R. Kumar and C. E. Wyman | Flowthrough pretreatment with very dilute acid provides insights into high lignin contribution to biomass recalcitrance | Biotechnology for Biofuels | 9 245 |
| 2016 | 10.1126/science.aaf7810 | Shuai, L., M. T. Amiri, Y. M. Questell-Santiago, F. Héroguel, Y. Li, H. Kim, R. Meilan, C. Chapple, J. Ralph and J. S. Luterbacher | Formaldehyde stabilization facilitates lignin monomer production during biomass depolymerization | Science | 354(6310) 329-333 |
| 2016 | 10.1093/femsle/fnw020 | Chen, C. T. and J. C. Liao | Frontiers in microbial 1-butanol and isobutanol production | FEMS Microbiology Letters | 363(5) fnw020 |
| 2016 | 10.1038/nrmicro.2016.32 | Liao, J. C., L. Mi, S. Pontrelli and S. Luo | Fuelling the future: microbial engineering for the production of sustainable biofuels | Nature Reviews Microbiology | 14(5) 288–304 |
| 2016 | 10.1007/s00253-016-7376-0 | Silverman, A. M., K. Qiao, P. Xu and G. Stephanopoulos | Functional overexpression and characterization of lipogenesis-related genes in the oleaginous yeast Yarrowia lipolytica | Applied Microbiology and Biotechnology | 100(8) 3781–98 |
| 2016 | 10.1111/mec.13872 | Khadempour, L., K. E. Burnum-Johnson, E. S. Baker, C. D. Nicora, B. J. M. Webb-Robertson, R. A. White, M. E. Monroe, E. L. Huang, R. D. Smith and C. R. Currie | The fungal cultivar of leaf-cutter ants produces specific enzymes in response to different plant substrates | Molecular Ecology | 25(22) 5795-5805 |
| 2016 | 10.3852/14-293 | Deshpande, V., Q. Wang, P. Greenfield, M. Charleston, A. Porras-Alfaro, C. R. Kuske, J. R. Cole, D. J. Midgley and N. Tran-Dinh | Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences | Mycologia | 108(1) 1–5 |
| 2016 | 10.3389/fmicb.2016.00238 | Mosier, A. C., C. S. Miller, K. R. Frischkorn, R. A. Ohm, Z. Li, et al. | Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage | Frontiers in Microbiology | 7 238 |
| 2016 | 10.1111/tpj.13233 | Zhang, M., X. Cao, Q. Jia and J. Ohlrogge | FUSCA3 activates triacylglycerol accumulation in Arabidopsis seedlings and tobacco BY2 cells | Plant Journal | 88(1) 95-107 |
| 2016 | 10.1002/prot.24996 | Miao, Y., J. Baudry, J. C. Smith and J. A. McCammon | General trends of dihedral conformational transitions in a globular protein | Proteins | 84(4) 501–14 |
| 2016 | 10.1534/g3.116.032763 | Milano, E. R., D. B. Lowry and T. E. Juenger | The Genetic Basis of Upland/Lowland Ecotype Divergence in Switchgrass (Panicum virgatum) | G3 Genes|Genomes|Genetics | 6(11) 3561–70 |
| 2016 | 10.3589/fmicb.2016.00880 | Diner, R. E., S. M. Schwenck, J. P. McCrow, H. Zheng and A. E. Allen | Genetic Manipulation of Competition for Nitrate between Heterotrophic Bacteria and Diatoms | Frontiers in Microbiology | 7 |
| 2016 | 10.1186/s13068-016-0670-3 | Traller, J. C., S. J. Cokus, D. A. Lopez, O. Gaidarenko, S. R. Smith, et al. | Genome and methylome of the oleaginous diatom Cyclotella cryptica reveal genetic flexibility toward a high lipid phenotype | Biotechnology for Biofuels | 9 258 |
| 2016 | 10.1128/AEM.00611-16 | Tai, V., K. J. Carpenter, P. K. Weber, C. A. Nalepa, S. J. Perlman and P. J. Keeling | Genome Evolution and Nitrogen Fixation in Bacterial Ectosymbionts of a Protist Inhabiting Wood-Feeding Cockroaches | Applied and Environmental Microbiology | 82(15) 4682–95 |
| 2016 | 10.1128/mBio.01669-15 | Hu, P., L. Tom, A. Singh, B. C. Thomas, B. J. Baker, Y. M. Piceno, G. L. Andersen and J. F. Banfield | Genome-Resolved Metagenomic Analysis Reveals Roles for Candidate Phyla and Other Microbial Community Members in Biogeochemical Transformations in Oil Reservoirs | mBio | 7(1) e01669-15 |
| 2016 | 10.1038/ncomms13806 | Khodayari, A. and C. D. Maranas | A genome-scale Escherichia coli kinetic metabolic model k-ecoli457 satisfying flux data for multiple mutant strains | Nature Communications | 7 13806 |
| 2016 | 10.1104/pp.16.00593 | Zuniga, C., C. T. Li, T. Huelsman, J. Levering, D. C. Zielinski, B. O. McConnell, C. P. Long, E. P. Knoshaug, M. T. Guarnieri, M. R. Antoniewicz, M. J. Betenbaugh and K. Zengler | Genome-Scale Metabolic Model for the Green Alga Chlorella vulgaris UTEX 395 Accurately Predicts Phenotypes under Autotrophic, Heterotrophic, and Mixotrophic Growth Conditions | Plant Physiology | 172(1) 589–602 |
| 2016 | 10.1002/bit.25863 | Irani, Z. A., E. J. Kerkhoven, S. A. Shojaosadati and J. Nielsen | Genome-scale metabolic model of Pichia pastoris with native and humanized glycosylation of recombinant proteins | Biotechnology and Bioengineering | 113(5) 961–9 |
| 2016 | 10.1371/journal.pone.0155038 | Levering, J., J. Broddrick, C. L. Dupont, G. Peers, K. Beeri, J. Mayers, A. A. Gallina, A. E. Allen, B. O. Palsson and K. Zengler | Genome-Scale Model Reveals Metabolic Basis of Biomass Partitioning in a Model Diatom | PLoS One | 11(5) e0155038 |
| 2016 | 10.1186/s12864-016-3026-2 | Yang, Y., J. Labbe, W. Muchero, X. Yang, S. S. Jawdy, M. Kennedy, J. Johnson, A. Sreedasyam, J. Schmutz, G. A. Tuskan and J. G. Chen | Genome-wide analysis of lectin receptor-like kinases in Populus | BMC Genomics | 17(1) 699 |
| 2016 | 10.1186/s12864-016-3219-8 | Peterson, J. R., S. Thor, L. Kohler, P. R. Kohler, W. W. Metcalf and Z. Luthey-Schulten | Genome-wide gene expression and RNA half-life measurements allow predictions of regulation and metabolic behavior in Methanosarcina acetivorans | BMC Genomics | 17(1) 924 |
| 2016 | 10.1186/s12864-016-3286-x | Gregory, A. C., S. A. Solonenko, J. C. Ignacio-Espinoza, K. LaButti, A. Copeland, S. Sudek, A. Maitland, L. Chittick, F. Dos Santos, J. S. Weitz, A. Z. Worden, T. Woyke and M. B. Sullivan | Genomic differentiation among wild cyanophages despite widespread horizontal gene transfer | BMC Genomics | 17(1) 930 |
| 2016 | 10.1016/j.cels.2016.06.009 | Ma, N. J. and F. J. Isaacs | Genomic Recoding Broadly Obstructs the Propagation of Horizontally Transferred Genetic Elements | Cell Systems | 3(2) 199–207 |
| 2016 | 10.1038/ncomms12115 | Wurch, L., R. J. Giannone, B. S. Belisle, C. Swift, S. Utturkar, R. L. Hettich, A. L. Reysenbach and M. Podar | Genomics-informed isolation and characterization of a symbiotic Nanoarchaeota system from a terrestrial geothermal environment | Nature Communications | 7 12115 |
| 2016 | 10.1038/ismej.2015.265 | Kent, A. G., C. L. Dupont, S. Yooseph and A. C. Martiny | Global biogeography of Prochlorococcus genome diversity in the surface ocean | The ISME Journal | 10(8) 1856–65 |
| 2016 | 10.1007/s10570-015-0828-3 | Xiang, Z., R. Anthony, W. Lan and T. Runge | Glutaraldehyde crosslinking of arabinoxylan produced from corn ethanol residuals | Cellulose | 23(1) 307-321 |
| 2016 | 10.1105/tpc.16.00182 | Feng, W., H. Lindner, N. E. Robbins, 2nd and J. R. Dinneny | Growing Out of Stress: The Role of Cell- and Organ-Scale Growth Control in Plant Water-Stress Responses | The Plant Cell | 28(8) 1769–82 |
| 2016 | 10.1089/3dp.2016.0027 | Bader, C., W. G. Patrick, D. Kolb, S. G. Hays, S. Keating, S. Sharma, D. Dikovsky, B. Belocon, J. C. Weaver, P. A. Silver and N. Oxman | Grown, Printed, and Biologically Augmented: An Additively Manufactured Microfluidic Wearable, Functionally Templated for Synthetic Microbes | 3D Printing and Additive Manufacturing | 3(2) 79–89 |
| 2016 | 10.1021/acschembio.6b00324 | Villareal, V. A., D. Fu, D. A. Costello, X. S. Xie and P. L. Yang | Hepatitis C Virus Selectively Alters the Intracellular Localization of Desmosterol | ACS Chemical Biology | 11(7) 1827–33 |
| 2016 | 10.1111/gcbb.12275 | Liu, S. Y., L. V. Clark, K. Swaminathan, J. M. Gifford, J. A. Juvik and E. J. Sacks | High-density genetic map of Miscanthus sinensis reveals inheritance of zebra stripe | GCB Bioenergy | 8(3) 616–30 |
| 2016 | 10.1021/acs.jpcb.6b02839 | Arbelo-Lopez, H. D., N. A. Simakov, J. C. Smith, J. Lopez-Garriga and T. Wymore | Homolytic Cleavage of Both Heme-Bound Hydrogen Peroxide and Hydrogen Sulfide Leads to the Formation of Sulfheme | Journal of Physical Chemistry B | 120(30) 7319–31 |
| 2016 | 10.1073/pnas.1517242113 | Alexander, W. G., J. H. Wisecaver, A. Rokas and C. T. Hittinger | Horizontally acquired genes in early-diverging pathogenic fungi enable the use of host nucleosides and nucleotides | Proceedings of the National Academy of Sciences of the United States of America | 113(15) 4116-4121 |
| 2016 | 10.1016/j.bbalip.2016.01.022 | Simpson, J. P., N. Thrower and J. B. Ohlrogge | How did nature engineer the highest surface lipid accumulation among plants? Exceptional expression of acyl-lipid-associated genes for the assembly of extracellular triacylglycerol by Bayberry (Myrica pensylvanica) fruits | Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids | 1861(9) 1243-1252 |
| 2016 | 10.1007/978-1-4939-3369-3_11 | Van Nostrand, J. D., H. Yin, L. Wu, T. Yuan and J. Zhou | Hybridization of Environmental Microbial Community Nucleic Acids by GeoChip | Microbial Environmental Genomics (MEG) | 1399 183–96 |
| 2016 | 10.3389/fpls.2016.01143 | Chiang, C. P., W. C. Yim, Y. H. Sun, M. Ohnishi, T. Mimura, J. C. Cushman and H. E. Yen | Identification of Ice Plant (Mesembryanthemum crystallinum L.) MicroRNAs Using RNA-Seq and Their Putative Roles in High Salinity Responses in Seedlings | Frontiers in Plant Science | 7 1143 |
| 2016 | 10.1021/acs.estlett.6b00460 | Chen, H., R. C. Johnston, B. F. Mann, R. K. Chu, N. Tolic, J. M. Parks and B. Gu | Identification of Mercury and Dissolved Organic Matter Complexes Using Ultrahigh Resolution Mass Spectrometry | Environmental Science & Technology Letters | 4(2) 59–65 |
| 2016 | 10.1371/journal.pone.0155839 | Waltman, P. H., J. Guo, E. N. Reistetter, S. Purvine, C. K. Ansong, M. J. van Baren, C. H. Wong, C. L. Wei, R. D. Smith, S. J. Callister, J. M. Stuart and A. Z. Worden | Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla | PLoS One | 11(7) e0155839 |
| 2016 | 10.1016/j.geoderma.2016.07.020 | Cui, L., C. Liang, D. S. Duncan, X. Bao, H. Xie, H. He, K. Wickings, X. Zhang and F. Chen | Impacts of vegetation type and climatic zone on neutral sugar distribution in natural forest soils | Geoderma | 282 139-146 |
| 2016 | 10.1016/j.scitotenv.2016.06.238 | Yang, Q. and X. Zhang | Improving SWAT for simulating water and carbon fluxes of forest ecosystems | Science of the Total Environment | 569-570 1478-1488 |
| 2016 | 10.1534/g3.116.034249 | Zhou, X., D. Peris, J. Kominek, C. P. Kurtzman, C. T. Hittinger and A. Rokas | In silico Whole Genome Sequencer And Analyzer (iWGS): A computational pipeline to guide the design and analysis of de novo genome sequencing studies | G3: Genes, Genomes, Genetics | 6(11) 3655-3662 |
| 2016 | 10.1186/s13068-016-0657-0 | Ong, R. G., A. Higbee, S. Bottoms, Q. Dickinson, D. Xie, et al. | Inhibition of microbial biofuel production in drought-stressed switchgrass hydrolysate | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1073/pnas.1516867113 | Hu, P., S. Chakraborty, A. Kumar, B. Woolston, H. Liu, D. Emerson and G. Stephanopoulos | Integrated bioprocess for conversion of gaseous substrates to liquids | Proceedings of the National Academy of Sciences of the United States of America | 113(14) 3773–8 |
| 2016 | 10.1186/s12870-016-0753-0 | Ribeiro, C. L., C. M. Silva, D. R. Drost, E. Novaes, C. R. Novaes, C. Dervinis and M. Kirst | Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus | BMC Plant Biology | 16 66 |
| 2016 | 10.1111/ele.12630 | Shi, S., E. E. Nuccio, Z. J. Shi, Z. He, J. Zhou and M. K. Firestone | The interconnected rhizosphere: High network complexity dominates rhizosphere assemblages | Ecology Letters | 19(8) 926–36 |
| 2016 | 10.1007/7397_2016_33 | Cronk, Q. C. and A. T. Groover | Introduction: Comparative Genomics of Angiosperm Trees: A New Era of Tree Biology | Plant Genetics and Genomics: Crops and Models | 1–11 |
| 2016 | 10.1007/s00253-016-7955-0 | Yu, C., B. A. Simmons, S. W. Singer, M. P. Thelen and J. S. VanderGheynst | Ionic liquid-tolerant microorganisms and microbial communities for lignocellulose conversion to bioproducts | Applied Microbiology and Biotechnology | 100(24) 10237–49 |
| 2016 | 10.1128/mSystems.00120-16 | Wu, Y. W., B. Higgins, C. Yu, A. P. Reddy, S. Ceballos, L. D. Joh, B. A. Simmons, S. W. Singer and J. S. VanderGheynst | Ionic Liquids Impact the Bioenergy Feedstock-Degrading Microbiome and Transcription of Enzymes Relevant to Polysaccharide Hydrolysis | mSystems | 1(6) |
| 2016 | 10.1016/j.soilbio.2016.04.010 | Hall, S. J., W. L. Silver, V. I. Timokhin and K. E. Hammel | Iron addition to soil specifically stabilized lignin | Soil Biology and Biochemistry | 98 95–8 |
| 2016 | 10.1016/j.funeco.2016.04.007 | Bonito, G., K. Hameed, R. Ventura, J. Krishnan, C. W. Schadt and R. Vilgalys | Isolating a functionally relevant guild of fungi from the root microbiome of Populus | Fungal Ecology | 22 35–42 |
| 2016 | 10.1039/c6gc00298f | Da Costa Sousa, L., M. Foston, V. Bokade, A. Azarpira, F. Lu, A. J. Ragauskas, J. Ralph, B. Dale and V. Balan | Isolation and characterization of new lignin streams derived from extractive-ammonia (EA) pretreatment | Green Chemistry | 18(15) 4205-4215 |
| 2016 | 10.1016/j.molp.2016.09.014 | Zheng, Y., C. Jiao, H. Sun, H. G. Rosli, M. A. Pombo, P. Zhang, M. Banf, X. Dai, G. B. Martin, J. J. Giovannoni, P. X. Zhao, S. Y. Rhee and Z. Fei | iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases | Molecular Plant | 9(12) 1667-1670 |
| 2016 | 10.1007/s10295-016-1797-8 | Vinay-Lara, E., S. Wang, L. Bai, E. Phrommao, J. R. Broadbent and J. L. Steele | Lactobacillus casei as a biocatalyst for biofuel production | Journal of Industrial Microbiology and Biotechnology | 43(9) 1205-1213 |
| 2016 | 10.1002/ecy.1513 | de Carvalho, T. S., E. D. Jesus, J. Barlow, T. A. Gardner, I. C. Soares, J. M. Tiedje and F. M. Moreira | Land use intensification in the humid tropics increased both alpha and beta diversity of soil bacteria | Ecology | 97(10) 2760–71 |
| 2016 | 10.1016/j.landusepol.2015.09.027 | Skevas, T., N. J. Hayden, S. M. Swinton and F. Lupi | Landowner willingness to supply marginal land for bioenergy production | Land Use Policy | 50 507-517 |
| 2016 | 10.1371/journal.pone.0166724 | Meehan, T. D. and C. Gratton | A landscape view of agricultural insecticide use across the conterminous US from 1997 through 2012 | PLoS ONE | 11(11) |
| 2016 | 10.1128/AEM.01603-16 | Sardi, M., N. Rovinskiy, Y. Zhang and A. P. Gasch | Leveraging genetic-background effects in Saccharomyces cerevisiae to improve lignocellulosic hydrolysate tolerance | Applied and Environmental Microbiology | 82(19) 5838-5849 |
| 2016 | 10.1021/acs.jpcb.6b01930 | Jacobitz, A. W., E. B. Naziga, S. W. Yi, S. A. McConnell, R. Peterson, M. E. Jung, R. T. Clubb and J. Wereszczynski | The "lid" in the Streptococcus pneumoniae SrtC1 Sortase Adopts a Rigid Structure that Regulates Substrate Access to the Active Site | Journal of Physical Chemistry B | 120(33) 8302-8312 |
| 2016 | 10.1128/mBio.00650-16 | Stuart, R. K., X. Mayali, A. A. Boaro, A. Zemla, R. C. Everroad, D. Nilson, P. K. Weber, M. Lipton, B. M. Bebout, J. Pett-Ridge and M. P. Thelen | Light Regimes Shape Utilization of Extracellular Organic C and N in a Cyanobacterial Biofilm | mBio | 7(3) |
| 2016 | 10.1104/pp.15.01977 | Gidda, S. K., S. Park, M. Pyc, O. Yurchenko, Y. Cai, P. Wu, D. W. Andrews, K. D. Chapman, J. M. Dyer and R. T. Mullen | Lipid Droplet-Associated Proteins (LDAPs) Are Required for the Dynamic Regulation of Neutral Lipid Compartmentation in Plant Cells | Plant Physiology | 170(4) 2052–71 |
| 2016 | 10.1021/jacs.6b03285 | Mostofian, B., C. M. Cai, M. D. Smith, L. Petridis, X. Cheng, C. E. Wyman and J. C. Smith | Local Phase Separation of Co-solvents Enhances Pretreatment of Biomass for Bioenergy Applications | Journal of the American Chemical Society | 138(34) 10869–78 |
| 2016 | 10.1073/pnas.1608454113 | Zhang, J., G. N. Presley, K. E. Hammel, J. S. Ryu, J. R. Menke, M. Figueroa, D. Hu, G. Orr and J. S. Schilling | Localizing gene regulation reveals a staggered wood decay mechanism for the brown rot fungus Postia placenta | Proceedings of the National Academy of Sciences of the United States of America | 113(39) 10968–73 |
| 2016 | 10.1002/anie.201509989 | Gerlits, O., T. Wymore, A. Das, C. H. Shen, J. M. Parks, J. C. Smith, K. L. Weiss, D. A. Keen, M. P. Blakeley, J. M. Louis, P. Langan, I. T. Weber and A. Kovalevsky | Long-Range Electrostatics-Induced Two-Proton Transfer Captured by Neutron Crystallography in an Enzyme Catalytic Site | Angewandte Chemie International Edition | 55(16) 4924–7 |
| 2016 | 10.1111/gcb.13426 | Gelfand, I., I. Shcherbak, N. Millar, A. N. Kravchenko and G. P. Robertson | Long-term nitrous oxide fluxes in annual and perennial agricultural and unmanaged ecosystems in the upper Midwest USA | Global Change Biology | 22(11) 3594-3607 |
| 2016 | 10.1007/s00248-016-0746-4 | Geng, H., K. L. Sale, M. B. Tran-Gyamfi, T. W. Lane and E. T. Yu | Longitudinal Analysis of Microbiota in Microalga Nannochloropsis salina Cultures | Microbial Ecology | 72(1) 14–24 |
| 2016 | 10.1105/tpc.16.00186 | Fang, L., T. Ishikawa, E. A. Rennie, G. M. Murawska, J. Lao, J. Yan, A. Y. Tsai, E. E. Baidoo, J. Xu, J. D. Keasling, T. Demura, M. Kawai-Yamada, H. V. Scheller and J. C. Mortimer | Loss of Inositol Phosphorylceramide Sphingolipid Mannosylation Induces Plant Immune Responses and Reduces Cellulose Content in Arabidopsis | The Plant Cell | 28(12) 2991–3004 |
| 2016 | 10.1128/mBio.01101-16 | Schaefer, A. L., Y. Oda, B. G. Coutinho, D. A. Pelletier, J. Weiburg, V. Venturi, E. P. Greenberg and C. S. Harwood | A LuxR Homolog in a Cottonwood Tree Endophyte That Activates Gene Expression in Response to a Plant Signal or Specific Peptides | mBio | 7(4) |
| 2016 | 10.1038/ncomms10613 | Burstein, D., C. L. Sun, C. T. Brown, I. Sharon, K. Anantharaman, A. J. Probst, B. C. Thomas and J. F. Banfield | Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems | Nature Communications | 7 10613 |
| 2016 | 10.1093/nar/gkw436 | Lee, D. F., J. Lu, S. Chang, J. J. Loparo and X. S. Xie | Mapping DNA polymerase errors by single-molecule sequencing | Nucleic Acids Research | 44(13) e118 |
| 2016 | 10.1186/s12870-015-0696-x | Gelli, M., S. E. Mitchell, K. Liu, T. E. Clemente, D. P. Weeks, C. Zhang, D. R. Holding and I. M. Dweikat | Mapping QTLs and association of differentially expressed gene transcripts for multiple agronomic traits under different nitrogen levels in sorghum | BMC Plant Biology | 16 16 |
| 2016 | 10.1186/s13059-016-0968-2 | Zhao, Q., A. I. Stettner, E. Reznik, I. C. Paschalidis and D. Segrè | Mapping the landscape of metabolic goals of a cell | Genome biology | 17(1) 109 |
| 2016 | 10.1186/s12934-016-0611-7 | Seppala, S., K. V. Solomon, S. P. Gilmore, J. K. Henske and M. A. O'Malley | Mapping the membrane proteome of anaerobic gut fungi identifies a wealth of carbohydrate binding proteins and transporters | Microbial Cell Factories | 15(1) 212 |
| 2016 | 10.1186/s40168-016-0162-5 | Lan, Y., G. Rosen and R. Hershberg | Marker genes that are less conserved in their sequences are useful for predicting genome-wide similarity levels between closely related prokaryotic strains | Microbiome | 4(1) 18 |
| 2016 | 10.1038/nbt.3704 | Brown, C. T., M. R. Olm, B. C. Thomas and J. F. Banfield | Measurement of bacterial replication rates in microbial communities | Nature Biotechnology | 34(12) 1256–63 |
| 2016 | 10.1016/j.jcat.2016.08.011 | Ro, I., C. Sener, T. M. Stadelman, M. R. Ball, J. M. Venegas, S. P. Burt, I. Hermans, J. A. Dumesic and G. W. Huber | Measurement of intrinsic catalytic activity of Pt monometallic and Pt-MoOx interfacial sites over visible light enhanced PtMoOx/SiO2 catalyst in reverse water gas shift reaction | Journal of Catalysis | 344 784-794 |
| 2016 | 10.1186/s12934-016-0417-7 | Dickinson, Q., S. Bottoms, L. Hinchman, S. McIlwain, S. Li, C. L. Myers, C. Boone, J. J. Coon, A. Hebert, T. K. Sato, R. Landick and J. S. Piotrowski | Mechanism of imidazolium ionic liquids toxicity in Saccharomyces cerevisiae and rational engineering of a tolerant, xylose-fermenting strain | Microbial Cell Factories | 15(1) |
| 2016 | 10.4067/s0718-09342016000400010 | Riffo, B. | Mental representations in discourse comprehension: From lineal signifier to situation model | Revista Signos | 49 205-223 |
| 2016 | 10.1016/j.ymben.2016.01.007 | Zhang, X., C. J. Tervo and J. L. Reed | Metabolic assessment of E. coli as a Biofactory for commercial products | Metabolic Engineering | 35 64–74 |
| 2016 | 10.1126/science.aaf6159 | Shaw, A. J., F. H. Lam, M. Hamilton, A. Consiglio, K. MacEwen, E. E. Brevnova, E. Greenhagen, W. G. LaTouf, C. R. South, H. van Dijken and G. Stephanopoulos | Metabolic engineering of microbial competitive advantage for industrial fermentation processes | Science | 353(6299) 583–6 |
| 2016 | 10.1093/femsle/fnw004 | Dash, S., C. Y. Ng and C. D. Maranas | Metabolic modeling of clostridia: current developments and applications | FEMS Microbiology Letters | 363(4) |
| 2016 | 10.1038/nchembio.2077 | Park, J. O., S. A. Rubin, Y. F. Xu, D. Amador-Noguez, J. Fan, T. Shlomi and J. D. Rabinowitz | Metabolite concentrations, fluxes and free energies imply efficient enzyme usage | Nature Chemical Biology | 12(7) 482–9 |
| 2016 | 10.1371/journal.pone.0154043 | Cui, J., N. M. Good, B. Hu, J. Yang, Q. Wang, M. Sadilek and S. Yang | Metabolomics Revealed an Association of Metabolite Changes and Defective Growth in Methylobacterium extorquens AM1 Overexpressing ecm during Growth on Methanol | PLoS One | 11(4) e0154043 |
| 2016 | 10.3389/fmicb.2016.00579 | Johnston, E. R., R. L. Rodriguez, C. Luo, M. M. Yuan, L. Wu, Z. He, E. A. Schuur, Y. Luo, J. M. Tiedje, J. Zhou and K. T. Konstantinidis | Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem | Frontiers in Microbiology | 7 579 |
| 2016 | 10.1128/AEM.03538-15 | Lacroix, C., K. Renner, E. Cole, E. W. Seabloom, E. T. Borer and C. M. Malmstrom | Methodological guidelines for accurate detection of viruses in wild plant species | Applied and Environmental Microbiology | 82(6) 1966-1975 |
| 2016 | 10.1016/j.soilbio.2016.06.003 | Feng, W. T., Z. Shi, J. Jiang, J. Y. Xia, J. Y. Liang, J. Z. Zhou and Y. Q. Luo | Methodological uncertainty in estimating carbon turnover times of soil fractions | Soil Biology and Biochemistry | 100 118–24 |
| 2016 | 10.1016/j.mimet.2016.10.018 | Garoutte, A., E. Cardenas, J. Tiedje and A. Howe | Methodologies for probing the metatranscriptome of grassland soil | Journal of Microbiological Methods | 131 122-129 |
| 2016 | 10.1016/j.fuel.2016.05.099 | Ferris, A. M. and D. A. Rothamer | Methodology for the experimental measurement of vapor-liquid equilibrium distillation curves using a modified ASTM D86 setup | Fuel | 182 467-479 |
| 2016 | 10.1007/s11101-015-9426-0 | Berim, A. and D. R. Gang | Methoxylated flavones: occurrence, importance, biosynthesis | Phytochemistry Reviews | 15(3) 363–90 |
| 2016 | 10.1038/nmicrobiol.2016.170 | Vanwonterghem, I., P. N. Evans, D. H. Parks, P. D. Jensen, B. J. Woodcroft, P. Hugenholtz and G. W. Tyson | Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota | Nature Microbiology | 1 16170 |
| 2016 | 10.15376/BIORES.11.1.2850-2885 | Tang, Y., J. N. Rosenberg, P. Bohutskyi, G. Yu, M. J. Betenbaugh and F. Wang | Microalgae as a Feedstock for Biofuel Precursors and Value-Added Products: Green Fuels and Golden Opportunities | BioResources | 11(1) 2850-2885. |
| 2016 | 10.15376/biores.11.1.Tang | Tang, Y. T., J. N. Rosenberg, P. Bohutskyi, G. Yu, M. J. Betenbaugh and F. Wang | Microalgae as a Feedstock for Biofuel Precursors and Value-Added Products: Green Fuels and Golden Opportunities | BioResources | 11(1) 2850–85 |
| 2016 | 10.1073/pnas.1601926113 | Pfleger, B. F. | Microbes paired for biological gas-to-liquids (Bio-GTL) process | Proceedings of the National Academy of Sciences of the United States of America | 113(14) 3717–9 |
| 2016 | 10.1016/j.coche.2016.09.003 | Peng, X. F., S. P. Gilmore and M. A. O'Malley | Microbial communities for bioprocessing: lessons learned from nature | Current Opinion in Chemical Engineering | 14 103–9 |
| 2016 | 10.1128/AEM.02772-15 | Guo, J., J. R. Cole, Q. Zhang, C. T. Brown and J. M. Tiedje | Microbial Community Analysis with Ribosomal Gene Fragments from Shotgun Metagenomes | Applied and Environmental Microbiology | 82(1) 157–66 |
| 2016 | 10.1016/j.tim.2016.04.006 | Long, P. E., K. H. Williams, S. S. Hubbard and J. F. Banfield | Microbial Metagenomics Reveals Climate-Relevant Subsurface Biogeochemical Processes | Trends in Microbiology | 24(8) 600–10 |
| 2016 | 10.1016/j.soilbio.2016.08.002 | Liang, C., J. Kao-Kniffin, G. R. Sanford, K. Wickings, T. C. Balser and R. D. Jackson | Microorganisms and their residues under restored perennial grassland communities of varying diversity | Soil Biology and Biochemistry | 103 192-200 |
| 2016 | 10.1007/7397_2015_9 | Franke, K. R. and P. J. Green | The microRNAs of Brachypodium | Genetics and Genomics of Brachypodium | 18 129–45 |
| 2016 | 10.1021/acs.analchem.5b03887 | McCloskey, D., J. D. Young, S. Xu, B. O. Palsson and A. M. Feist | MID Max: LC-MS/MS Method for Measuring the Precursor and Product Mass Isotopomer Distributions of Metabolic Intermediates and Cofactors for Metabolic Flux Analysis Applications | Analytical Chemistry | 88(2) 1362–70 |
| 2016 | 10.1021/acs.analchem.5b04914 | McCloskey, D., J. D. Young, S. Xu, B. O. Palsson and A. M. Feist | Modeling Method for Increased Precision and Scope of Directly Measurable Fluxes at a Genome-Scale | Analytical Chemistry | 88(7) 3844–52 |
| 2016 | 10.1111/pbi.12453 | Liu, F., Q. Zhao, N. Mano, Z. Ahmed, F. Nitschke, Y. Cai, K. D. Chapman, M. Steup, I. J. Tetlow and M. J. Emes | Modification of starch metabolism in transgenic Arabidopsis thaliana increases plant biomass and triples oilseed production | Plant Biotechnology Journal | 14(3) 976–85 |
| 2016 | 10.1093/jxb/erw292 | Kang, J. H., M. L. Campos, S. Zemelis-Durfee, J. M. Al-Haddad, A. D. Jones, F. W. Telewski, F. Brandizzi and G. A. Howe | Molecular cloning of the tomato Hairless gene implicates actin dynamics in trichome-mediated defense and mechanical properties of stem tissue | Journal of Experimental Botany | 67(18) 5313-5324 |
| 2016 | 10.1021/acs.jpcb.5b09770 | Smith, M. D., B. Mostofian, L. Petridis, X. Cheng and J. C. Smith | Molecular Driving Forces behind the Tetrahydrofuran-Water Miscibility Gap | Journal of Physical Chemistry B | 120(4) 740–7 |
| 2016 | 10.1016/j.jmbbm.2016.01.017 | Khandaker, M. S. K., D. M. Dudek, E. P. Beers, D. A. Dillard and D. R. Bevan | Molecular modeling of the elastomeric properties of repeating units and building blocks of resilin, a disordered elastic protein | Journal of the Mechanical Behavior of Biomedical Materials | 61 110–21 |
| 2016 | 10.1126/sciadv.1600393 | Karlen, S. D., C. Zhang, M. L. Peck, R. A. Smith, D. Padmakshan, et al. | Monolignol ferulate conjugates are naturally incorporated into plant lignins | Science Advances | 2(10) e1600393 |
| 2016 | 10.1186/s12864-016-2471-2 | Pomraning, K. R., Y. M. Kim, C. D. Nicora, R. K. Chu, E. L. Bredeweg, S. O. Purvine, D. Hu, T. O. Metz and S. E. Baker | Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica | BMC Genomics | 17 138 |
| 2016 | 10.7717/peerj.2507 | Wei, T., T. C. Chen, Y. T. Ho and P. C. Ronald | Mutation of the rice XA21 predicted nuclear localization sequence does not affect resistance to Xanthomonas oryzae pv. oryzae | PeerJ | 4 e2507 |
| 2016 | 10.1146/annurev-ecolsys-121415-032100 | Peay, K. G. | The Mutualistic Niche: Mycorrhizal Symbiosis and Community Dynamics | Annual Review of Ecology, Evolution, and Systematics | 47 143–64 |
| 2016 | 10.1016/j.funeco.2016.09.001 | Öpik, M. and K. G. Peay | Mycorrhizal diversity: Diversity of host plants, symbiotic fungi and relationships | Fungal Ecology | 24 103-105 |
| 2016 | 10.1107/S2052252516010514 | Aggarwal, M., A. Y. Kovalevsky, H. Velazquez, S. Z. Fisher, J. C. Smith and R. McKenna | Neutron structure of human carbonic anhydrase II in complex with methazolamide: mapping the solvent and hydrogen-bonding patterns of an effective clinical drug | IUCrJ | 3(Part 5) 319–25 |
| 2016 | 10.1039/c6mt00063k | Blaby-Haas, C. E., M. Castruita, S. T. Fitz-Gibbon, J. Kropat and S. S. Merchant | Ni induces the CRR1-dependent regulon revealing overlap and distinction between hypoxia and Cu deficiency responses in Chlamydomonas reinhardtii | Metallomics | 8(7) 679–91 |
| 2016 | 10.1016/j.biortech.2015.10.104 | Calvey, C. H., Y. K. Su, L. B. Willis, M. McGee and T. W. Jeffries | Nitrogen limitation, oxygen limitation, and lipid accumulation in Lipomyces starkeyi | Bioresource Technology | 200 780-788 |
| 2016 | 10.1128/AEM.00409-16 | Yoon, S., S. Nissen, D. Park, R. A. Sanford and F. E. Löffler | Nitrous oxide reduction kinetics distinguish bacteria harboring clade I NosZ from those harboring clade II NosZ | Applied and Environmental Microbiology | 82(13) 3793-3800 |
| 2016 | 10.1038/ismej.2015.106 | Pepe-Ranney, C., C. Koechli, R. Potrafka, C. Andam, E. Eggleston, F. Garcia-Pichel and D. H. Buckley | Non-cyanobacterial diazotrophs mediate dinitrogen fixation in biological soil crusts during early crust formation | The ISME Journal | 10(2) 287–98 |
| 2016 | 10.7554/eLife.19027 | Kuang, M. C., P. D. Hutchins, J. D. Russell, J. J. Coon and C. T. Hittinger | Ongoing resolution of duplicate gene functions shapes the diversification of a metabolic network | eLife | 5(September2016) |
| 2016 | 10.3390/app6110343 | Tang, Y., Y. Zhang, J. N. Rosenberg, M. J. Betenbaugh and F. Wang | Optimization of One-Step In Situ Transesterification Method for Accurate Quantification of EPA in Nannochloropsis gaditana | Applied Sciences | 6(11) |
| 2016 | 10.1016/j.pbi.2016.04.001 | Borland, A. M., H. B. Guo, X. Yang and J. C. Cushman | Orchestration of carbohydrate processing for crassulacean acid metabolism | Current Opinion in Plant Biology | 31 118–24 |
| 2016 | 10.1093/bioinformatics/btw241 | Woodcroft, B. J., J. A. Boyd and G. W. Tyson | OrfM: a fast open reading frame predictor for metagenomic data | Bioinformatics | 32(17) 2702–3 |
| 2016 | 10.1016/j.jmb.2015.09.003 | Lajoie, M. J., D. Soll and G. M. Church | Overcoming Challenges in Engineering the Genetic Code | Journal of Molecular Biology | 428(5 Part B) 1004–21 |
| 2016 | 10.1093/femsle/fnw063 | Jones, A. J., K. P. Venkataramanan and T. Papoutsakis | Overexpression of two stress-responsive, small, non-coding RNAs, 6S and tmRNA, imparts butanol tolerance in Clostridium acetobutylicum | FEMS Microbiology Letters | 363(8) |
| 2016 | 10.1073/pnas.1607504113 | Luo, D., R. Callari, B. Hamberger, S. G. Wubshet, M. T. Nielsen, J. Andersen-Ranberg, B. M. Hallström, F. Cozzi, H. Heider, B. L. Møller, D. Staerk and B. Hamberger | Oxidation and cyclization of casbene in the biosynthesis of Euphorbia factors from mature seeds of Euphorbia lathyris L | Proceedings of the National Academy of Sciences of the United States of America | 113(34) E5082-E5089 |
| 2016 | 10.1371/journal.pone.0161837 | Douglas, S. M., L. M. Chubiz, W. R. Harcombe, F. M. Ytreberg and C. J. Marx | Parallel Mutations Result in a Wide Range of Cooperation and Community Consequences in a Two-Species Bacterial Consortium | PLoS One | 11(9) e0161837 |
| 2016 | 10.1002/anie.201510351 | Rinaldi, R., R. Jastrzebski, M. T. Clough, J. Ralph, M. Kennema, P. C. A. Bruijnincx and B. M. Weckhuysen | Paving the way for lignin valorisation: Recent advances in bioengineering, biorefining and catalysis | Angewandte Chemie - International Edition | 55(29) 8164-8215 |
| 2016 | 10.1146/annurev-earth-060614-105126 | Mackelprang, R., S. R. Saleska, C. S. Jacobsen, J. K. Jansson and N. Tas | Permafrost Meta-Omics and Climate Change | Annual Review of Earth and Planetary Sciences | 44 439–62 |
| 2016 | 10.1186/s40793-016-0174-6 | Everroad, R. C., R. K. Stuart, B. M. Bebout, A. M. Detweiler, J. Z. Lee, D. Woebken, L. Prufert-Bebout and J. Pett-Ridge | Permanent draft genome of strain ESFC-1: ecological genomics of a newly discovered lineage of filamentous diazotrophic cyanobacteria | Standards in Genomic Sciences | 11(1) 53 |
| 2016 | 10.1021/acssuschemeng.6b00245 | Springer, S. D., J. He, M. Chui, R. D. Little, M. Foston and A. Butler | Peroxidative Oxidation of Lignin and a Lignin Model Compound by a Manganese SALEN Derivative | ACS Sustainable Chemistry & Engineering | 4(6) 3212–9 |
| 2016 | 10.1186/s12918-016-0298-8 | Petereit, J., S. Smith, F. C. Harris, Jr. and K. A. Schlauch | petal: Co-expression network modelling in R | BMC Systems Biology | 10 Supplement 2(Supplement 2) 51 |
| 2016 | 10.1016/j.bpj.2015.11.013 | Ingargiola, A., T. Laurence, R. Boutelle, S. Weiss and X. Michalet | Photon-HDF5: An open file format for timestamp-based single-molecule fluorescence experiments | Biophysical Journal | 110(1) 26-33 |
| 2016 | 10.1117/12.2212085 | Ingargiola, A., T. Laurence, R. Boutelle, S. Weiss and X. Michalet | Photon-HDF5: Open data format and computational tools for timestamp-based single-molecule experiments | Progress in Biomedical Optics and Imaging - Proceedings of SPIE | 9714 |
| 2016 | 10.1016/j.algal.2016.05.014 | Jallet, D., M. A. Caballero, A. A. Gallina, M. Youngblood and G. Peers | Photosynthetic physiology and biomass partitioning in the model diatom Phaeodactylum tricornutum grown in a sinusoidal light regime | Algal Research | 18 51–60 |
| 2016 | 10.1038/ismej.2016.55 | Skennerton, C. T., M. F. Haroon, A. Briegel, J. Shi, G. J. Jensen, G. W. Tyson and V. J. Orphan | Phylogenomic analysis of Candidatus 'Izimaplasma' species: free-living representatives from a Tenericutes clade found in methane seeps | The ISME Journal | 10(11) 2679–92 |
| 2016 | 10.1016/j.pbi.2016.03.013 | Hopkinson, B. M., C. L. Dupont and Y. Matsuda | The physiology and genetics of CO2 concentrating mechanisms in model diatoms | Current Opinion in Plant Biology | 31 51–7 |
| 2016 | 10.1016/j.jmb.2016.07.015 | Wheatley, N. M., K. D. Eden, J. Ngo, J. S. Rosinski, M. R. Sawaya, D. Cascio, M. Collazo, H. Hoveida, W. L. Hubbell and T. O. Yeates | A PII-Like protein regulated by bicarbonate: Structural and biochemical studies of the carboxysome-associated CPII protein | Journal of Molecular Biology | 428(20) 4013-4030 |
| 2016 | 10.1126/science.aaf6206 | Horn, P. J. and C. Benning | The plant lipidome in human and environmental health | Science | 353(6305) 1228-11232 |
| 2016 | 10.1007/s11274-016-2068-6 | Gardner, J. G. | Polysaccharide degradation systems of the saprophytic bacterium Cellvibrio japonicus | World Journal of Microbiology & Biotechnology | 32(7) 121 |
| 2016 | 10.3835/plantgenome2015.08.0074 | Tyler, L., S. J. Lee, N. D. Young, G. A. Deiulio, E. Benavente, M. Reagon, J. Sysopha, R. M. Baldini, A. Troìa, S. P. Hazen and A. L. Caicedo | Population structure in the model grass Brachypodium distachyon is highly correlated with flowering differences across broad geographic areas | Plant Genome | 9(2) |
| 2016 | 10.1002/prot.25031 | Johnson, Q. R., R. J. Lindsay, R. B. Nellas and T. Shen | Pressure-induced conformational switch of an interfacial protein | Proteins | 84(6) 820–7 |
| 2016 | 10.1038/srep36734 | Yang, L., J. T. Yurkovich, C. J. Lloyd, A. Ebrahim, M. A. Saunders and B. O. Palsson | Principles of proteome allocation are revealed using proteomic data and genome-scale models | Scientific Reports | 6 36734 |
| 2016 | 10.5194/bg-13-2689-2016 | Liang, J. Y., X. Qi, L. Souza and Y. Q. Luo | Processes regulating progressive nitrogen limitation under elevated carbon dioxide: a meta-analysis | Biogeosciences | 13(9) 2689–99 |
| 2016 | 10.1038/srep24239 | Sherkhanov, S., T. P. Korman, S. G. Clarke and J. U. Bowie | Production of FAME biodiesel in E. coli by direct methylation with an insect enzyme | Scientific Reports | 6 |
| 2016 | 10.1021/acs.jpcb.6b02057 | Clark, A. K., J. H. Wilder, A. W. Grayson, Q. R. Johnson, R. J. Lindsay, R. B. Nellas, E. J. Fernandez and T. Shen | The Promiscuity of Allosteric Regulation of Nuclear Receptors by Retinoid X Receptor | Journal of Physical Chemistry B | 120(33) 8338–45 |
| 2016 | 10.1104/pp.16.00545 | Lovell, J. T., E. V. Shakirov, S. Schwartz, D. B. Lowry, M. J. Aspinwall, S. H. Taylor, J. Bonnette, J. D. Palacio-Mejia, C. V. Hawkes, P. A. Fay and T. E. Juenger | Promises and Challenges of Eco-Physiological Genomics in the Field: Tests of Drought Responses in Switchgrass | Plant Physiology | 172(2) 734–48 |
| 2016 | 10.1186/s12859-016-0887-y | Leung, E., A. Huang, E. Cadag, A. Montana, J. L. Soliman and C. L. Zhou | Protein Sequence Annotation Tool (PSAT): a centralized web-based meta-server for high-throughput sequence annotations | BMC Bioinformatics | 17 43 |
| 2016 | 10.3389/fmicb.2016.00563 | Marlow, J. J., C. T. Skennerton, Z. Li, K. Chourey, R. L. Hettich, C. Pan and V. J. Orphan | Proteomic Stable Isotope Probing Reveals Biosynthesis Dynamics of Slow Growing Methane Based Microbial Communities | Frontiers in Microbiology | 7 563 |
| 2016 | 10.1128/mBio.01208-16 | James, K. L., L. A. Rios-Hernandez, N. Q. Wofford, H. Mouttaki, J. R. Sieber, et al. | Pyrophosphate-Dependent ATP Formation from Acetyl Coenzyme A in Syntrophus aciditrophicus, a New Twist on ATP Formation | mBio | 7(4) |
| 2016 | 10.1186/s12918-016-0369-x | Walsh, J. R., M. L. Schaeffer, P. Zhang, S. Y. Rhee, J. A. Dickerson and T. Z. Sen | The quality of metabolic pathway resources depends on initial enzymatic function assignments: a case for maize | BMC Systems Biology | 10(1) 129 |
| 2016 | 10.1016/j.algal.2016.10.008 | Caballero, M. A., D. Jallet, L. B. Shi, C. Rithner, Y. Zhang and G. Peers | Quantification of chrysolaminarin from the model diatom Phaeodactylum tricornutum | Algal Research | 20 180–8 |
| 2016 | 10.1007/s13361-016-1476-z | Meyer, J. G., A. K. D'Souza, D. J. Sorensen, M. J. Rardin, A. J. Wolfe, B. W. Gibson and B. Schilling | Quantification of Lysine Acetylation and Succinylation Stoichiometry in Proteins Using Mass Spectrometric Data-Independent Acquisitions (SWATH) | Journal of the American Society for Mass Spectrometry | 27(11) 1758–71 |
| 2016 | 10.1016/j.biortech.2016.01.008 | Sarks, C., A. Higbee, J. Piotrowski, S. Xue, J. J. Coon, T. K. Sato, M. Jin, V. Balan and B. E. Dale | Quantifying pretreatment degradation compounds in solution and accumulated by cells during solids and yeast recycling in the Rapid Bioconversion with Integrated recycling Technology process using AFEX™ corn stover | Bioresource Technology | 205 24-33 |
| 2016 | 10.1007/s10858-016-0019-z | Amer, B. R., R. MacDonald, A. W. Jacobitz, B. Liauw and R. T. Clubb | Rapid addition of unlabeled silent solubility tags to proteins using a new substrate-fused sortase reagent | Journal of Biomolecular NMR | 64(3) 197-205 |
| 2016 | 10.1002/bit.25702 | Hollinshead, W. D., W. R. Henson, M. Abernathy, T. S. Moon and Y. J. Tang | Rapid metabolic analysis of Rhodococcus opacus PD630 via parallel 13C-metabolite fingerprinting | Biotechnology and Bioengineering | 113(1) 91–100 |
| 2016 | 10.1016/j.jaap.2016.07.016 | Rencoret, J., J. C. Del Río, K. G. J. Nierop, A. Gutiérrez and J. Ralph | Rapid Py-GC/MS assessment of the structural alterations of lignins in genetically modified plants | Journal of Analytical and Applied Pyrolysis | 121 155-164 |
| 2016 | 10.1039/c6gc02258h | Sun, J., T. Dutta, R. Parthasarathi, K. H. Kim, N. Tolic, R. K. Chu, N. G. Isern, J. R. Cort, B. A. Simmons and S. Singh | Rapid room temperature solubilization and depolymerization of polymeric lignin at high loadings | Green Chemistry | 18(22) 6012–20 |
| 2016 | 10.1534/g3.116.034744 | Shen, X. X., X. Zhou, J. Kominek, C. P. Kurtzman, C. T. Hittinger and A. Rokas | Reconstructing the backbone of the saccharomycotina yeast phylogeny using genome-scale data | G3: Genes, Genomes, Genetics | 6(12) 3927-3939 |
| 2016 | 10.1016/j.bioelechem.2015.08.003 | Zacharoff, L., C. H. Chan and D. R. Bond | Reduction of low potential electron acceptors requires the CbcL inner membrane cytochrome of Geobacter sulfurreducens | Bioelectrochemistry | 107 7–13 |
| 2016 | 10.3389/fbioe.2016.00065 | Diner, R. E., V. A. Bielinski, C. L. Dupont, A. E. Allen and P. D. Weyman | Refinement of the Diatom Episome Maintenance Sequence and Improvement of Conjugation-Based DNA Delivery Methods | Frontiers in Bioengineering and Biotechnology | 4 65 |
| 2016 | 10.1038/npjsba.2016.5 | Kerkhoven, E. J., K. R. Pomraning, S. E. Baker and J. Nielsen | Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica | npj Systems Biology and Applications | 2 16005 |
| 2016 | 10.1021/acs.jpcb.6b00789 | Sangha, A. K., L. Petridis, X. Cheng and J. C. Smith | Relative Binding Affinities of Monolignols to Horseradish Peroxidase | Journal of Physical Chemistry B | 120(31) 7635–40 |
| 2016 | 10.1186/s13068-016-0683-y | Bewg, W. P., C. Poovaiah, W. Lan, J. Ralph and H. D. Coleman | RNAi downregulation of three key lignin genes in sugarcane improves glucose release without reduction in sugar production | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1016/j.anaerobe.2015.11.008 | Solomon, K. V., J. K. Henske, M. K. Theodorou and M. A. O'Malley | Robust and effective methodologies for cryopreservation and DNA extraction from anaerobic gut fungi | Anaerobe | 38 39–46 |
| 2016 | 10.1093/femsec/fiw107 | Deveau, A., H. Gross, B. Palin, S. Mehnaz, M. Schnepf, P. Leblond, P. C. Dorrestein and B. Aigle | Role of secondary metabolites in the interaction between Pseudomonas fluorescens and soil microorganisms under iron-limited conditions | FEMS Microbiology Ecology | 92(8) |
| 2016 | 10.7717/peerj.2606 | Henning, J. A., D. J. Weston, D. A. Pelletier, C. M. Timm, S. S. Jawdy and A. T. Classen | Root bacterial endophytes alter plant phenotype, but not physiology | PeerJ | 4 e2606 |
| 2016 | 10.1038/ismej.2016.53 | Wrighton, K. C., C. J. Castelle, V. A. Varaljay, S. Satagopan, C. T. Brown, M. J. Wilkins, B. C. Thomas, I. Sharon, K. H. Williams, F. R. Tabita and J. F. Banfield | RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria | The ISME Journal | 10(11) 2702–14 |
| 2016 | 10.1186/s13568-016-0189-9 | Montella, S., V. Balan, L. da Costa Sousa, C. Gunawan, S. Giacobbe, O. Pepe and V. Faraco | Saccharification of newspaper waste after ammonia fiber expansion or extractive ammonia | AMB Express | 6(1) |
| 2016 | 10.1039/c6re00172f | Chundawat, S. P. S., C. D. Paavola, B. Raman, M. Nouailler, S. L. Chan, J. R. Mielenz, V. Receveur-Brechot, J. D. Trent and B. E. Dale | Saccharification of thermochemically pretreated cellulosic biomass using native and engineered cellulosomal enzyme systems | Reaction Chemistry and Engineering | 1(6) 616-628 |
| 2016 | 10.1080/17597269.2015.1132368 | Sarks, C., B. D. Bals, J. Wynn, F. Teymouri, S. Schwegmann, K. Sanders, M. Jin, V. Balan and B. E. Dale | Scaling up and benchmarking of ethanol production from pelletized pilot scale AFEX treated corn stover using Zymomonas mobilis 8b | Biofuels | 7(3) 253-262 |
| 2016 | 10.1099/mgen.0.000099 | La Reau, A. J., J. P. Meier-Kolthoff and G. Suen | Sequence-based analysis of the genus Ruminococcus resolves its phylogeny and reveals strong host association | Microbial Genomics | 2(12) e000099 |
| 2016 | 10.1186/s13007-016-0116-8 | Czarnecki, O., A. C. Bryan, S. S. Jawdy, X. Yang, Z. M. Cheng, J. G. Chen and G. A. Tuskan | Simultaneous knockdown of six non-family genes using a single synthetic RNAi fragment in Arabidopsis thaliana | Plant Methods | 12 16 |
| 2016 | 10.3389/fmicb.2016.00824 | Penton, C. R., V. V. Gupta, J. Yu and J. M. Tiedje | Size Matters: Assessing Optimum Soil Sample Size for Fungal and Bacterial Community Structure Analyses Using High Throughput Sequencing of rRNA Gene Amplicons | Frontiers in Microbiology | 7 824 |
| 2016 | 10.1111/gcbb.12303 | Xue, C., C. R. Penton, B. Zhang, M. Zhao, D. E. Rothstein, D. J. Mladenoff, J. A. Forrester, Q. Shen and J. M. Tiedje | Soil fungal and bacterial responses to conversion of open land to short-rotation woody biomass crops | GCB Bioenergy | 8(4) 723-736 |
| 2016 | 10.1016/j.geoderma.2015.08.038 | Xu, X., Z. Shi, D. J. Li, A. Rey, H. H. Ruan, J. M. Craine, J. Y. Liang, J. Z. Zhou and Y. Q. Luo | Soil properties control decomposition of soil organic carbon: Results from data-assimilation analysis | Geoderma | 262 235–42 |
| 2016 | 10.3389/fpls.2016.00517 | Valdes-Lopez, O., J. Batek, N. Gomez-Hernandez, C. T. Nguyen, M. C. Isidra-Arellano, N. Zhang, T. Joshi, D. Xu, K. K. Hixson, K. K. Weitz, J. T. Aldrich, L. Pasa-Tolic and G. Stacey | Soybean Roots Grown under Heat Stress Show Global Changes in Their Transcriptional and Proteomic Profiles | Frontiers in Plant Science | 7 517 |
| 2016 | 10.1016/j.scitotenv.2016.02.164 | Yang, Q., X. Zhang, X. Xu, G. R. Asrar, R. A. Smith, J. S. Shih and S. Duan | Spatial patterns and environmental controls of particulate organic carbon in surface waters in the conterminous United States | Science of the Total Environment | 554-555 266-275 |
| 2016 | 10.1038/srep32467 | Yuan, Z., I. S. Druzhinina, J. Labbe, R. Redman, Y. Qin, R. Rodriguez, C. Zhang, G. A. Tuskan and F. Lin | Specialized Microbiome of a Halophyte and its Role in Helping Non-Host Plants to Withstand Salinity | Scientific Reports | 6 32467 |
| 2016 | 10.1371/journal.pcbi.1004800 | Theisen, M. K., J. G. Lafontaine Rivera and J. C. Liao | Stability of Ensemble Models Predicts Productivity of Enzymatic Systems | PloS Computational Biology | 12(3) e1004800 |
| 2016 | 10.1007/s11104-015-2640-0 | Lowman, S., S. Kim-Dura, C. S. Mei and J. Nowak | Strategies for enhancement of switchgrass (Panicum virgatum L.) performance under limited nitrogen supply based on utilization of N-fixing bacterial endophytes | Plant and Soil | 405(1–2) 47–63 |
| 2016 | 10.1016/j.bbalip.2016.02.008 | Zienkiewicz, K., Z. Y. Du, W. Ma, K. Vollheyde and C. Benning | Stress-induced neutral lipid biosynthesis in microalgae — Molecular, cellular and physiological insights | Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids | 1861(9) 1269-1281 |
| 2016 | 10.1074/jbc.M115.694307 | Helmich, K. E., J. H. Pereira, D. L. Gall, R. A. Heins, R. P. McAndrew, et al. | Structural basis of stereospecificity in the bacterial enzymatic cleavage of β-aryl ether bonds in lignin | Journal of Biological Chemistry | 291(10) 5234-5246 |
| 2016 | 10.1104/pp.15.01356 | Vandavasi, V. G., D. K. Putnam, Q. Zhang, L. Petridis, W. T. Heller, B. T. Nixon, C. H. Haigler, U. Kalluri, L. Coates, P. Langan, J. C. Smith, J. Meiler and H. O'Neill | A Structural Study of CESA1 Catalytic Domain of Arabidopsis Cellulose Synthesis Complex: Evidence for CESA Trimers | Plant Physiology | 170(1) 123–35 |
| 2016 | 10.1104/pp.16.00845 | Walker, A. M., S. A. Sattler, M. Regner, J. P. Jones, J. Ralph, W. Vermerris, S. E. Sattler and C. Kang | The structure and catalytic mechanism of Sorghum bicolor Caffeoyl-CoA O-methyltransferase | Plant Physiology | 172(1) 78-92 |
| 2016 | 10.1073/pnas.1608917113 | McAndrew, R. P., N. Sathitsuksanoh, M. M. Mbughuni, R. A. Heins, J. H. Pereira, A. George, K. L. Sale, B. G. Fox, B. A. Simmons and P. D. Adams | Structure and mechanism of NOV1, a resveratrol-cleaving dioxygenase | Proceedings of the National Academy of Sciences of the United States of America | 113(50) 14324–9 |
| 2016 | 10.1186/s12900-016-0056-6 | Wagner, J. M., S. Chan, T. J. Evans, S. Kahng, J. Kim, M. A. Arbing, D. Eisenberg and K. V. Korotkov | Structures of EccB1 and EccD1 from the core complex of the mycobacterial ESX-1 type VII secretion system | BMC Structural Biology | 16(1) |
| 2016 | 10.1186/s13068-016-0559-1 | Poovaiah, C. R., W. P. Bewg, W. Lan, J. Ralph and H. D. Coleman | Sugarcane transgenics expressing MYB transcription factors show improved glucose release | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1016/j.ymben.2016.06.006 | Liu, N., K. Qiao and G. Stephanopoulos | 13C Metabolic Flux Analysis of acetate conversion to lipids by Yarrowia lipolytica | Metabolic Engineering | 38 86–97 |
| 2016 | 10.1002/aic.15300 | Wu, W., C. A. Henao and C. T. Maravelias | A superstructure representation, generation, and modeling framework for chemical process synthesis | AIChE Journal | 62(9) 3199-3214 |
| 2016 | 10.1016/j.compchemeng.2016.02.013 | Kong, L., S. M. Sen, C. A. Henao, J. A. Dumesic and C. T. Maravelias | A superstructure-based framework for simultaneous process synthesis, heat integration, and utility plant design | Computers and Chemical Engineering | 91 68-84 |
| 2016 | 10.1038/ncomms11706 | Abdel-Ghany, S. E., M. Hamilton, J. L. Jacobi, P. Ngam, N. Devitt, F. Schilkey, A. Ben-Hur and A. S. Reddy | A survey of the sorghum transcriptome using single-molecule long reads | Nature Communications | 7 11706 |
| 2016 | 10.1038/nmicrobiol.2016.130 | Preheim, S. P., S. W. Olesen, S. J. Spencer, A. Materna, C. Varadharajan, M. Blackburn, J. Friedman, J. Rodríguez, H. Hemond and E. J. Alm | Surveys, simulation and single-cell assays relate function and phylogeny in a lake ecosystem | Nature Microbiology | 1 |
| 2016 | 10.1016/j.soilbio.2015.11.020 | Liang, C., E. D. C. Jesus, D. S. Duncan, J. F. Quensen, R. D. Jackson, T. C. Balser and J. M. Tiedje | Switchgrass rhizospheres stimulate microbial biomass but deplete microbial necromass in agricultural soils of the upper Midwest, USA | Soil Biology and Biochemistry | 94 173-180 |
| 2016 | 10.1016/j.pbi.2016.03.014 | Huang, P. and T. P. Brutnell | A synthesis of transcriptomic surveys to dissect the genetic basis of C4 photosynthesis | Current Opinion in Plant Biology | 31 91–9 |
| 2016 | 10.1038/nchembio.2062 | Opgenorth, P. H., T. P. Korman and J. U. Bowie | A synthetic biochemistry module for production of bio-based chemicals from glucose | Nature Chemical Biology | 12(6) 393-395 |
| 2016 | 10.1016/j.jmb.2015.10.019 | Zomorrodi, A. R. and D. Segrè | Synthetic ecology of microbes: Mathematical models and applications | Journal of Molecular Biology | 428(5) 837-861 |
| 2016 | 10.1039/c6mb00237d | Chaiboonchoe, A., L. Ghamsari, B. Dohai, P. Ng, B. Khraiwesh, et al. | Systems level analysis of the Chlamydomonas reinhardtii metabolic network reveals variability in evolutionary co-conservation | Molecular BioSystems | 12(8) 2394–407 |
| 2016 | 10.1126/science.aaf2786 | Hackett, S. R., V. R. Zanotelli, W. Xu, J. Goya, J. O. Park, D. H. Perlman, P. A. Gibney, D. Botstein, J. D. Storey and J. D. Rabinowitz | Systems-level analysis of mechanisms regulating yeast metabolic flux | Science | 354(6311) |
| 2016 | 10.1186/s13029-016-0057-7 | Clark, L. V. and E. J. Sacks | TagDigger: user-friendly extraction of read counts from GBS and RAD-seq data | Source Code for Biology and Medicine | 11 11 |
| 2016 | 10.1016/j.soilbio.2016.02.008 | Bracho, R., S. Natali, E. Pegoraro, K. G. Crummer, C. Schadel, G. Celis, L. Hale, L. Y. Wu, H. Q. Yin, J. M. Tiedje, K. T. Konstantinidis, Y. Q. Luo, J. Z. Zhou and E. A. G. Schuur | Temperature sensitivity of organic matter decomposition of permafrost-region soils during laboratory incubations | Soil Biology and Biochemistry | 97 1–14 |
| 2016 | 10.1111/1758-2229.12352 | Mayali, X., B. Stewart, S. Mabery and P. K. Weber | Temporal succession in carbon incorporation from macromolecules by particle-attached bacteria in marine microcosms | Environmental Microbiology Reports | 8(1) 68–75 |
| 2016 | 10.1002/biot.201600266 | Harman-Ware, A. E., C. Foster, R. M. Happs, C. Doeppke, K. Meunier, J. Gehan, F. Yue, F. Lu and M. F. Davis | A thioacidolysis method tailored for higher-throughput quantitative analysis of lignin monomers | Biotechnology Journal | 11(10) 1268-1273 |
| 2016 | 10.1080/15592324.2015.1117721 | Bihmidine, S., B. T. Julius, I. Dweikat and D. M. Braun | Tonoplast Sugar Transporters (SbTSTs) putatively control sucrose accumulation in sweet sorghum stems | Plant Signaling & Behavior | 11(1) e1117721 |
| 2016 | 10.1128/mBio.00714-16 | Blaser, M. J., Z. G. Cardon, M. K. Cho, J. L. Dangl, T. J. Donohue, J. L. Green, R. Knight, M. E. Maxon, T. R. Northen, K. S. Pollard and E. L. Brodie | Toward a predictive understanding of earth’s microbiomes to address 21st century challenges | mBio | 7(3) |
| 2016 | 10.1039/c5gc02433a | Jin, M., L. Da Costa Sousa, C. Schwartz, Y. He, C. Sarks, C. Gunawan, V. Balan and B. E. Dale | Toward lower cost cellulosic biofuel production using ammonia based pretreatment technologies | Green Chemistry | 18(4) 957-966 |
| 2016 | 10.1002/2015gb005239 | Luo, Y. Q., A. Ahlstrom, S. D. Allison, N. H. Batjes, V. Brovkin, et al. | Toward more realistic projections of soil carbon dynamics by Earth system models | Global Biogeochemical Cycles | 30(1) 40–56 |
| 2016 | 10.1038/ncomms11152 | DeLoache, W. C., Z. N. Russ and J. E. Dueber | Towards repurposing the yeast peroxisome for compartmentalizing heterologous metabolic pathways | Nature Communications | 7 11152 |
| 2016 | 10.1016/j.copbio.2016.06.007 | Musat, N., F. Musat, P. K. Weber and J. Pett-Ridge | Tracking microbial interactions with NanoSIMS | Current Opinion in Biotechnology | 41 114–21 |
| 2016 | 10.1111/nph.13843 | Smith, S. R., C. Gle, R. M. Abbriano, J. C. Traller, A. Davis, E. Trentacoste, M. Vernet, A. E. Allen and M. Hildebrand | Transcript level coordination of carbon pathways during silicon starvation-induced lipid accumulation in the diatom Thalassiosira pseudonana | New Phytologist | 210(3) 890–904 |
| 2016 | 10.1038/nplants.2016.178 | Abraham, P. E., H. Yin, A. M. Borland, D. Weighill, S. D. Lim, et al. | Transcript, protein and metabolite temporal dynamics in the CAM plant Agave | Nature Plants | 2 16178 |
| 2016 | 10.1371/journal.pgen.1006490 | Smith, S. R., J. T. Gillard, A. B. Kustka, J. P. McCrow, J. H. Badger, H. Zheng, A. M. New, C. L. Dupont, T. Obata, A. R. Fernie and A. E. Allen | Transcriptional Orchestration of the Global Cellular Response of a Model Pennate Diatom to Diel Light Cycling under Iron Limitation | PLoS Genetics | 12(12) e1006490 |
| 2016 | 10.1104/pp.16.00014 | Kebrom, T. H. and J. E. Mullet | Transcriptome Profiling of Tiller Buds Provides New Insights into PhyB Regulation of Tillering and Indeterminate Growth in Sorghum | Plant Physiology | 170(4) 2232–50 |
| 2016 | 10.1007/s11120-016-0279-1 | Yoneda, A., B. J. Wittmann, J. D. King, R. E. Blankenship and G. Dantas | Transcriptomic analysis illuminates genes involved in chlorophyll synthesis after nitrogen starvation in Acaryochloris sp. CCMEE 5410 | Photosynthesis Research | 129(2) 171–82 |
| 2016 | 10.1007/7397_2015_16 | Hsia, M. M. and J. P. Vogel | Transformation and T-DNA Mutagenesis | Genetics and Genomics of Brachypodium | 147–53 |
| 2016 | 10.1111/pbi.12566 | Lin, J., M. Mazarei, N. Zhao, C. N. Hatcher, W. A. Wuddineh, M. Rudis, T. J. Tschaplinski, V. R. Pantalone, P. R. Arelli, T. Hewezi, F. Chen and C. N. Stewart, Jr. | Transgenic soybean overexpressing GmSAMT1 exhibits resistance to multiple-HG types of soybean cyst nematode Heterodera glycines | Plant Biotechnology Journal | 14(11) 2100–9 |
| 2016 | 10.1007/s00285-016-0990-8 | Rasmussen, M., A. Hastings, M. J. Smith, F. B. Agusto, B. M. Chen-Charpentier, F. M. Hoffman, J. Jiang, K. E. Todd-Brown, Y. Wang, Y. P. Wang and Y. Luo | Transit times and mean ages for nonautonomous and autonomous compartmental systems | Journal of Mathematical Biology | 73(6–7) 1379–98 |
| 2016 | 10.1007/978-3-319-25979-6_8 | Du, Z. Y. and C. Benning | Triacylglycerol accumulation in photosynthetic cells in plants and algae | Subcellular Biochemistry | 86 179-205 |
| 2016 | 10.1111/tpj.13315 | Lan, W., J. Rencoret, F. Lu, S. D. Karlen, B. G. Smith, P. J. Harris, J. C. Del Rio and J. Ralph | Tricin-lignins: occurrence and quantitation of tricin in relation to phylogeny | The Plant Journal | 88(6) 1046–57 |
| 2016 | 10.3389/fpls.2016.01493 | Hu, H., X. Gu, L. J. Xue, P. S. Swamy, S. A. Harding and C. J. Tsai | Tubulin C-terminal Post-translational Modifications Do Not Occur in Wood Forming Tissue of Populus | Frontiers in Plant Science | 7 1493 |
| 2016 | 10.1038/Nclimate2940 | Xue, K., M. M. Yuan, Z. J. Shi, Y. J. Qin, Y. Deng, et al. | Tundra soil carbon is vulnerable to rapid microbial decomposition under climate warming | Nature Climate Change | 6(6) 595–600 |
| 2016 | 10.3389/fpls.2016.00497 | Timm, C. M., D. A. Pelletier, S. S. Jawdy, L. E. Gunter, J. A. Henning, et al. | Two Poplar-Associated Bacterial Isolates Induce Additive Favorable Responses in a Constructed Plant-Microbiome System | Frontiers in Plant Science | 7 497 |
| 2016 | 10.1111/gcb.13192 | Xu, X., Z. Shi, X. Chen, Y. Lin, S. Niu, L. Jiang, R. Luo and Y. Luo | Unchanged carbon balance driven by equivalent responses of production and respiration to climate change in a mixed-grass prairie | Global Change Biology | 22(5) 1857–66 |
| 2016 | 10.1007/s00425-016-2507-5 | Sillo, F., J. U. Fangel, B. Henrissat, A. Faccio, P. Bonfante, F. Martin, W. G. Willats and R. Balestrini | Understanding plant cell-wall remodelling during the symbiotic interaction between Tuber melanosporum and Corylus avellana using a carbohydrate microarray | Planta | 244(2) 347–59 |
| 2016 | 10.1007/s12155-015-9662-6 | Yoo, C. G., H. Kim, F. Lu, A. Azarpira, X. Pan, K. K. Oh, J. S. Kim, J. Ralph and T. H. Kim | Understanding the physicochemical characteristics and the improved enzymatic saccharification of corn stover pretreated with aqueous and gaseous ammonia | Bioenergy Research | 9(1) 67-76 |
| 2016 | 10.3389/fmicb.2016.00703 | Pepe-Ranney, C., A. N. Campbell, C. N. Koechli, S. Berthrong and D. H. Buckley | Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil | Frontiers in Microbiology | 7 703 |
| 2016 | 10.1038/nrmicro.2016.149 | Martin, F., A. Kohler, C. Murat, C. Veneault-Fourrey and D. S. Hibbett | Unearthing the roots of ectomycorrhizal symbioses | Nature Reviews Microbiology | 14(12) 760–73 |
| 2016 | 10.1073/pnas.1613446113 | Broddrick, J. T., B. E. Rubin, D. G. Welkie, N. Du, N. Mih, S. Diamond, J. J. Lee, S. S. Golden and B. O. Palsson | Unique attributes of cyanobacterial metabolism revealed by improved genome-scale metabolic modeling and essential gene analysis | Proceedings of the National Academy of Sciences of the United States of America | 113(51) E8344–53 |
| 2016 | 10.3389/fpls.2016.00716 | Collier, R., J. Bragg, B. T. Hernandez, J. P. Vogel and R. Thilmony | Use of Agrobacterium rhizogenes Strain 18r12v and Paromomycin Selection for Transformation of Brachypodium distachyon and Brachypodium sylvaticum | Frontiers in Plant Science | 7 716 |
| 2016 | 10.1534/g3.116.030510 | Felderhoff, T. J., L. M. McIntyre, A. Saballos and W. Vermerris | Using Genotyping by Sequencing to Map Two Novel Anthracnose Resistance Loci in Sorghum bicolor | G3 Genes|Genomes|Genetics | 6(7) 1935–46 |
| 2016 | 10.1016/j.ecolmodel.2015.10.029 | Hunt, N. D., S. T. Gower, K. Nadelhoffer, K. Lajtha, K. Townsend and K. R. Brye | Validation of an agroecosystem process model (AGRO-BGC) on annual and perennial bioenergy feedstocks | Ecological Modelling | 321 23-34 |
| 2016 | 10.7717/peerj.2486 | Rinke, C., S. Low, B. J. Woodcroft, J. B. Raina, A. Skarshewski, X. H. Le, M. K. Butler, R. Stocker, J. Seymour, G. W. Tyson and P. Hugenholtz | Validation of picogram- and femtogram-input DNA libraries for microscale metagenomics | PeerJ | 4 e2486 |
| 2016 | 10.3389/fmicb.2016.00668 | Xue, K., J. Xie, A. Zhou, F. Liu, D. Li, L. Wu, Y. Deng, Z. He, J. D. Van Nostrand, Y. Luo and J. Zhou | Warming Alters Expressions of Microbial Functional Genes Important to Ecosystem Functioning | Frontiers in Microbiology | 7 668 |
| 2016 | 10.1186/s13059-016-0968-2 | Feist, A. M. and B. O. Palsson | What do cells actually want? | Genome Biology | 17(1) |
| 2016 | 10.1016/j.biocon.2016.10.001 | Tscharntke, T., D. S. Karp, R. Chaplin-Kramer, P. Batáry, F. DeClerck, et al. | When natural habitat fails to enhance biological pest control – Five hypotheses | Biological Conservation | 204 449-458 |
| 2016 | 10.1080/14789450.2016.1209415 | Mohr, B. P., S. T. Retterer and M. J. Doktycz | While-you-wait proteins? Producing biomolecules at the point of need | Expert Review of Proteomics | 13(8) 707–9 |
| 2015 | 10.1371/journal.pcbi.1004079 | Weighill, D. A. and D. A. Jacobson | 3-way networks: application of hypergraphs for modelling increased complexity in comparative genomics | PLoS Computational Biology | 11(3) e1004079 |
| 2015 | 10.1007/978-3-662-46011-5_9 | McLaughlin, D. J., T. K. A. Kumar, M. Blackwell, P. M. Letcher and R. W. Roberson | 9 Subcellular Structure and Biochemical Characters in Fungal Phylogeny | Systematics and Evolution: Part B | 7B 229–58 |
| 2015 | 10.1163/9789004283756_021 | Motzki, H. | Abraham, hagar and ishmael at mecca a contribution to the problem of dating Muslim traditions | Islamic History and Civilization | 113 361-384 |
| 2015 | 10.1101/gr.183012.114 | Sharon, I., M. Kertesz, L. A. Hug, D. Pushkarev, T. A. Blauwkamp, C. J. Castelle, M. Amirebrahimi, B. C. Thomas, D. Burstein, S. G. Tringe, K. H. Williams and J. F. Banfield | Accurate, multi-kb reads resolve complex populations and detect rare microorganisms | Genome Research | 25(4) 534–43 |
| 2015 | 10.1038/ismej.2015.13 | Lau, M. C., B. T. Stackhouse, A. C. Layton, A. Chauhan, T. A. Vishnivetskaya, et al. | An active atmospheric methane sink in high Arctic mineral cryosols | The ISME Journal | 9(8) 1880–91 |
| 2015 | 10.1074/jbc.M114.623579 | Bianchetti, C. M., T. E. Takasuka, S. Deutsch, H. S. Udell, E. J. Yik, L. F. Bergeman and B. G. Fox | Active site and laminarin binding in glycoside hydrolase family 55 | Journal of Biological Chemistry | 290(19) 11819-11832 |
| 2015 | 10.1128/AEM.01365-15 | Latif, H., M. Sahin, J. Tarasova, Y. Tarasova, V. A. Portnoy, J. Nogales and K. Zengler | Adaptive evolution of Thermotoga maritima reveals plasticity of the ABC transporter network | Applied and Environmental Microbiology | 81(16) 5477-5485 |
| 2015 | 10.1002/bit.25359 | Ko, J. K., E. Ximenes, Y. Kim and M. R. Ladisch | Adsorption of enzyme onto lignins of liquid hot water pretreated hardwoods | Biotechnology and Bioengineering | 112(3) 447–56 |
| 2015 | 10.1094/MPMI-06-14-0187-R | Cecchini, N. M., H. W. Jung, N. L. Engle, T. J. Tschaplinski and J. T. Greenberg | ALD1 Regulates Basal Immune Components and Early Inducible Defense Responses in Arabidopsis | Molecular Plant-Microbe Interactions | 28(4) 455–66 |
| 2015 | 10.1007/s00299-014-1710-8 | McGlew, K., V. Shaw, M. Zhang, R. J. Kim, W. Yang, B. Shorrosh, M. C. Suh and J. Ohlrogge | An annotated database of Arabidopsis mutants of acyl lipid metabolism | Plant Cell Reports | 34(4) 519-532 |
| 2015 | 10.1016/j.copbio.2015.08.004 | McAtee, A. G., L. J. Jazmin and J. D. Young | Application of isotope labeling experiments and 13C flux analysis to enable rational pathway engineering | Current Opinion in Biotechnology | 36 50–6 |
| 2015 | 10.1111/1567-1364.12199 | Kerkhoven, E. J., P. J. Lahtvee and J. Nielsen | Applications of computational modeling in metabolic engineering of yeast | FEMS Yeast Research | 15(1) |
| 2015 | 10.1038/ismej.2015.2 | Hug, L. A., B. C. Thomas, C. T. Brown, K. R. Frischkorn, K. H. Williams, S. G. Tringe and J. F. Banfield | Aquifer environment selects for microbial species cohorts in sediment and groundwater | The ISME Journal | 9(8) 1846–56 |
| 2015 | 10.1105/tpc.15.00588 | Cai, Y., J. M. Goodman, M. Pyc, R. T. Mullen, J. M. Dyer and K. D. Chapman | Arabidopsis SEIPIN Proteins Modulate Triacylglycerol Accumulation and Influence Lipid Droplet Proliferation | The Plant Cell | 27(9) 2616–36 |
| 2015 | 10.1038/srep18165 | Kao-Kniffin, J., B. J. Woodcroft, S. M. Carver, J. G. Bockheim, J. Handelsman, G. W. Tyson, K. M. Hinkel and C. W. Mueller | Archaeal and bacterial communities across a chronosequence of drained lake basins in Arctic Alaska | Scientific Reports | 5 18165 |
| 2015 | 10.1016/j.envsoft.2015.06.006 | Kyle, P., A. Thomson, M. Wise and X. Zhang | Assessment of the importance of spatial scale in long-term land use modeling of the Midwestern United States | Environmental Modelling and Software | 72 261-271 |
| 2015 | 10.1021/ac504118y | Xu, Y. F., W. Lu and J. D. Rabinowitz | Avoiding misannotation of in-source fragmentation products as cellular metabolites in liquid chromatography-mass spectrometry-based metabolomics | Analytical Chemistry | 87(4) 2273–81 |
| 2015 | 10.1101/gr.182477.114 | Suzuki, Y., N. Assad-Garcia, M. Kostylev, V. N. Noskov, K. S. Wise, et al. | Bacterial genome reduction using the progressive clustering of deletions via yeast sexual cycling | Genome Research | 25(3) 435–44 |
| 2015 | 10.1016/j.copbio.2015.08.008 | Hays, S. G., W. G. Patrick, M. Ziesack, N. Oxman and P. A. Silver | Better together: engineering and application of microbial symbioses | Current Opinion in Biotechnology | 36 40–9 |
| 2015 | 10.1021/jacs.5b04520 | Winter, J. M., D. Cascio, D. Dietrich, M. Sato, K. Watanabe, M. R. Sawaya, J. C. Vederas and Y. Tang | Biochemical and Structural Basis for Controlling Chemical Modularity in Fungal Polyketide Biosynthesis | Journal of the American Chemical Society | 137(31) 9885-9893 |
| 2015 | 10.1038/nature14121 | Mandell, D. J., M. J. Lajoie, M. T. Mee, R. Takeuchi, G. Kuznetsov, J. E. Norville, C. J. Gregg, B. L. Stoddard and G. M. Church | Biocontainment of genetically modified organisms by synthetic protein design | Nature | 518(7537) 55–60 |
| 2015 | 10.1038/ngeo2553 | Campioli, M., S. Vicca, S. Luyssaert, J. Bilcke, E. Ceschia, et al. | Biomass production efficiency controlled by management in temperate and boreal ecosystems | Nature Geoscience | 8(11) 843-846 |
| 2015 | 10.1007/978-1-4939-2285-7_5 | Shen, T. and C. F. Wong | Brownian dynamics simulation of peptides with the University of Houston Brownian Dynamics (UHBD) program | Methods in Molecular Biology | 1268 75–87 |
| 2015 | 10.1007/s11273-015-9421-7 | Meirelles, M. L., R. Bracho and E. A. B. Ferreira | Carbon dioxide exchange in a tropical wet grassland | Wetlands Ecology and Management | 23(5) 817–26 |
| 2015 | 10.1038/nmeth.3580 | Kiani, S., A. Chavez, M. Tuttle, R. N. Hall, R. Chari, et al. | Cas9 gRNA engineering for genome editing, activation and repression | Nature Methods | 12(11) 1051–4 |
| 2015 | 10.1007/s12155-014-9573-y | Tanger, P., M. E. Vega-Sánchez, M. Fleming, K. Tran, S. Singh, et al. | Cell Wall Composition and Bioenergy Potential of Rice Straw Tissues Are Influenced by Environment, Tissue Type, and Genotype | Bioenergy Research | 8(3) 1165-1182 |
| 2015 | 10.1111/nph.13378 | Johnsen, H. R., B. Striberny, S. Olsen, S. Vidal-Melgosa, J. U. Fangel, W. G. Willats, J. K. Rose and K. Krause | Cell wall composition profiling of parasitic giant dodder (Cuscuta reflexa) and its hosts: a priori differences and induced changes | New Phytologist | 207(3) 805–16 |
| 2015 | 10.1038/ncomms10149 | Brady, S. K., S. Sreelatha, Y. Feng, S. P. S. Chundawat and M. J. Lang | Cellobiohydrolase 1 from Trichoderma reesei degrades cellulose in single cellobiose steps | Nature Communications | 6 |
| 2015 | 10.1016/B978-0-12-800776-1.00022-4 | Rosenberg, J. N., V. H. Oh, G. Yu, B. J. Guzman, G. A. Oyler and M. J. Betenbaugh | Chapter 22 - Exploiting the Molecular Genetics of Microalgae: From Strain Development Pipelines to the Uncharted Waters of Mass Production | Handbook of Marine Microalgae: Biotechnology Advances | 331-352 |
| 2015 | 10.1007/s00248-014-0469-3 | Hanshew, A. S., B. R. McDonald, C. Díaz Díaz, C. Djiéto-Lordon, R. Blatrix and C. R. Currie | Characterization of Actinobacteria Associated with Three Ant–Plant Mutualisms | Microbial Ecology | 69(1) 192-203 |
| 2015 | 10.1155/2015/472726 | Hamerly, T., B. Tripet, L. Wurch, R. L. Hettich, M. Podar, B. Bothner and V. Copie | Characterization of Fatty Acids in Crenarchaeota by GC-MS and NMR | Archaea | 2015 472726 |
| 2015 | 10.1073/pnas.1506289112 | Gibney, P. A., A. Schieler, J. C. Chen, J. D. Rabinowitz and D. Botstein | Characterizing the in vivo role of trehalose in Saccharomyces cerevisiae using the AGT1 transporter | Proceedings of the National Academy of Sciences of the United States of America | 112(19) 6116–21 |
| 2015 | 10.1111/pce.12479 | Borland, A. M., S. D. Wullschleger, D. J. Weston, J. Hartwell, G. A. Tuskan, X. Yang and J. C. Cushman | Climate-resilient agroforestry: physiological responses to climate change and engineering of crassulacean acid metabolism (CAM) as a mitigation strategy | Plant Cell & Environment | 38(9) 1833–49 |
| 2015 | 10.1371/journal.pone.0137466 | Kostylev, M., A. E. Otwell, R. E. Richardson and Y. Suzuki | Cloning Should Be Simple: Escherichia coli DH5α-Mediated Assembly of Multiple DNA Fragments with Short End Homologies | PLoS One | 10(9) e0137466 |
| 2015 | 10.3389/fmicb.2015.01278 | Pellegrin, C., E. Morin, F. M. Martin and C. Veneault-Fourrey | Comparative Analysis of Secretomes from Ectomycorrhizal Fungi with an Emphasis on Small-Secreted Proteins | Frontiers in Microbiology | 6 1278 |
| 2015 | 10.1111/nph.13546 | Dore, J., M. Perraud, C. Dieryckx, A. Kohler, E. Morin, B. Henrissat, E. Lindquist, S. D. Zimmermann, V. Girard, A. Kuo, I. V. Grigoriev, F. Martin, R. Marmeisse and G. Gay | Comparative genomics, proteomics and transcriptomics give new insight into the exoproteome of the basidiomycete Hebeloma cylindrosporum and its involvement in ectomycorrhizal symbiosis | New Phytologist | 208(4) 1169–87 |
| 2015 | 10.1016/j.biombioe.2015.01.018 | Kim, S. and B. E. Dale | Comparing alternative cellulosic biomass biorefining systems: Centralized versus distributed processing systems | Biomass and Bioenergy | 74 135-147 |
| 2015 | 10.1007/s00248-015-0615-6 | Mason, O. U., D. H. Case, T. H. Naehr, R. W. Lee, R. B. Thomas, J. V. Bailey and V. J. Orphan | Comparison of Archaeal and Bacterial Diversity in Methane Seep Carbonate Nodules and Host Sediments, Eel River Basin and Hydrate Ridge, USA | Microbial Ecology | 70(3) 766–84 |
| 2015 | 10.3389/fenrg.2014.00062 | Singh, S., G. Cheng, N. Sathitsuksanoh, D. Wu, P. Varanasi, A. George, V. Balan, X. Gao, R. Kumar, B. E. Dale, C. E. Wyman and B. A. Simmons | Comparison of different biomass pretreatment techniques and their impact on chemistry and structure | Frontiers in Energy Research | 3(FEB) |
| 2015 | 10.1016/j.soilbio.2015.07.022 | Swenson, T. L., B. P. Bowen, P. S. Nico and T. R. Northen | Competitive sorption of microbial metabolites on an iron oxide mineral | Soil Biology and Biochemistry | 90 34–41 |
| 2015 | 10.1007/s12155-015-9585-2 | Brumm, P., M. L. Land, L. J. Hauser, C. D. Jeffries, Y. J. Chang and D. A. Mead | Complete Genome Sequence of Geobacillus strain Y4.1MC1, a Novel CO-Utilizing Geobacillus thermoglucosidasius Strain Isolated from Bath Hot Spring in Yellowstone National Park | Bioenergy Research | 8(3) 1039-1045 |
| 2015 | 10.1186/s40793-015-0031-z | Brumm, P. J., M. L. Land and D. A. Mead | Complete genome sequence of Geobacillus thermoglucosidasius C56-YS93, a novel biomass degrader isolated from obsidian hot spring in Yellowstone National Park | Standards in Genomic Sciences | 10(1) |
| 2015 | 10.1186/s40793-015-0075-0 | Brumm, P., M. L. Land, L. J. Hauser, C. D. Jeffries, Y. J. Chang and D. A. Mead | Complete genome sequences of Geobacillus sp. Y412MC52, a xylan-degrading strain isolated from obsidian hot spring in Yellowstone National Park | Standards in Genomic Sciences | 10(1) |
| 2015 | 10.1186/s13068-015-0260-9 | Venkataramanan, K. P., L. Min, S. Hou, S. W. Jones, M. T. Ralston, K. H. Lee and E. T. Papoutsakis | Complex and extensive post-transcriptional regulation revealed by integrative proteomic and transcriptomic analysis of metabolite stress response in Clostridium acetobutylicum | Biotechnology for Biofuels | 8 81 |
| 2015 | 10.1016/j.copbio.2014.12.019 | Long, M. R., W. K. Ong and J. L. Reed | Computational methods in metabolic engineering for strain design | Current Opinion in Biotechnology | 34 135–41 |
| 2015 | 10.1371/journal.pone.0123925 | Rempe, C. S., K. P. Burris, H. L. Woo, B. Goodrich, D. K. Gosnell, T. J. Tschaplinski and C. N. Stewart, Jr. | Computational Ranking of Yerba Mate Small Molecules Based on Their Predicted Contribution to Antibacterial Activity against Methicillin-Resistant Staphylococcus aureus | PLoS One | 10(5) e0123925 |
| 2015 | 10.3390/molecules200610032 | Yue, Y., Y. Chu and H. Guo | Computational Study of Symmetric Methylation on Histone Arginine Catalyzed by Protein Arginine Methyltransferase PRMT5 through QM/MM MD and Free Energy Simulations | Molecules | 20(6) 10032–46 |
| 2015 | 10.1186/s13068-015-0356-2 | Serate, J., D. Xie, E. Pohlmann, C. Donald, M. Shabani, et al. | Controlling microbial contamination during hydrolysis of AFEX-pretreated corn stover and switchgrass: Effects on hydrolysate composition, microbial response and fermentation | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1038/ng.3223 | Kohler, A., A. Kuo, L. G. Nagy, E. Morin, K. W. Barry, et al. | Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists | Nature Genetics | 47(4) 410–5 |
| 2015 | 10.1080/21645698.2015.1091553 | Tsai, C. J. and L. J. Xue | CRISPRing into the woods | GM Crops & Food | 6(4) 206–15 |
| 2015 | 10.1186/s12864-015-2065-4 | Cárdenas-Conejo, Y., V. Carballo-Uicab, M. Lieberman, M. Aguilar-Espinosa, L. Comai and R. Rivera-Madrid | De novo transcriptome sequencing in Bixa orellana to identify genes involved in methylerythritol phosphate, carotenoid and bixin biosynthesis | BMC Genomics | 16(1) |
| 2015 | 10.1016/j.soilbio.2015.04.005 | Holden, S. R., A. A. Berhe and K. K. Treseder | Decreases in soil moisture and organic matter quality suppress microbial decomposition following a boreal forest fire | Soil Biology and Biochemistry | 87 1–9 |
| 2015 | 10.1016/j.ymeth.2015.05.022 | Myers, K. S., D. M. Park, N. A. Beauchene and P. J. Kiley | Defining bacterial regulons using ChIP-seq | Methods | 86 80-88 |
| 2015 | 10.1186/s12711-015-0105-9 | Beissinger, T. M., G. J. Rosa, S. M. Kaeppler, D. Gianola and N. De Leon | Defining window-boundaries for genomic analyses using smoothing spline techniques | Genetics Selection Evolution | 47(1) |
| 2015 | 10.1038/ismej.2014.201 | Yoon, S., C. Cruz-García, R. Sanford, K. M. Ritalahti and F. E. Löffler | Denitrification versus respiratory ammonification: Environmental controls of two competing dissimilatory NO 3-/NO 2-reduction pathways in Shewanella loihica strain PV-4 | ISME Journal | 9(5) 1093-1104 |
| 2015 | 10.3389/fmicb.2015.00746 | Penton, C. R., D. St Louis, A. Pham, J. R. Cole, L. Wu, Y. Luo, E. A. Schuur, J. Zhou and J. M. Tiedje | Denitrifying and diazotrophic community responses to artificial warming in permafrost and tallgrass prairie soils | Frontiers in Microbiology | 6 746 |
| 2015 | 10.1038/ncomms7925 | Karas, B. J., R. E. Diner, S. C. Lefebvre, J. McQuaid, A. P. Phillips, et al. | Designer diatom episomes delivered by bacterial conjugation | Nature Communications | 6 6925 |
| 2015 | 10.1186/s13068-014-0179-6 | Tang, X., L. D. C. Sousa, M. Jin, S. P. S. Chundawat, C. K. Chambliss, M. W. Lau, Z. Xiao, B. E. Dale and V. Balan | Designer synthetic media for studying microbialcatalyzed biofuel production | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1002/bip.22555 | Lindner, B., L. Petridis, P. Langan and J. C. Smith | Determination of cellulose crystallinity from powder diffraction diagrams | Biopolymers | 103(2) 67–73 |
| 2015 | 10.1093/jxb/erv087 | Cushman, J. C., S. C. Davis, X. Yang and A. M. Borland | Development and use of bioenergy feedstocks for semi-arid and arid lands | Journal of Experimental Botany | 66(14) 4177–93 |
| 2015 | 10.3389/fbioe.2015.00153 | Deng, K., J. M. Guenther, J. Gao, B. P. Bowen, H. Tran, et al. | Development of a high throughput platform for screening glycoside hydrolases based on Oxime-NIMS | Frontiers in Bioengineering and Biotechnology | 3(OCT) |
| 2015 | 10.1104/pp.114.255620 | Vayssieres, A., A. Pencik, J. Felten, A. Kohler, K. Ljung, F. Martin and V. Legue | Development of the Poplar-Laccaria bicolor Ectomycorrhiza Modifies Root Auxin Metabolism, Signaling, and Response | Plant Physiology | 169(1) 890–902 |
| 2015 | 10.1016/j.biombioe.2015.07.006 | del Río, J. C., A. G. Lino, J. L. Colodette, C. F. Lima, A. Gutiérrez, Á. T. Martínez, F. Lu, J. Ralph and J. Rencoret | Differences in the chemical structure of the lignins from sugarcane bagasse and straw | Biomass and Bioenergy | 81 322-338 |
| 2015 | 10.1073/pnas.1504986112 | Wan, Q., J. M. Parks, B. L. Hanson, S. Z. Fisher, A. Ostermann, T. E. Schrader, D. E. Graham, L. Coates, P. Langan and A. Kovalevsky | Direct determination of protonation states and visualization of hydrogen bonding in a glycoside hydrolase with neutron crystallography | Proceedings of the National Academy of Sciences of the United States of America | 112(40) 12384–9 |
| 2015 | 10.1371/journal.pone.0126256 | Berthelier, V., J. B. Harris, K. N. Estenson and J. Baudry | Discovery of an inhibitor of Z-alpha1 antitrypsin polymerization | PLoS One | 10(5) e0126256 |
| 2015 | 10.1021/ja511297d | Welsher, K., S. A. McManus, C. H. Hsia, S. Yin and H. Yang | Discovery of protein- and DNA-imperceptible nanoparticle hard coating using gel-based reaction tuning | Journal of the American Chemical Society | 137(2) 580–3 |
| 2015 | 10.1007/s00300-014-1598-3 | Wei, S. T. S., M. A. Fernandez-Martinez, Y. K. Chan, J. D. Van Nostrand, A. de los Rios-Murillo, J. M. Y. Chiu, A. M. Ganeshram, S. C. Cary, J. Z. Zhou and S. B. Pointing | Diverse metabolic and stress-tolerance pathways in chasmoendolithic and soil communities of Miers Valley, McMurdo Dry Valleys, Antarctica | Polar Biology | 38(4) 433–43 |
| 2015 | 10.1007/s12155-015-9660-8 | Slater, S. C., B. A. Simmons, T. S. Rogers, M. F. Phillips, K. Nordahl and B. H. Davison | The DOE Bioenergy Research Centers: History, Operations, and Scientific Output | Bioenergy Research | 8(3) 881-896 |
| 2015 | 10.1128/genomeA.00444-15 | Coelho, M. A., J. M. G. C. F. Almeida, C. T. Hittinger and P. Gonçalves | Draft genome sequence of Sporidiobolus salmonicolor CBS 6832, a red-pigmented basidiomycetous yeast | Genome Announcements | 3(3) |
| 2015 | 10.1128/genomeA.01211-15 | Pomraning, K. R. and S. E. Baker | Draft Genome Sequence of the Dimorphic Yeast Yarrowia lipolytica Strain W29 | Genome Announcements | 3(6) |
| 2015 | 10.1128/genomeA.01344-15 | Klingeman, D. M., S. Utturkar, T. Y. Lu, C. W. Schadt, D. A. Pelletier and S. D. Brown | Draft Genome Sequences of Four Streptomyces Isolates from the Populus trichocarpa Root Endosphere and Rhizosphere | Genome Announcements | 3(6) |
| 2015 | 10.1128/genomeA.00103-15 | Kalyuzhnaya, M. G., A. E. Lamb, T. L. McTaggart, I. Y. Oshkin, N. Shapiro, T. Woyke and L. Chistoserdova | Draft genome sequences of gammaproteobacterial methanotrophs isolated from Lake Washington sediment | Genome Announcements | 3(2) |
| 2015 | 10.1080/21655979.2015.1060379 | Gilmore, S. P., J. K. Henske and M. A. O'Malley | Driving biomass breakdown through engineered cellulosomes | Bioengineered | 6(4) 204–8 |
| 2015 | 10.1038/nphys3553 | Hu, X., L. Hong, M. Dean Smith, T. Neusius, X. Cheng and Jeremy C. Smith | The Dynamics of Single Protein Molecules is Non-Equilibrium and Self-Similar over Thirteen Decades in Time | Nature Physics | 12(2) 171–4 |
| 2015 | 10.1016/j.plaphy.2014.11.008 | Wang, B., C. Mei and J. R. Seiler | Early growth promotion and leaf level physiology changes in Burkholderia phytofirmans strain PsJN inoculated switchgrass | Plant Physiology and Biochemistry | 86 16–23 |
| 2015 | 10.1093/molbev/msv112 | Clowers, K. J., J. Heilberger, J. S. Piotrowski, J. L. Will and A. P. Gasch | Ecological and genetic barriers differentiate natural populations of saccharomyces cerevisiae | Molecular Biology and Evolution | 32(9) 2317-2327 |
| 2015 | 10.1002/bit.25349 | Ko, J. K., Y. Kim, E. Ximenes and M. R. Ladisch | Effect of liquid hot water pretreatment severity on properties of hardwood lignin and enzymatic hydrolysis of cellulose | Biotechnology and Bioengineering | 112(2) 252–62 |
| 2015 | 10.1002/2015jg003004 | Stackhouse, B. T., T. A. Vishnivetskaya, A. Layton, A. Chauhan, S. Pfiffner, N. C. Mykytczuk, R. Sanders, L. G. Whyte, L. Hedin, N. Saad, S. Myneni and T. C. Onstott | Effects of simulated spring thaw of permafrost from mineral cryosol on CO2 emissions and atmospheric CH4 uptake | Journal of Geophysical Research: Biogeosciences | 120(9) 1764–84 |
| 2015 | 10.1128/EC.00106-15 | Lee, J. H., J. E. Heuser, R. Roth and U. Goodenough | Eisosome Ultrastructure and Evolution in Fungi, Microalgae, and Lichens | Eukaryotic Cell | 14(10) 1017–42 |
| 2015 | 10.1038/ismej.2014.113 | Mosier, A. C., Z. Li, B. C. Thomas, R. L. Hettich, C. Pan and J. F. Banfield | Elevated temperature alters proteomic responses of individual organisms within a biofilm community | The ISME Journal | 9(1) 180–94 |
| 2015 | 10.1146/annurev-arplant-042811-105528 | Brutnell, T. P., J. L. Bennetzen and J. P. Vogel | Brachypodium distachyon and Setaria viridis: Model Genetic Systems for the Grasses | Annual Review of Plant Biology | 66 465–85 |
| 2015 | 10.1007/7397_2015_13 | Des Marais, D. L. and T. E. Juenger | Brachypodium and the abiotic environment | Genetics and Genomics of Brachypodium | 18 291–311 |
| 2015 | 10.1016/j.biombioe.2015.10.029 | Wang, B. X., J. R. Seiler and C. S. Mei | Burkholderia phytofirmans strain PsJN advanced development and altered leaf level physiology of switchgrass | Biomass & Bioenergy | 83 493–500 |
| 2015 | 10.1128/MMBR.00025-14 | Al-Hinai, M. A., S. W. Jones and E. T. Papoutsakis | The Clostridium sporulation programs: diversity and preservation of endospore differentiation | Microbiology and Molecular Biology Reviews | 79(1) 19–37 |
| 2015 | 10.1042/BJ20141391 | Cho, S. H., J. Du, I. Sines, V. G. Poosarla, V. Vepachedu, K. Kafle, Y. B. Park, S. H. Kim, M. Kumar and B. T. Nixon | In vitro synthesis of cellulose microfibrils by a membrane protein from protoplasts of the non-vascular plant Physcomitrella patens | Biochemical Journal | 470(2) 195–205 |
| 2015 | 10.1111/nph.13151 | Liu, L., M. Zinkgraf, H. E. Petzold, E. P. Beers, V. Filkov and A. Groover | The Populus ARBORKNOX1 homeodomain transcription factor regulates woody growth through binding to evolutionarily conserved target genes of diverse function | New Phytologist | 205(2) 682–94 |
| 2015 | 10.1186/s12934-015-0319-0 | Zhang, H., Z. Li, B. Pereira and G. Stephanopoulos | Engineering E. coli-E. coli cocultures for production of muconic acid from glycerol | Microbial Cell Factories | 14 134 |
| 2015 | 10.1073/pnas.1506781112 | Zhang, H., B. Pereira, Z. Li and G. Stephanopoulos | Engineering Escherichia coli coculture systems for the production of biochemical products | Proceedings of the National Academy of Sciences of the United States of America | 112(27) 8266–71 |
| 2015 | 10.1016/j.copbio.2015.08.001 | Levering, J., J. Broddrick and K. Zengler | Engineering of oleaginous organisms for lipid production | Current Opinion in Biotechnology | 36 32–9 |
| 2015 | 10.1016/j.pbi.2015.05.018 | Loqué, D., H. V. Scheller and M. Pauly | Engineering of plant cell walls for enhanced biofuel production | Current Opinion in Plant Biology | 25 151-161 |
| 2015 | 10.1039/c5mb00289c | Abil, Z. and H. Zhao | Engineering reprogrammable RNA-binding proteins for study and manipulation of the transcriptome | Molecular BioSystems | 11(10) 2658–65 |
| 2015 | 10.1016/j.ijms.2015.07.008 | Wongkongkathep, P., H. Li, X. Zhang, R. R. Ogorzalek Loo, R. R. Julian and J. A. Loo | Enhancing protein disulfide bond cleavage by UV excitation and electron capture dissociation for top-down mass spectrometry | International Journal of Mass Spectrometry | 390 137-145 |
| 2015 | 10.1371/journal.pone.0134752 | Aylward, F. O., L. Khadempour, D. M. Tremmel, B. R. McDonald, C. D. Nicora, et al. | Enrichment and broad representation of plant biomass-degrading enzymes in the specialized hyphal swellings of leucoagaricus gongylophorus, the fungal symbiont of leaf-cutter ants | PLoS ONE | 10(8) |
| 2015 | 10.1039/c4ib00257a | Lafontaine Rivera, J. G., Y. Lee and J. C. Liao | An entropy-like index of bifurcational robustness for metabolic systems | Integrative Biology | 7(8) 895–903 |
| 2015 | 10.1016/j.molp.2014.10.011 | Filichkin, S. A., J. S. Cumbie, P. Dharmawardhana, P. Jaiswal, J. H. Chang, S. G. Palusa, A. S. Reddy, M. Megraw and T. C. Mockler | Environmental stresses modulate abundance and timing of alternatively spliced circadian transcripts in Arabidopsis | Molecular Plant | 8(2) 207–27 |
| 2015 | 10.1038/nchembio.1816 | DeLoache, W. C., Z. N. Russ, L. Narcross, A. M. Gonzales, V. J. Martin and J. E. Dueber | An enzyme-coupled biosensor enables (S)-reticuline production in yeast from glucose | Nature Chemical Biology | 11(7) 465–71 |
| 2015 | 10.1371/journal.pcbi.1004321 | King, Z. A., A. Drager, A. Ebrahim, N. Sonnenschein, N. E. Lewis and B. O. Palsson | Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways | PLoS Computational Biology | 11(8) e1004321 |
| 2015 | 10.1128/JB.02478-14 | Good, N. M., N. C. Martinez-Gomez, D. A. Beck and M. E. Lidstrom | Ethylmalonyl coenzyme A mutase operates as a metabolic control point in Methylobacterium extorquens AM1 | Journal of Bacteriology | 197(4) 727–35 |
| 2015 | 10.1371/journal.pone.0143809 | Burnet, M. C., A. C. Dohnalkova, A. P. Neumann, M. S. Lipton, R. D. Smith, G. Suen and S. J. Callister | Evaluating Models of Cellulose Degradation by Fibrobacter succinogenes S85 | PLoS One | 10(12) e0143809 |
| 2015 | 10.1111/1758-2229.12259 | Meinhardt, K. A., A. Bertagnolli, M. W. Pannu, S. E. Strand, S. L. Brown and D. A. Stahl | Evaluation of revised polymerase chain reaction primers for more inclusive quantification of ammonia-oxidizing archaea and bacteria | Environmental Microbiology Reports | 7(2) 354–63 |
| 2015 | 10.1128/AEM.00111-15 | Zhang, B., C. R. Penton, C. Xue, Q. Wang, T. Zheng and J. M. Tiedje | Evaluation of the Ion Torrent Personal Genome Machine for Gene-Targeted Studies Using Amplicons of the Nitrogenase Gene nifH | Applied and Environmental Microbiology | 81(13) 4536–45 |
| 2015 | 10.1038/nbt.3372 | Amiram, M., A. D. Haimovich, C. Fan, Y. S. Wang, H. R. Aerni, et al. | Evolution of translation machinery in recoded bacteria enables multi-site incorporation of nonstandard amino acids | Nature Biotechnology | 33(12) 1272–9 |
| 2015 | 10.1186/s13068-015-0239-6 | Slininger, P. J., M. A. Shea-Andersh, S. R. Thompson, B. S. Dien, C. P. Kurtzman, V. Balan, L. Da Costa Sousa, N. Uppugundla, B. E. Dale and M. A. Cotta | Evolved strains of Scheffersomyces stipitis achieving high ethanol productivity on acid- and base-pretreated biomass hydrolyzate at high solids loading | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1111/nph.13290 | Dickie, I. A., I. Alexander, S. Lennon, M. Opik, M. A. Selosse, M. G. A. van der Heijden and F. M. Martin | Evolving insights to understanding mycorrhizas | New Phytologist | 205(4) 1369–74 |
| 2015 | 10.1038/ncomms9289 | Baran, R., E. L. Brodie, J. Mayberry-Lewis, E. Hummel, U. N. Da Rocha, R. Chakraborty, B. P. Bowen, U. Karaoz, H. Cadillo-Quiroz, F. Garcia-Pichel and T. R. Northen | Exometabolite niche partitioning among sympatric soil bacteria | Nature Communications | 6 8289 |
| 2015 | 10.1007/s11295-015-0907-5 | Xue, L.-J., M. S. Alabady, M. Mohebbi and C.-J. Tsai | Exploiting genome variation to improve next-generation sequencing data analysis and genome editing efficiency in Populus tremula × alba 717-1B4 | Tree Genetics & Genomes | 11(4) 82 |
| 2015 | 10.1186/s13637-015-0026-5 | Hou, J., G. Stacey and J. Cheng | Exploring soybean metabolic pathways based on probabilistic graphical model and knowledge-based methods | EURASIP Journal on Bioinformatics and Systems Biology | 2015 5 |
| 2015 | 10.1016/j.molp.2014.12.001 | Widhalm, J. R. and N. Dudareva | A familiar ring to it: biosynthesis of plant benzoic acids | Molecular Plant | 8(1) 83–97 |
| 2015 | 10.1016/j.indcrop.2014.11.019 | Liu, J., H. Tjellström, K. McGlew, V. Shaw, A. Rice, J. Simpson, D. Kosma, W. Ma, W. Yang, M. Strawsine, E. Cahoon, T. P. Durrett and J. Ohlrogge | Field production, purification and analysis of high-oleic acetyl-triacylglycerols from transgenic Camelina sativa | Industrial Crops and Products | 65 259-268 |
| 2015 | 10.1128/AEM.04040-14 | Tu, Q., M. Yuan, Z. He, Y. Deng, K. Xue, L. Wu, S. E. Hobbie, P. B. Reich and J. Zhou | Fungal communities respond to long-term CO2 elevation by community reassembly | Applied and Environmental Microbiology | 81(7) 2445–54 |
| 2015 | 10.7554/eLife.10606 | Feng, J., B. W. Jester, C. E. Tinberg, D. J. Mandell, M. S. Antunes, R. Chari, K. J. Morey, X. Rios, J. I. Medford, G. M. Church, S. Fields and D. Baker | A general strategy to construct small molecule biosensors in eukaryotes | eLife | 4 |
| 2015 | 10.1007/s11120-015-0076-2 | Cameron, J. C., G. C. Gordon and B. F. Pfleger | Genetic and genomic analysis of RNases in model cyanobacteria | Photosynthesis Research | 126(1) 171-183 |
| 2015 | 10.1016/j.cbpa.2015.08.006 | Wang, P., N. Dudareva, J. A. Morgan and C. Chapple | Genetic manipulation of lignocellulosic biomass for bioenergy | Current Opinion in Chemical Biology | 29 32–9 |
| 2015 | 10.1186/s12870-015-0557-7 | Drost, D. R., S. Puranik, E. Novaes, C. R. Novaes, C. Dervinis, O. Gailing and M. Kirst | Genetical genomics of Populus leaf shape variation | BMC Plant Biology | 15 166 |
| 2015 | 10.1038/ismej.2014.198 | Dupont, C. L., J. P. McCrow, R. Valas, A. Moustafa, N. Walworth, et al. | Genomes and gene expression across light and productivity gradients in eastern subtropical Pacific microbial communities | The ISME Journal | 9(5) 1076–92 |
| 2015 | 10.1038/ismej.2015.31 | Youngblut, N. D., J. S. Wirth, J. R. Henriksen, M. Smith, H. Simon, W. W. Metcalf and R. J. Whitaker | Genomic and phenotypic differentiation among Methanosarcina mazei populations from Columbia River sediment | The ISME Journal | 9(10) 2191–205 |
| 2015 | 10.1016/j.cub.2015.01.014 | Castelle, C. J., K. C. Wrighton, B. C. Thomas, L. A. Hug, C. T. Brown, M. J. Wilkins, K. R. Frischkorn, S. G. Tringe, A. Singh, L. M. Markillie, R. C. Taylor, K. H. Williams and J. F. Banfield | Genomic expansion of domain archaea highlights roles for organisms from new phyla in anaerobic carbon cycling | Current Biology | 25(6) 690–701 |
| 2015 | 10.1016/j.gde.2015.10.008 | Hittinger, C. T., A. Rokas, F. Y. Bai, T. Boekhout, P. Gonçalves, T. W. Jeffries, J. Kominek, M. A. Lachance, D. Libkind, C. A. Rosa, J. P. Sampaio and C. P. Kurtzman | Genomics and the making of yeast biodiversity | Current Opinion in Genetics and Development | 35 100-109 |
| 2015 | 10.3390/microorganisms3010094 | McTaggart, T. L., D. A. Beck, U. Setboonsarng, N. Shapiro, T. Woyke, M. E. Lidstrom, M. G. Kalyuzhnaya and L. Chistoserdova | Genomics of Methylotrophy in Gram-Positive Methylamine-Utilizing Bacteria | Microorganisms | 3(1) 94–112 |
| 2015 | 10.7554/eLife.07597 | Rellan-Alvarez, R., G. Lobet, H. Lindner, P. L. Pradier, J. Sebastian, et al. | GLO-Roots: an imaging platform enabling multidimensional characterization of soil-grown root systems | eLife | 4 |
| 2015 | 10.1093/jxb/erv096 | Lara-Chavez, A., S. Lowman, S. Kim, Y. Tang, J. Zhang, M. Udvardi, J. Nowak, B. Flinn and C. Mei | Global gene expression profiling of two switchgrass cultivars following inoculation with Burkholderia phytofirmans strain PsJN | Journal of Experimental Botany | 66(14) 4337–50 |
| 2015 | 10.1128/microbiolspec.MBP-0014-2014 | Wolfe, A. J. | Glycolysis for Microbiome Generation | Microbiology Spectrum | 3(3) |
| 2015 | 10.1016/j.softx.2015.06.001 | Abraham, M. J., T. Murtola, R. Schulz, S. Páll, J. C. Smith, B. Hess and E. Lindahl | GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers | SoftwareX | 1–2 19–25 |
| 2015 | 10.7554/eLife.05477 | Raveh-Sadka, T., B. C. Thomas, A. Singh, B. Firek, B. Brooks, C. J. Castelle, I. Sharon, R. Baker, M. Good, M. J. Morowitz and J. F. Banfield | Gut bacteria are rarely shared by co-hospitalized premature infants, regardless of necrotizing enterocolitis development | eLife | 4 |
| 2015 | 10.1021/ci500359e | Riccardi, D., J. M. Parks, A. Johs and J. C. Smith | HackaMol: An Object-Oriented Modern Perl Library for Molecular Hacking on Multiple Scales | Journal of Chemical Information and Modeling | 55(4) 721–6 |
| 2015 | 10.1534/genetics.115.178608 | Truong, S. K., R. F. McCormick, W. L. Rooney and J. E. Mullet | Harnessing Genetic Variation in Leaf Angle to Increase Productivity of Sorghum bicolor | Genetics | 201(3) 1229–38 |
| 2015 | 10.1128/AEM.03199-14 | Aristilde, L., I. A. Lewis, J. O. Park and J. D. Rabinowitz | Hierarchy in pentose sugar metabolism in Clostridium acetobutylicum | Applied and Environmental Microbiology | 81(4) 1452–62 |
| 2015 | 10.1371/journal.pone.0139672 | Inagaki, S., I. M. Henry, M. C. Lieberman and L. Comai | High-Throughput Analysis of T-DNA Location and Structure Using Sequence Capture | PLoS One | 10(10) e0139672 |
| 2015 | 10.1128/mBio.02288-14 | Zhou, J., Z. He, Y. Yang, Y. Deng, S. G. Tringe and L. Alvarez-Cohen | High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats | mBio | 6(1) |
| 2015 | 10.1021/sb500366v | Lee, M. E., W. C. DeLoache, B. Cervantes and J. E. Dueber | A Highly Characterized Yeast Toolkit for Modular, Multipart Assembly | ACS Synthetic Biology | 4(9) 975–86 |
| 2015 | 10.1038/nmeth.3312 | Chavez, A., J. Scheiman, S. Vora, B. W. Pruitt, M. Tuttle, et al. | Highly efficient Cas9-mediated transcriptional programming | Nature Methods | 12(4) 326–8 |
| 2015 | 10.1002/2014gl062573 | Jardine, A. B., K. J. Jardine, J. D. Fuentes, S. T. Martin, G. Martins, F. Durgante, V. Carneiro, N. Higuchi, A. O. Manzi and J. Q. Chambers | Highly reactive light-dependent monoterpenes in the Amazon | Geophysical Research Letters | 42(5) 1576–83 |
| 2015 | 10.1111/tpj.12835 | Carbonell, A., N. Fahlgren, S. Mitchell, K. L. Cox, Jr., K. C. Reilly, T. C. Mockler and J. C. Carrington | Highly specific gene silencing in a monocot species by artificial microRNAs derived from chimeric miRNA precursors | The Plant Journal | 82(6) 1061–75 |
| 2015 | 10.1002/bit.25465 | Kim, Y., T. Kreke, J. K. Ko and M. R. Ladisch | Hydrolysis-determining substrate characteristics in liquid hot water pretreated hardwood | Biotechnology and Bioengineering | 112(4) 677–87 |
| 2015 | 10.1104/pp.15.01155 | Park, H. J., D. S. Floss, V. Levesque-Tremblay, A. Bravo and M. J. Harrison | Hyphal Branching during Arbuscule Development Requires Reduced Arbuscular Mycorrhiza1 | Plant Physiology | 169(4) 2774–88 |
| 2015 | 10.1038/ncomms9142 | Widhalm, J. R., M. Gutensohn, H. Yoo, F. Adebesin, Y. Qian, L. Guo, R. Jaini, J. H. Lynch, R. M. McCoy, J. T. Shreve, J. Thimmapuram, D. Rhodes, J. A. Morgan and N. Dudareva | Identification of a plastidial phenylalanine exporter that influences flux distribution through the phenylalanine biosynthetic network | Nature Communications | 6 8142 |
| 2015 | 10.1093/pcp/pcu152 | Berim, A., M. J. Kim and D. R. Gang | Identification of a unique 2-oxoglutarate-dependent flavone 7-O-demethylase completes the elucidation of the lipophilic flavone network in basil | Plant and Cell Physiology | 56(1) 126–36 |
| 2015 | 10.1111/1462-2920.12673 | Otwell, A. E., R. W. Sherwood, S. Zhang, O. D. Nelson, Z. Li, H. Lin, S. J. Callister and R. E. Richardson | Identification of proteins capable of metal reduction from the proteome of the Gram-positive bacterium Desulfotomaculum reducens MI-1 using an NADH-based activity assay | Environmental Microbiology | 17(6) 1977–90 |
| 2015 | 10.1186/s13007-015-0070-x | Heckwolf, S., M. Heckwolf, S. M. Kaeppler, N. de Leon and E. P. Spalding | Image analysis of anatomical traits in stalk transections of maize and other grasses | Plant Methods | 11(1) |
| 2015 | 10.15252/msb.20145866 | Yaung, S. J., L. Deng, N. Li, J. L. Braff, G. M. Church, L. Bry, H. H. Wang and G. K. Gerber | Improving microbial fitness in the mammalian gut by in vivo temporal functional metagenomics | Molecular Systems Biology | 11(3) 788 |
| 2015 | 10.1016/j.copbio.2015.08.011 | Chowdhury, A., A. Khodayari and C. D. Maranas | Improving prediction fidelity of cellular metabolism with kinetic descriptions | Current Opinion in Biotechnology | 36 57–64 |
| 2015 | 10.1111/pbi.12254 | Weyman, P. D., K. Beeri, S. C. Lefebvre, J. Rivera, J. K. McCarthy, A. L. Heuberger, G. Peers, A. E. Allen and C. L. Dupont | Inactivation of Phaeodactylum tricornutum urease gene using transcription activator-like effector nuclease-based targeted mutagenesis | Plant Biotechnology Journal | 13(4) 460–70 |
| 2015 | 10.1007/s12155-015-9605-2 | Grabber, J. H., N. Santoro, C. E. Foster, S. Elumalai, J. Ralph and X. Pan | Incorporation of Flavonoid Derivatives or Pentagalloyl Glucose into Lignin Enhances Cell Wall Saccharification Following Mild Alkaline or Acidic Pretreatments | Bioenergy Research | 8(3) 1391-1400 |
| 2015 | 10.1111/1758-2229.12250 | Bertagnolli, A. D., K. A. Meinhardt, M. Pannu, S. Brown, S. Strand, S. C. Fransen and D. A. Stahl | Influence of edaphic and management factors on the diversity and abundance of ammonia-oxidizing thaumarchaeota and bacteria in soils of bioenergy crop cultivars | Environmental Microbiology Reports | 7(2) 312–20 |
| 2015 | 10.2134/agronj15.0066 | Gratton, C., M. Casler, R. Groves and T. N. Kim | Insecticide applications have minor effects on switchgrass biomass yield | Agronomy Journal | 107(6) 2031-2037 |
| 2015 | 10.1007/s10142-015-0433-4 | Land, M., L. Hauser, S. R. Jun, I. Nookaew, M. R. Leuze, T. H. Ahn, T. Karpinets, O. Lund, G. Kora, T. Wassenaar, S. Poudel and D. W. Ussery | Insights from 20 years of bacterial genome sequencing | Functional & Integrative Genomics | 15(2) 141–61 |
| 2015 | 10.1016/j.plantsci.2015.05.015 | Jia, X., B. Chanda, M. Zhao, A. M. Brunner and E. P. Beers | Instability of the Arabidopsis mutant csn5a-2 caused by epigenetic modification of intronic T-DNA | Plant Science | 238 53–63 |
| 2015 | 10.1371/journal.pcbi.1004103 | Imam, S., D. R. Noguera and T. J. Donohue | An Integrated Approach to Reconstructing Genome-Scale Transcriptional Regulatory Networks | PLoS Computational Biology | 11(2) |
| 2015 | 10.1016/j.bpj.2015.04.010 | Khadka, N. K., X. Cheng, C. S. Ho, J. Katsaras and J. Pan | Interactions of the anticancer drug tamoxifen with lipid membranes | Biophysical Journal | 108(10) 2492–501 |
| 2015 | 10.1111/1462-2920.12398 | Liu, S., F. Wang, K. Xue, B. Sun, Y. Zhang, Z. He, J. D. Van Nostrand, J. Zhou and Y. Yang | The interactive effects of soil transplant into colder regions and cropping on soil microbiology and biogeochemistry | Environmental Microbiology | 17(3) 566–76 |
| 2015 | 10.1093/molbev/msv122 | Simmons, M. P., C. Bachy, S. Sudek, M. J. van Baren, L. Sudek, M. Ares, Jr. and A. Z. Worden | Intron Invasions Trace Algal Speciation and Reveal Nearly Identical Arctic and Antarctic Micromonas Populations | Molecular Biology and Evolution | 32(9) 2219–35 |
| 2015 | 10.3390/molecules20057700 | Johnson, Q. R., R. J. Lindsay, L. Petridis and T. Shen | Investigation of Carbohydrate Recognition via Computer Simulation | Molecules | 20(5) 7700–18 |
| 2015 | 10.3389/fmicb.2015.00277 | Nunes da Rocha, U., H. Cadillo-Quiroz, U. Karaoz, L. Rajeev, N. Klitgord, S. Dunn, V. Truong, M. Buenrostro, B. P. Bowen, F. Garcia-Pichel, A. Mukhopadhyay, T. R. Northen and E. L. Brodie | Isolation of a significant fraction of non-phototroph diversity from a desert Biological Soil Crust | Frontiers in Microbiology | 6 277 |
| 2015 | 10.1007/s00122-014-2451-3 | Foerster, J. M., T. Beissinger, N. de Leon and S. Kaeppler | Large effect QTL explain natural phenotypic variation for the developmental timing of vegetative phase change in maize (Zea mays L.) | Theoretical and Applied Genetics | 128(3) 529-538 |
| 2015 | 10.1016/j.chemphyslip.2015.07.012 | Nickels, J. D., J. C. Smith and X. Cheng | Lateral organization, bilayer asymmetry, and inter-leaflet coupling of biological membranes | Chemistry and Physics of Lipids | 192 87–99 |
| 2015 | 10.1007/s12155-015-9611-4 | Sinistore, J. C., D. J. Reinemann, R. C. Izaurralde, K. R. Cronin, P. J. Meier, T. M. Runge and X. Zhang | Life cycle assessment of switchgrass cellulosic ethanol production in the Wisconsin and michigan agricultural contexts | Bioenergy Research | 8(3) 897-909 |
| 2015 | 10.1038/ismej.2014.112 | Giannone, R. J., L. L. Wurch, T. Heimerl, S. Martin, Z. Yang, H. Huber, R. Rachel, R. L. Hettich and M. Podar | Life on the edge: functional genomic response of Ignicoccus hospitalis to the presence of Nanoarchaeum equitans | The ISME Journal | 9(1) 101–14 |
| 2015 | 10.1111/gcb.12908 | Hall, S. J., W. L. Silver, V. I. Timokhin and K. E. Hammel | Lignin decomposition is sustained under fluctuating redox conditions in humid tropical forest soils | Global Change Biology | 21(7) 2818–28 |
| 2015 | 10.1016/j.biortech.2015.01.135 | Han, J., J. S. Luterbacher, D. M. Alonso, J. A. Dumesic and C. T. Maravelias | A lignocellulosic ethanol strategy via nonenzymatic sugar production: Process synthesis and analysis | Bioresource Technology | 182 258-266 |
| 2015 | 10.1016/j.phytochem.2015.07.022 | Pollard, M., T. M. Martin and Y. Shachar-Hill | Lipid analysis of developing Camelina sativa seeds and cultured embryos | Phytochemistry | 118 23-32 |
| 2015 | 10.1016/j.phytochem.2015.07.021 | Pollard, M., D. Delamarter, T. M. Martin and Y. Shachar-Hill | Lipid labeling from acetate or glycerol in cultured embryos of Camelina sativa seeds: A tale of two substrates | Phytochemistry | 118 192-203 |
| 2015 | 10.1039/c5gc02286j | Chen, W., D. J. McClelland, A. Azarpira, J. Ralph, Z. Luo and G. W. Huber | Low temperature hydrogenation of pyrolytic lignin over Ru/TiO2: 2D HSQC and 13C NMR study of reactants and products | Green Chemistry | 18(1) 271-281 |
| 2015 | 10.1111/1462-2920.12485 | Liu, F., A. E. Rotaru, P. M. Shrestha, N. S. Malvankar, K. P. Nevin and D. R. Lovley | Magnetite compensates for the lack of a pilin-associated c-type cytochrome in extracellular electron exchange | Environmental Microbiology | 17(3) 648–55 |
| 2015 | 10.1105/tpc.15.00373 | Anderson, N. A., Y. Tobimatsu, P. N. Ciesielski, E. Ximenes, J. Ralph, B. S. Donohoe, M. Ladisch and C. Chapple | Manipulation of Guaiacyl and Syringyl Monomer Biosynthesis in an Arabidopsis Cinnamyl Alcohol Dehydrogenase Mutant Results in Atypical Lignin Biosynthesis and Modified Cell Wall Structure | The Plant Cell | 27(8) 2195–209 |
| 2015 | 10.4208/cicp.210711.111111s | Zhang, B., B. Lu, X. Cheng, J. Huang, N. P. Pitsianis, X. Sun and J. A. McCammon | Mathematical and Numerical Aspects of the Adaptive Fast Multipole Poisson-Boltzmann Solver | Communications in Computational Physics | 13(1) 107–28 |
| 2015 | 10.1021/jacs.5b08894 | Nickels, J. D., X. Cheng, B. Mostofian, C. Stanley, B. Lindner, F. A. Heberle, S. Perticaroli, M. Feygenson, T. Egami, R. F. Standaert, J. C. Smith, D. A. Myles, M. Ohl and J. Katsaras | Mechanical Properties of Nanoscopic Lipid Domains | Journal of the American Chemical Society | 137(50) 15772–80 |
| 2015 | 10.1021/jp505818r | Wolter, T., M. Elstner, S. Fischer, J. C. Smith and A. N. Bondar | Mechanism by which untwisting of retinal leads to productive bacteriorhodopsin photocycle states | Journal of Physical Chemistry B | 119(6) 2229–40 |
| 2015 | 10.1186/s13068-015-0379-8 | Vermaas, J. V., L. Petridis, X. Qi, R. Schulz, B. Lindner and J. C. Smith | Mechanism of lignin inhibition of enzymatic biomass deconstruction | Biotechnology for Biofuels | 8 217 |
| 2015 | 10.1111/gcbb.12126 | Tiemann, L. K. and A. S. Grandy | Mechanisms of soil carbon accrual and storage in bioenergy cropping systems | GCB Bioenergy | 7(2) 161-174 |
| 2015 | 10.1007/s00232-015-9802-0 | Cournia, Z., T. W. Allen, I. Andricioaei, B. Antonny, D. Baum, et al. | Membrane Protein Structure, Function, and Dynamics: a Perspective from Experiments and Theory | Journal of Membrane Biology | 248(4) 611–40 |
| 2015 | 10.1016/j.ymben.2015.01.009 | Pfleger, B. F., M. Gossing and J. Nielsen | Metabolic engineering strategies for microbial synthesis of oleochemicals | Metabolic Engineering | 29 1–11 |
| 2015 | 10.3389/fmicb.2015.01118 | Timm, C. M., A. G. Campbell, S. M. Utturkar, S. R. Jun, R. E. Parales, et al. | Metabolic functions of Pseudomonas fluorescens strains from Populus deltoides depend on rhizosphere or endosphere isolation compartment | Frontiers in Microbiology | 6 1118 |
| 2015 | 10.1016/j.phytochem.2015.02.013 | Jervis, J., S. B. Hildreth, X. Sheng, E. P. Beers, A. M. Brunner and R. F. Helm | A metabolomic assessment of NAC154 transcription factor overexpression in field grown poplar stem wood | Phytochemistry | 115 112–20 |
| 2015 | 10.1111/1462-2920.12840 | Quandt, C. A., A. Kohler, C. N. Hesse, T. J. Sharpton, F. Martin and J. W. Spatafora | Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome | Environmental Microbiology | 17(8) 2952–68 |
| 2015 | 10.1126/science.aac7745 | Evans, P. N., D. H. Parks, G. L. Chadwick, S. J. Robbins, V. J. Orphan, S. D. Golding and G. W. Tyson | Methane metabolism in the archaeal phylum Bathyarchaeota revealed by genome-centric metagenomics | Science | 350(6259) 434–8 |
| 2015 | 10.1038/ismej.2014.203 | Oshkin, I. Y., D. A. Beck, A. E. Lamb, V. Tchesnokova, G. Benuska, T. L. McTaggart, M. G. Kalyuzhnaya, S. N. Dedysh, M. E. Lidstrom and L. Chistoserdova | Methane-fed microbial microcosms show differential community dynamics and pinpoint taxa involved in communal response | The ISME Journal | 9(5) 1119–29 |
| 2015 | 10.1128/JB.02595-14 | Martinez-Gomez, N. C., N. M. Good and M. E. Lidstrom | Methenyl-Dephosphotetrahydromethanopterin Is a Regulatory Signal for Acclimation to Changes in Substrate Availability in Methylobacterium extorquens AM1 | Journal of Bacteriology | 197(12) 2020–6 |
| 2015 | 10.1016/j.soilbio.2014.10.005 | Liang, J. Y., D. J. Li, Z. Shi, J. M. Tiedje, J. Z. Zhou, E. A. G. Schuur, K. T. Konstantinidis and Y. Q. Luo | Methods for estimating temperature sensitivity of soil organic matter based on incubation data: A comparative evaluation | Soil Biology and Biochemistry | 80 127–35 |
| 2015 | 10.1038/ismej.2015.19 | Yue, H., M. Wang, S. Wang, J. A. Gilbert, X. Sun, L. Wu, Q. Lin, Y. Hu, X. Li, Z. He, J. Zhou and Y. Yang | The microbe-mediated mechanisms affecting topsoil carbon stock in Tibetan grasslands | The ISME Journal | 9(9) 2012–20 |
| 2015 | 10.1016/j.soilbio.2015.09.005 | Kallenbach, C. M., A. S. Grandy, S. D. Frey and A. F. Diefendorf | Microbial physiology and necromass regulate agricultural soil carbon accumulation | Soil Biology and Biochemistry | 91 279-290 |
| 2015 | 10.1002/mbo3.302 | Wang, M., S. Liu, F. Wang, B. Sun, J. Zhou and Y. Yang | Microbial responses to southward and northward Cambisol soil transplant | MicrobiologyOpen | 4(6) 931–40 |
| 2015 | 10.1063/1.4935938 | Timm, C. M., R. R. Hansen, M. J. Doktycz, S. T. Retterer and D. A. Pelletier | Microstencils to generate defined, multi-species patterns of bacteria | Biomicrofluidics | 9(6) 064103 |
| 2015 | 10.3389/fmicb.2015.00149 | Leon, D. R., A. J. Ytterberg, P. Boontheung, U. Kim, J. A. Loo, R. P. Gunsalus and R. R. Ogorzalek Loo | Mining proteomic data to expose protein modifications in Methanosarcina mazei strain Gö1 | Frontiers in Microbiology | 6 149 |
| 2015 | 10.1002/2014jg002880 | Deng, J., C. S. Li and S. Frolking | Modeling impacts of changes in temperature and water table on C gas fluxes in an Alaskan peatland | Journal of Geophysical Research: Biogeosciences | 120(7) 1279–95 |
| 2015 | 10.1007/s12155-015-9584-3 | Bukhman, Y. V., N. W. DiPiazza, J. Piotrowski, J. Shao, A. G. W. Halstead, M. D. Bui, E. Xie and T. K. Sato | Modeling Microbial Growth Curves with GCAT | Bioenergy Research | 8(3) 1022-1030 |
| 2015 | 10.1016/j.bbrc.2015.10.016 | Li, Z., D. D. Kim, O. D. Nelson, A. E. Otwell, R. E. Richardson, S. J. Callister and H. Lin | Molecular dissection of a putative iron reductase from Desulfotomaculum reducens MI-1 | Biochemical and Biophysical Research Communications | 467(3) 503–8 |
| 2015 | 10.1021/bi5015612 | Chen, Q., Z. J. Luan, X. Cheng and J. H. Xu | Molecular dynamics investigation of the substrate binding mechanism in carboxylesterase | Biochemistry | 54(9) 1841–8 |
| 2015 | 10.1007/s12539-014-0235-8 | Chen, Q., X. Cheng, D. Wei and Q. Xu | Molecular dynamics simulation studies of the wild type and E92Q/N155H mutant of Elvitegravir-resistance HIV-1 integrase | Interdisciplinary Sciences: Computational Life Sciences | 7(1) 36–42 |
| 2015 | 10.1021/acs.jpcb.5b01477 | Daidone, I., L. Thukral, J. C. Smith and A. Amadei | Monitoring the folding kinetics of a β-hairpin by time-resolved IR spectroscopy in silico | Journal of Physical Chemistry B | 119(14) 4849–56 |
| 2015 | 10.1103/PhysRevE.91.052705 | Vural, D., L. Hong, J. C. Smith and H. R. Glyde | Motional displacements in proteins: The origin of wave-vector-dependent values | Physical Review E | 91(5) 052705 |
| 2015 | 10.1186/s13068-015-0402-0 | Walker, J. A., T. E. Takasuka, K. Deng, C. M. Bianchetti, H. S. Udell, B. M. Prom, H. Kim, P. D. Adams, T. R. Northen and B. G. Fox | Multifunctional cellulase catalysis targeted by fusion to different carbohydrate-binding modules | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1038/nbt.3177 | Zeitoun, R. I., A. D. Garst, G. D. Degen, G. Pines, T. J. Mansell, T. Y. Glebes, N. R. Boyle and R. T. Gill | Multiplexed tracking of combinatorial genomic mutations in engineered cell populations | Nature Biotechnology | 33(6) 631–7 |
| 2015 | 10.1111/nph.13288 | van der Heijden, M. G. A., F. M. Martin, M. A. Selosse and I. R. Sanders | Mycorrhizal ecology and evolution: the past, the present, and the future | New Phytologist | 205(4) 1406–23 |
| 2015 | 10.1073/pnas.1420663112 | Kremer, T. A., B. LaSarre, A. L. Posto and J. B. McKinlay | N2 gas is an effective fertilizer for bioethanol production by Zymomonas mobilis | Proceedings of the National Academy of Sciences of the United States of America | 112(7) 2222–6 |
| 2015 | 10.1007/s12155-015-9583-4 | Lu, F., S. D. Karlen, M. Regner, H. Kim, S. A. Ralph, et al. | Naturally p-Hydroxybenzoylated Lignins in Palms | Bioenergy Research | 8(3) 934-952 |
| 2015 | 10.1073/pnas.1506034112 | Embree, M., J. K. Liu, M. M. Al-Bassam and K. Zengler | Networks of energetic and metabolic interactions define dynamics in microbial communities | Proceedings of the National Academy of Sciences of the United States of America | 112(50) 15450–5 |
| 2015 | 10.1016/j.agee.2015.02.006 | Jach-Smith, L. C. and R. D. Jackson | Nitrogen conservation decreases with fertilizer addition in two perennial grass cropping systems for bioenergy | Agriculture, Ecosystems and Environment | 204 17-20 |
| 2015 | 10.1016/j.cub.2014.12.004 | Morrissey, J., R. Sutak, J. Paz-Yepes, A. Tanaka, A. Moustafa, A. Veluchamy, Y. Thomas, H. Botebol, F. Y. Bouget, J. B. McQuaid, L. Tirichine, A. E. Allen, E. Lesuisse and C. Bowler | A novel protein, ubiquitous in marine phytoplankton, concentrates iron at the cell surface and facilitates uptake | Current Biology | 25(3) 364–71 |
| 2015 | 10.1186/s12870-015-0586-2 | Kilaru, A., X. Cao, P. B. Dabbs, H. J. Sung, M. M. Rahman, N. Thrower, G. Zynda, R. Podicheti, E. Ibarra-Laclette, L. Herrera-Estrella, K. Mockaitis and J. B. Ohlrogge | Oil biosynthesis in a basal angiosperm: Transcriptome analysis of Persea americana mesocarp | BMC Plant Biology | 15(1) |
| 2015 | 10.1016/j.ymben.2015.02.007 | Wasylenko, T. M., W. S. Ahn and G. Stephanopoulos | The oxidative pentose phosphate pathway is the primary source of NADPH for lipid overproduction from glucose in Yarrowia lipolytica | Metabolic Engineering | 30 27–39 |
| 2015 | 10.1186/s13104-015-1462-8 | Jun, S. R., M. S. Robeson, L. J. Hauser, C. W. Schadt and A. A. Gorin | PanFP: pangenome-based functional profiles for microbial communities | BMC Research Notes | 8 479 |
| 2015 | 10.1109/BIBM.2015.7359686 | Petereit, J., F. C. Harris and K. Schlauch | petal: A Novel Co-Expression Network Modeling System | Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine | 234–41 |
| 2015 | 10.1186/s12866-015-0450-4 | Wu, L., C. Wen, Y. Qin, H. Yin, Q. Tu, J. D. Van Nostrand, T. Yuan, M. Yuan, Y. Deng and J. Zhou | Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis | BMC Microbiology | 15 125 |
| 2015 | 10.1080/15592324.2015.1022013 | Chen, J. G. | Phosphorylation of RACK1 in plants | Plant Signaling & Behavior | 10(8) e1022013 |
| 2015 | 10.1111/pce.12500 | Kebrom, T. H. and J. E. Mullet | Photosynthetic leaf area modulates tiller bud outgrowth in sorghum | Plant Cell & Environment | 38(8) 1471–8 |
| 2015 | 10.1186/s13104-015-1314-6 | Stuecker, T. N., S. Bramhacharya, K. M. Hodge-Hanson, G. Suen and J. C. Escalante-Semerena | Phylogenetic and amino acid conservation analyses of bacterial L-aspartate-α-decarboxylase and of its zymogen-maturation protein reveal a putative interaction domain | BMC Research Notes | 8 354 |
| 2015 | 10.1038/ng.3435 | Ming, R., R. VanBuren, C. M. Wai, H. Tang, M. C. Schatz, et al. | The pineapple genome and the evolution of CAM photosynthesis | Nature Genetics | 47(12) 1435–42 |
| 2015 | 10.1155/2015/924369 | Yang, X., J. Leebens-Mack, F. Chen and Y. Yin | Plant Comparative and Functional Genomics | International Journal of Genomics | 2015 924369 |
| 2015 | 10.1038/nplants.2015.53 | Xiong, W., J. A. Morgan, J. Ungerer, B. Wang, P.-C. Maness and J. Yu | The plasticity of cyanobacterial metabolism supports direct CO2 conversion to ethylene | Nature Plants | 1(5) |
| 2015 | 10.1016/j.funeco.2015.03.003 | Oliver, A. K., S. P. Brown, M. A. Callaham and A. Jumpponen | Polymerase matters: non-proofreading enzymes inflate fungal community richness estimates by up to 15% | Fungal Ecology | 15 86–9 |
| 2015 | 10.1155/2015/608042 | Yao, J., H. Guo and X. Yang | PPCM: Combing Multiple Classifiers to Improve Protein-Protein Interaction Prediction | International Journal of Genomics | 2015 608042 |
| 2015 | 10.3390/molecules20057657 | Wall, J. S., E. B. Martin, T. Richey, A. C. Stuckey, S. Macy, C. Wooliver, A. Williams, J. S. Foster, P. McWilliams-Koeppen, E. Uberbacher, X. Cheng and S. J. Kennel | Preclinical Validation of the Heparin-Reactive Peptide p5+14 as a Molecular Imaging Agent for Visceral Amyloidosis | Molecules | 20(5) 7657–82 |
| 2015 | 10.3389/fpls.2015.00407 | Shahbaz, M., K. Ravet, G. Peers and M. Pilon | Prioritization of copper for the use in photosynthetic electron transport in developing leaves of hybrid poplar | Frontiers in Plant Science | 6 407 |
| 2015 | 10.1016/j.copbio.2015.08.007 | Hoynes-O'Connor, A. and T. S. Moon | Programmable genetic circuits for pathway engineering | Current Opinion in Biotechnology | 36 115–21 |
| 2015 | 10.1093/gbe/evv063 | Reichenberger, E. R., G. Rosen, U. Hershberg and R. Hershberg | Prokaryotic nucleotide composition is shaped by both phylogeny and the environment | Genome Biology and Evolution | 7(5) 1380–9 |
| 2015 | 10.1016/j.funeco.2014.12.005 | Kuske, C. R., C. N. Hesse, J. F. Challacombe, D. Cullen, J. R. Herr, R. C. Mueller, A. Tsang and R. Vilgalys | Prospects and challenges for fungal metatranscriptomics of complex communities | Fungal Ecology | 14 133–7 |
| 2015 | 10.1111/mmi.13161 | Schilling, B., D. Christensen, R. Davis, A. K. Sahu, L. I. Hu, A. Walker-Peddakotla, D. J. Sorensen, B. Zemaitaitis, B. W. Gibson and A. J. Wolfe | Protein acetylation dynamics in response to carbon overflow in Escherichia coli | Molecular Microbiology | 98(5) 847–63 |
| 2015 | 10.1016/j.str.2015.10.005 | Das, A., O. Gerlits, J. M. Parks, P. Langan, A. Kovalevsky and W. T. Heller | Protein Kinase A Catalytic Subunit Primed for Action: Time-Lapse Crystallography of Michaelis Complex Formation | Structure | 23(12) 2331–40 |
| 2015 | 10.1007/s12010-014-1326-z | Qiu, H., A. Geng, D. Zhu, Y. Le, J. Wu, N. Chow, J. H. Wu and J. Sun | Purification and characterization of a hemocyanin (Hemo1) with potential lignin-modification activities from the wood-feeding termite, Coptotermes formosanus Shiraki | Applied Biochemistry and Biotechnology | 175(2) 687–97 |
| 2015 | 10.1007/s12539-014-0228-7 | Chu, Y. and H. Guo | QM/MM MD and free energy simulation study of methyl transfer processes catalyzed by PKMTs and PRMTs | Interdisciplinary Sciences: Computational Life Sciences | |
| 2015 | 10.1007/s11120-014-0061-1 | Imam, S., C. M. Fitzgerald, E. M. Cook, T. J. Donohue and D. R. Noguera | Quantifying the effects of light intensity on bioproduction and maintenance energy during photosynthetic growth of Rhodobacter sphaeroides | Photosynthesis Research | 123(2) 167-182 |
| 2015 | 10.1371/journal.pone.0128989 | Rotsch, D., T. Brossard, S. Bihmidine, W. Ying, V. Gaddam, M. Harmata, J. D. Robertson, M. Swyers, S. S. Jurisson and D. M. Braun | Radiosynthesis of 6'-Deoxy-6’[18F]Fluorosucrose via Automated Synthesis and Its Utility to Study In Vivo Sucrose Transport in Maize (Zea mays) Leaves | PLoS One | 10(5) e0128989 |
| 2015 | 10.1016/j.biotechadv.2014.11.007 | Si, T., H. Xiao and H. Zhao | Rapid prototyping of microbial cell factories via genome-scale engineering | Biotechnology Advances | 33(7) 1420–32 |
| 2015 | 10.1016/j.jmgm.2015.10.015 | Chen, Q., Z. J. Luan, H. L. Yu, X. Cheng and J. H. Xu | Rational design of a carboxylic esterase RhEst1 based on computational analysis of substrate binding | Journal of Molecular Graphics and Modeling | 62 319–24 |
| 2015 | 10.1007/s10533-014-0061-4 | Gelfand, I. and G. Philip Robertson | A reassessment of the contribution of soybean biological nitrogen fixation to reactive N in the environment | Biogeochemistry | 123(45293) 175-184 |
| 2015 | 10.1016/j.pbi.2015.06.001 | Plett, J. M. and F. Martin | Reconsidering mutualistic plant-fungal interactions through the lens of effector biology | Current Opinion in Plant Biology | 26 45–50 |
| 2015 | 10.1007/s10750-014-2039-6 | Zhang, Z. J., H. Wang, J. Z. Zhou, H. Y. Li, Z. L. He, J. D. Van Nostrand, Z. D. Wang and X. H. Xu | Redox potential and microbial functional gene diversity in wetland sediments under simulated warming conditions: implications for phosphorus mobilization | Hydrobiologia | 743(1) 221–35 |
| 2015 | 10.1016/j.envsoft.2014.10.005 | Zhang, X., R. C. Izaurralde, D. H. Manowitz, R. Sahajpal, T. O. West, A. M. Thomson, M. Xu, K. Zhao, S. D. LeDuc and J. R. Williams | Regional scale cropland carbon budgets: Evaluating a geospatial agricultural modeling system using inventory data | Environmental Modelling and Software | 63 199-216 |
| 2015 | 10.3198/jpr2014.08.0050crc | Sandhu, H. S., J. C. Comstock, R. A. Gilbert, V. S. Gordon, P. Korndorfer, N. El-Hout and R. A. Arundale | Registration of 'UFCP 78-1013' Sugarcane Cultivar | Journal of Plant Registrations | 9(3) 318–24 |
| 2015 | 10.1128/AEM.02064-15 | Korripally, P., C. G. Hunt, C. J. Houtman, D. C. Jones, P. J. Kitin, D. Cullen and K. E. Hammel | Regulation of Gene Expression during the Onset of Ligninolytic Oxidation by Phanerochaete chrysosporium on Spruce Wood | Applied and Environmental Microbiology | 81(22) 7802–12 |
| 2015 | 10.1021/acs.analchem.5b01187 | Giannone, R. J., L. L. Wurch, M. Podar and R. L. Hettich | Rescuing Those Left Behind: Recovering and Characterizing Underdigested Membrane and Hydrophobic Proteins To Enhance Proteome Measurement Depth | Analytical Chemistry | 87(15) 7720–8 |
| 2015 | 10.1016/j.tplants.2015.06.009 | Widhalm, J. R., R. Jaini, J. A. Morgan and N. Dudareva | Rethinking how volatiles are released from plant cells | Trends in Plant Science | 20(9) 545–50 |
| 2015 | 10.1016/j.ymben.2014.09.007 | Vasdekis, A. E. and G. Stephanopoulos | Review of methods to probe single cell metabolism and bioenergetics | Metabolic Engineering | 27 115–35 |
| 2015 | 10.1007/s11103-014-0275-9 | Tonnessen, B. W., P. Manosalva, J. M. Lang, M. Baraoidan, A. Bordeos, R. Mauleon, J. Oard, S. Hulbert, H. Leung and J. E. Leach | Rice phenylalanine ammonia-lyase gene OsPAL4 is associated with broad spectrum disease resistance | Plant Molecular Biology | 87(3) 273–86 |
| 2015 | 10.1038/nbt.3412 | DiCarlo, J. E., A. Chavez, S. L. Dietz, K. M. Esvelt and G. M. Church | Safeguarding CRISPR-Cas9 gene drives in yeast | Nature Biotechnology | 33(12) 1250–5 |
| 2015 | 10.1128/AEM.01967-15 | Chan, C. H., C. E. Levar, L. Zacharoff, J. P. Badalamenti and D. R. Bond | Scarless Genome Editing and Stable Inducible Expression Vectors for Geobacter sulfurreducens | Applied and Environmental Microbiology | 81(20) 7178–86 |
| 2015 | 10.1016/j.funeco.2014.08.006 | Brown, S. P., A. M. Veach, A. R. Rigdon-Huss, K. Grond, S. K. Lickteig, K. Lothamer, A. K. Oliver and A. Jumpponen | Scraping the bottom of the barrel: are rare high throughput sequences artifacts? | Fungal Ecology | 13 221–5 |
| 2015 | 10.1016/j.copbio.2015.08.013 | Boock, J. T., A. Gupta and K. Prather | Screening and modular design for metabolic pathway optimization | Current Opinion in Biotechnology | 36 189–98 |
| 2015 | 10.1038/sdata.2015.14 | Utturkar, S. M., D. M. Klingeman, J. M. Bruno-Barcena, M. S. Chinn, A. M. Grunden, M. Kopke and S. D. Brown | Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies | Scientific Data | 2 150014 |
| 2015 | 10.1016/j.agee.2015.07.005 | Gelfand, I., M. Cui, J. Tang and G. P. Robertson | Short-term drought response of N2O and CO2 emissions from mesic agricultural soils in the US Midwest | Agriculture, Ecosystems and Environment | 212 127-133 |
| 2015 | 10.1038/nature15512 | McGlynn, S. E., G. L. Chadwick, C. P. Kempes and V. J. Orphan | Single cell activity reveals direct electron transfer in methanotrophic consortia | Nature | 526(7574) 531–5 |
| 2015 | 10.1038/nature15714 | VanBuren, R., D. Bryant, P. P. Edger, H. Tang, D. Burgess, et al. | Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum | Nature | 527(7579) 508–11 |
| 2015 | 10.1128/AEM.00217-15 | Smith, S. D., R. Bridou, A. Johs, J. M. Parks, D. A. Elias, R. A. Hurt, Jr., S. D. Brown, M. Podar and J. D. Wall | Site-directed mutagenesis of HgcA and HgcB reveals amino acid residues important for mercury methylation | Applied and Environmental Microbiology | 81(9) 3205–17 |
| 2015 | 10.3389/fpls.2015.01064 | Wang, X., S. Liu, H. Tian, S. Wang and J. G. Chen | The Small Ethylene Response Factor ERF96 is Involved in the Regulation of the Abscisic Acid Response in Arabidopsis | Frontiers in Plant Science | 6 1064 |
| 2015 | 10.1007/s10533-015-0142-z | Hodgkins, S. B., J. P. Chanton, L. C. Langford, C. K. McCalley, S. R. Saleska, V. I. Rich, P. M. Crill and W. T. Cooper | Soil incubations reproduce field methane dynamics in a subarctic wetland | Biogeochemistry | 126(1–2) 241–9 |
| 2015 | 10.1007/s10858-015-9965-0 | Macdonald, R., D. Sarkar, B. R. Amer and R. T. Clubb | Solution structure of the PhoP DNA-binding domain from Mycobacterium tuberculosis | Journal of Biomolecular NMR | 63(1) 111-117 |
| 2015 | 10.1007/s10577-014-9455-3 | Karas, B. J., Y. Suzuki and P. D. Weyman | Strategies for cloning and manipulating natural and synthetic chromosomes | Chromosome Research | 23(1) 57–68 |
| 2015 | 10.1210/me.2015-1161 | Pi, M., K. Kapoor, Y. Wu, R. Ye, S. E. Senogles, S. K. Nishimoto, D. J. Hwang, D. D. Miller, R. Narayanan, J. C. Smith, J. Baudry and L. D. Quarles | Structural and Functional Evidence for Testosterone Activation of GPRC6A in Peripheral Tissues | Molecular Endocrinology | 29(12) 1759–73 |
| 2015 | 10.1039/c4sm02227k | Pan, J., X. Cheng, M. Sharp, C. S. Ho, N. Khadka and J. Katsaras | Structural and mechanical properties of cardiolipin lipid bilayers determined using neutron spin echo, small angle neutron and X-ray scattering, and molecular dynamics simulations | Soft Matter | 11(1) 130–8 |
| 2015 | 10.1021/bi501547k | Mitchell, J. M., J. R. Clasman, C. M. June, K. C. Kaitany, J. R. LaFleur, M. A. Taracila, N. V. Klinger, R. A. Bonomo, T. Wymore, A. Szarecka, R. A. Powers and D. A. Leonard | Structural basis of activity against aztreonam and extended spectrum cephalosporins for two carbapenem-hydrolyzing class D β-lactamases from Acinetobacter baumannii | Biochemistry | 54(10) 1976–87 |
| 2015 | 10.1038/nature15368 | Rodriguez, J. A., M. I. Ivanova, M. R. Sawaya, D. Cascio, F. E. Reyes, et al. | Structure of the toxic core of α-synuclein from invisible crystals | Nature | 525(7570) 486-490 |
| 2015 | 10.1021/acs.biochem.5b00638 | Yao, J., H. Guo, M. Chaiprasongsuk, N. Zhao, F. Chen, X. Yang and H. Guo | Substrate-Assisted Catalysis in the Reaction Catalyzed by Salicylic Acid Binding Protein 2 (SABP2), a Potential Mechanism of Substrate Discrimination for Some Promiscuous Enzymes | Biochemistry | 54(34) 5366–75 |
| 2015 | 10.1128/mBio.00746-15 | Shi, S., E. Nuccio, D. J. Herman, R. Rijkers, K. Estera, J. Li, U. N. da Rocha, Z. He, J. Pett-Ridge, E. L. Brodie, J. Zhou and M. Firestone | Successional Trajectories of Rhizosphere Bacterial Communities over Consecutive Seasons | mBio | 6(4) e00746 |
| 2015 | 10.1186/s12870-015-0572-8 | Bihmidine, S., R. F. Baker, C. Hoffner and D. M. Braun | Sucrose accumulation in sweet sorghum stems occurs by apoplasmic phloem unloading and does not involve differential Sucrose transporter expression | BMC Plant Biology | 15 186 |
| 2015 | 10.1186/s13068-015-0378-9 | Xue, S., N. Uppugundla, M. J. Bowman, D. Cavalier, L. Da Costa Sousa, B. E. Dale and V. Balan | Sugar loss and enzyme inhibition due to oligosaccharide accumulation during high solids-loading enzymatic hydrolysis | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1016/j.str.2015.07.008 | Leibly, D. J., M. A. Arbing, I. Pashkov, N. Devore, G. S. Waldo, T. C. Terwilliger and T. O. Yeates | A suite of engineered GFP molecules for oligomeric scaffolding | Structure | 23(9) 1754-1768 |
| 2015 | 10.1371/journal.pone.0120757 | Bradley, D. T., T. W. Bourke, D. J. Fairley, R. Borrow, M. D. Shields, P. F. Zipfel and A. E. Hughes | Susceptibility to invasive meningococcal disease: polymorphism of complement system genes and Neisseria meningitidis factor H binding protein | PLoS One | 10(3) e0120757 |
| 2015 | 10.1021/mp500392q | Abil, Z., X. Xiong and H. Zhao | Synthetic biology for therapeutic applications | Molecular Pharmaceutics | 12(2) 322–31 |
| 2015 | 10.1093/nar/gkv616 | Rogers, J. K., C. D. Guzman, N. D. Taylor, S. Raman, K. Anderson and G. M. Church | Synthetic biosensors for precise gene control and real-time monitoring of metabolites | Nucleic Acids Research | 43(15) 7648–60 |
| 2015 | 10.1105/tpc.15.00349 | Henry, I. M., M. S. Zinkgraf, A. T. Groover and L. Comai | A System for Dosage-Based Functional Genomics in Poplar | The Plant Cell | 27(9) 2370–83 |
| 2015 | 10.1111/tpj.13002 | Dash, M., Y. S. Yordanov, T. Georgieva, S. Kumari, H. Wei and V. Busov | A systems biology approach identifies new regulators of poplar root development under low nitrogen | The Plant Journal | 84(2) 335–46 |
| 2015 | 10.1016/j.tetlet.2015.01.191 | Bracken, J. D., A. D. Carlson, J. H. Frederich, M. Nguyen, G. C. Shore and P. G. Harran | Tailored fragments of roseophilin selectively antagonize Mcl-1 in vitro | Tetrahedron Letters | 56(23) 3612-3616 |
| 2015 | 10.1093/femsyr/fov002 | Sylvester, K., Q. M. Wang, B. James, R. Mendez, A. B. Hulfachor and C. T. Hittinger | Temperature and host preferences drive the diversification of Saccharomyces and other yeasts: A survey and the discovery of eight new yeast species | FEMS Yeast Research | 15(3) 45307 |
| 2015 | 10.1371/journal.pone.0121658 | Fristedt, R., N. F. Martins, D. Strenkert, C. A. Clarke, M. Suchoszek, W. Thiele, M. A. Schöttler and S. S. Merchant | The thylakoid membrane protein CGL160 supports CF1CF0 ATP synthase accumulation in Arabidopsis thaliana | PLoS ONE | 10(4) |
| 2015 | 10.1371/journal.pone.0109277 | Essinger, S. D., E. Reichenberger, C. Morrison, C. B. Blackwood and G. L. Rosen | A toolkit for ARB to integrate custom databases and externally built phylogenies | PLoS One | 10(1) e0109277 |
| 2015 | 10.1111/nph.13133 | Hacquard, S. and C. W. Schadt | Towards a holistic understanding of the beneficial interactions across the Populus microbiome | New Phytologist | 205(4) 1424–30 |
| 2015 | 10.1093/jxb/eru500 | Tjellström, H., M. Strawsine and J. B. Ohlrogge | Tracking synthesis and turnover of triacylglycerol in leaves | Journal of Experimental Botany | 66(5) 1453-1461 |
| 2015 | 10.1016/j.pbi.2015.01.004 | Gehan, M. A., K. Greenham, T. C. Mockler and C. R. McClung | Transcriptional networks-crops, clocks, and abiotic stress | Current Opinion in Plant Biology | 24 39–46 |
| 2015 | 10.1105/tpc.15.00641 | Xing, D., Y. Wang, M. Hamilton, A. Ben-Hur and A. S. Reddy | Transcriptome-Wide Identification of RNA Targets of Arabidopsis Serine/Arginine-Rich45 Uncovers the Unexpected Roles of This RNA Binding Protein in RNA Processing | The Plant Cell | 27(12) 3294–308 |
| 2015 | 10.3389/fpls.2015.00275 | Yadav, U. P., B. G. Ayre and D. R. Bush | Transgenic approaches to altering carbon and nitrogen partitioning in whole plants: assessing the potential to improve crop yields and nutritional quality | Frontiers in Plant Science | 6 275 |
| 2015 | 10.1104/pp.114.251827 | Dever, L. V., S. F. Boxall, J. Knerova and J. Hartwell | Transgenic perturbation of the decarboxylation phase of Crassulacean acid metabolism alters physiology and metabolism but has only a small effect on growth | Plant Physiology | 167(1) 44–59 |
| 2015 | 10.1016/j.compbiolchem.2014.11.007 | Topham, C. M. and J. C. Smith | Tri-peptide reference structures for the calculation of relative solvent accessible surface area in protein amino acid residues | Computational Biology and Chemistry | 54 33–43 |
| 2015 | 10.1093/jxb/erv383 | Swamy, P. S., H. Hu, S. Pattathil, V. J. Maloney, H. Xiao, L. J. Xue, J. D. Chung, V. E. Johnson, Y. Zhu, G. F. Peter, M. G. Hahn, S. D. Mansfield, S. A. Harding and C. J. Tsai | Tubulin perturbation leads to unexpected cell wall modifications and affects stomatal behaviour in Populus | Journal of Experimental Botany | 66(20) 6507–18 |
| 2015 | 10.7503/cjcu20150674 | Qian, P., Z. Nan, C. Feng and G. Hong | Understanding Substrate Specificity of Related Plant Methylesterases(MESs) from Computational Investigations | Chemical Journal of Chinese Universities | 36(11) 2283 |
| 2015 | 10.1016/j.pbi.2015.05.016 | Ruberti, C., S. J. Kim, G. Stefano and F. Brandizzi | Unfolded protein response in plants: One master, many questions | Current Opinion in Plant Biology | 27 59-66 |
| 2015 | 10.1007/s11306-014-0747-6 | Hamerly, T., B. P. Tripet, M. Tigges, R. J. Giannone, L. Wurch, R. L. Hettich, M. Podar, V. Copie and B. Bothner | Untargeted metabolomics studies employing NMR and LC-MS reveal metabolic coupling between Nanoarcheum equitans and its archaeal host Ignicoccus hospitalis | Metabolomics | 11(4) 895–907 |
| 2015 | 10.1016/j.soilbio.2014.10.007 | Swenson, T. L., S. Jenkins, B. P. Bowen and T. R. Northen | Untargeted soil metabolomics methods for analysis of extractable organic matter | Soil Biology and Biochemistry | 80 189–98 |
| 2015 | 10.1038/nature14486 | Brown, C. T., L. A. Hug, B. C. Thomas, I. Sharon, C. J. Castelle, A. Singh, M. J. Wilkins, K. C. Wrighton, K. H. Williams and J. F. Banfield | Unusual biology across a group comprising more than 15% of domain Bacteria | Nature | 523(7559) 208–11 |
| 2015 | 10.1038/srep10134 | Ševcíková, T., A. Horák, V. Klimeš, V. Zbránková, E. Demir-Hilton, et al. | Updating algal evolutionary relationships through plastid genome sequencing: Did alveolate plastids emerge through endosymbiosis of an ochrophyte? | Scientific Reports | 5 |
| 2015 | 10.3389/fbioe.2015.00165 | Deng, K., T. E. Takasuka, C. M. Bianchetti, L. F. Bergeman, P. D. Adams, T. R. Northen and B. G. Fox | Use of nanostructure-initiator mass spectrometry to deduce selectivity of reaction in glycoside hydrolases | Frontiers in Bioengineering and Biotechnology | 3(OCT) |
| 2015 | 10.1007/s10533-015-0132-1 | Lin, Y., J. Y. King, S. D. Karlen and J. Ralph | Using 2D NMR spectroscopy to assess effects of UV radiation on cell wall chemistry during litter decomposition | Biogeochemistry | 125(3) 427-436 |
| 2015 | 10.1111/php.12448 | Tfaily, M. M., J. E. Corbett, R. Wilson, J. P. Chanton, P. H. Glaser, K. M. Cawley, R. Jaffe and W. T. Cooper | Utilization of PARAFAC-Modeled Excitation-Emission Matrix (EEM) Fluorescence Spectroscopy to Identify Biogeochemical Processing of Dissolved Organic Matter in a Northern Peatland | Photochemistry and Photobiology | 91(3) 684–95 |
| 2015 | 10.1016/j.molp.2015.06.005 | Fahlgren, N., M. Feldman, M. A. Gehan, M. S. Wilson, C. Shyu, et al. | A Versatile Phenotyping System and Analytics Platform Reveals Diverse Temporal Responses to Water Availability in Setaria | Molecular Plant | 8(10) 1520–35 |
| 2015 | 10.1016/j.plaphy.2015.07.010 | Jiang, Y., H. Chen, X. Chen, T. G. Kollner, Q. Jia, T. W. Wymore, F. Wang and F. Chen | Volatile squalene from a nonseed plant Selaginella moellendorffii: Emission and biosynthesis | Plant Physiology and Biochemistry | 96 1–8 |
| 2015 | 10.1039/c4cp05004e | Carmona, C., P. Langan, J. C. Smith and L. Petridis | Why genetic modification of lignin leads to low-recalcitrance biomass | Physical Chemistry Chemical Physics | 17(1) 358–64 |
| 2015 | 10.1186/s40168-015-0093-6 | Wang, Q., J. A. Fish, M. Gilman, Y. Sun, C. T. Brown, J. M. Tiedje and J. R. Cole | Xander: employing a novel method for efficient gene-targeted metagenomic assembly | Microbiome | 3 32 |
| 2014 | 10.1371/journal.pone.0104336 | Stephen, C. S., E. V. LaBelle, S. L. Brantley and D. R. Bond | Abundance of the multiheme c-type cytochrome OmcB increases in outer biofilm layers of electrode-grown Geobacter sulfurreducens | PLoS One | 9(8) e104336 |
| 2014 | 10.1371/journal.pone.0112227 | Lipka, A. E., F. Lu, J. H. Cherney, E. S. Buckler, M. D. Casler and D. E. Costich | Accelerating the switchgrass (Panicum virgatum L.) breeding cycle using genomic selection approaches | PLoS One | 9(11) e112227 |
| 2014 | 10.1002/cpe.3070 | Ellingson, S. R., S. Dakshanamurthy, M. Brown, J. C. Smith and J. Baudry | Accelerating Virtual High-Throughput Ligand Docking: current technology and case study on a petascale supercomputer | Concurrency and Computation: Practice and Experience | 26(6) 1268–77 |
| 2014 | 10.1021/jp507157e | Harris, B. J., X. Cheng and P. Frymier | All-Atom Molecular Dynamics Simulation of a Photosystem I/Detergent Complex | Journal of Physical Chemistry B | 118(40) 11633–45 |
| 2014 | 10.1146/annurev-phyto-082712-102237 | Zhao, Q. and R. A. Dixon | Altering the cell wall and its impact on plant disease: from forage to bioenergy | Annual Review of Phytopathology | 52 69–91 |
| 2014 | 10.1038/ismej.2014.146 | McRose, D., J. Guo, A. Monier, S. Sudek, S. Wilken, S. Yan, T. Mock, J. M. Archibald, T. P. Begley, A. Reyes-Prieto and A. Z. Worden | Alternatives to vitamin B1 uptake revealed with discovery of riboswitches in multiple marine eukaryotic lineages | The ISME Journal | 8(12) 2517–29 |
| 2014 | 10.1371/journal.pone.0087499 | Priest, H. D., S. E. Fox, E. R. Rowley, J. R. Murray, T. P. Michael and T. C. Mockler | Analysis of global gene expression in Brachypodium distachyon reveals extensive network plasticity in response to abiotic stress | PLoS ONE | 9(1) |
| 2014 | 10.1016/j.abb.2014.04.005 | Le, R. K., B. J. Harris, I. J. Iwuchukwu, B. D. Bruce, X. Cheng, S. Qian, W. T. Heller, H. O'Neill and P. D. Frymier | Analysis of the solution structure of Thermosynechococcus elongatus photosystem I in n-dodecyl-β-D-maltoside using small-angle neutron scattering and molecular dynamics simulation | Archives of Biochemistry and Biophysics | 550–1 50–7 |
| 2014 | 10.1016/B978-0-444-62650-9.00001-4 | Van Nostrand, J. D. and J. Zhou | Applications of Functional Gene Microarrays for Profiling Microbial Communities | Applications of Advanced Omics Technologies: From Genes to Metabolites | 64 3–22 |
| 2014 | 10.1093/bib/bbs074 | Bare, J. C. and N. S. Baliga | Architecture for interoperable software in biology | Briefings in Bioinformatics | 15(4) 626–36 |
| 2014 | 10.5194/bg-11-4753-2014 | Deng, J., C. Li, S. Frolking, Y. Zhang, K. Backstrand and P. Crill | Assessing effects of permafrost thaw on C fluxes based on multiyear modeling across a permafrost thaw gradient at Stordalen, Sweden | Biogeosciences | 11(17) 4753–70 |
| 2014 | 10.1016/j.soilbio.2013.11.012 | Lee, Z. M. and T. M. Schmidt | Bacterial growth efficiency varies in soils under different land management practices | Soil Biology and Biochemistry | 69 282-290 |
| 2014 | 10.1002/cbic.201402104 | Chatterjee, A., M. J. Lajoie, H. Xiao, G. M. Church and P. G. Schultz | A bacterial strain with a unique quadruplet codon specifying non-native amino acids | ChemBioChem | 15(12) 1782–6 |
| 2014 | 10.3389/fpls.2014.00615 | Peng, D., X. Gu, L. J. Xue, J. H. Leebens-Mack and C. J. Tsai | Bayesian phylogeny of sucrose transporters: ancient origins, differential expansion and convergent evolution in monocots and dicots | Frontiers in Plant Science | 5 615 |
| 2014 | 10.1073/pnas.1308940110 | Doust, A. N., L. Lukens, K. M. Olsen, M. Mauro-Herrera, A. Meyer and K. Rogers | Beyond the single gene: How epistasis and gene-by-environment effects influence crop domestication | Proceedings of the National Academy of Sciences of the United States of America | 111(17) 6178–83 |
| 2014 | 10.1111/pce.12322 | Niinemets, U., S. Fares, P. Harley and K. J. Jardine | Bidirectional exchange of biogenic volatiles with vegetation: emission sources, reactions, breakdown and deposition | Plant Cell & Environment | 37(8) 1790–809 |
| 2014 | 10.1007/s13361-014-0978-9 | Lanni, E. J., S. J. Dunham, P. Nemes, S. S. Rubakhin and J. V. Sweedler | Biomolecular imaging with a C60-SIMS/MALDI dual ion source hybrid mass spectrometer: instrumentation, matrix enhancement, and single cell analysis | Journal of the American Society for Mass Spectrometry | 25(11) 1897–907 |
| 2014 | 10.1002/ijch.201300137 | Hong, L., L. Petridis and J. C. Smith | Biomolecular Structure and Dynamics with Neutrons: The View from Simulation | Israel Journal of Chemistry | 54(45513) 1264–73 |
| 2014 | 10.1371/journal.pone.0115775 | Herzberger, A. J., D. S. Duncan and R. D. Jackson | Bouncing back: Plant-associated soil microbes respond rapidly to prairie establishment | PLoS ONE | 9(12) |
| 2014 | 10.1128/JB.01299-13 | Gordon, G. C. and J. B. McKinlay | Calvin cycle mutants of photoheterotrophic purple nonsulfur bacteria fail to grow due to an electron imbalance rather than toxic metabolite accumulation | Journal of Bacteriology | 196(6) 1231–7 |
| 2014 | 10.1186/s13068-014-0144-4 | Dash, S., T. J. Mueller, K. P. Venkataramanan, E. T. Papoutsakis and C. D. Maranas | Capturing the response of Clostridium acetobutylicum to chemical stressors using a regulated genome-scale metabolic model | Biotechnology for Biofuels | 7(1) 144 |
| 2014 | 10.1007/s12155-013-9348-x | Azarpira, A., J. Ralph and F. Lu | Catalytic alkaline oxidation of lignin and its model compounds: A pathway to aromatic biochemicals | Bioenergy Research | 7(1) 78-86 |
| 2014 | 10.4161/psb.27723 | Park, S., J. Keereetaweep, C. N. James, S. K. Gidda, K. D. Chapman, R. T. Mullen and J. M. Dyer | CGI-58, a key regulator of lipid homeostasis and signaling in plants, also regulates polyamine metabolism | Plant Signaling & Behavior | 9(2) e27723 |
| 2014 | 10.1073/pnas.1314641111 | Hodgkins, S. B., M. M. Tfaily, C. K. McCalley, T. A. Logan, P. M. Crill, S. R. Saleska, V. I. Rich and J. P. Chanton | Changes in peat chemistry associated with permafrost thaw increase greenhouse gas production | Proceedings of the National Academy of Sciences of the United States of America | 111(16) 5819–24 |
| 2014 | 10.1534/g3.114.014001 | Sattler, S. E., A. Saballos, Z. Xin, D. L. Funnell-Harris, W. Vermerris and J. F. Pedersen | Characterization of novel Sorghum brown midrib mutants from an EMS-mutagenized population | G3 Genes|Genomes|Genetics | 4(11) 2115–24 |
| 2014 | 10.1186/1472-6807-14-17 | Leettola, C. N., M. J. Knight, D. Cascio, S. Hoffman and J. U. Bowie | Characterization of the SAM domain of the PKD-related protein ANKS6 and its interaction with ANKS3 | BMC Structural Biology | 14(1) |
| 2014 | 10.1021/jp411998t | Sangha, A. K., B. H. Davison, R. F. Standaert, M. F. Davis, J. C. Smith and J. M. Parks | Chemical factors that control lignin polymerization | Journal of Physical Chemistry B | 118(1) 164–70 |
| 2014 | 10.1039/c4cc04692g | Tobimatsu, Y., D. Van de Wouwer, E. Allen, R. Kumpf, B. Vanholme, W. Boerjan and J. Ralph | A click chemistry strategy for visualization of plant cell wall lignification | Chemical Communications | 50(82) 12262–5 |
| 2014 | 10.1021/jp407953p | Srinivas, G., X. Cheng and J. C. Smith | Coarse-grain model for natural cellulose fibrils in explicit water | Journal of Physical Chemistry B | 118(11) 3026–34 |
| 2014 | 10.1111/1574-6941.12219 | Vishnivetskaya, T. A., A. C. Layton, M. C. Lau, A. Chauhan, K. R. Cheng, et al. | Commercial DNA extraction kits impact observed microbial community composition in permafrost samples | FEMS Microbiology Ecology | 87(1) 217–30 |
| 2014 | 10.1039/c3gc41962b | Langan, P., L. Petridis, H. M. O'Neill, S. V. Pingali, M. Foston, et al. | Common processes drive the thermochemical pretreatment of lignocellulosic biomass | Green Chemistry | 16(1) 63–8 |
| 2014 | 10.1128/AEM.01285-14 | Jagtap, S. S., J. H. Hehemann, M. F. Polz, J. K. Lee and H. Zhao | Comparative biochemical characterization of three exolytic oligoalginate lyases from Vibrio splendidus reveals complementary substrate scope, temperature, and pH adaptations | Applied and Environmental Microbiology | 80(14) 4207–14 |
| 2014 | 10.1186/1471-2229-14-135 | Zhao, K. and L. E. Bartley | Comparative genomic analysis of the R2R3 MYB secondary cell wall regulators of Arabidopsis, poplar, rice, maize, and switchgrass | BMC Plant Biology | 14 135 |
| 2014 | 10.1186/1754-6834-7-72 | Uppugundla, N., L. Da Costa Sousa, S. P. S. Chundawat, X. Yu, B. Simmons, S. Singh, X. Gao, R. Kumar, C. E. Wyman, B. E. Dale and V. Balan | A comparative study of ethanol production using dilute acid, ionic liquid and AFEX™ pretreated corn stover | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1186/1471-2164-15-1107 | Justice, N. B., A. Norman, C. T. Brown, A. Singh, B. C. Thomas and J. F. Banfield | Comparison of environmental and isolate Sulfobacillus genomes reveals diverse carbon, sulfur, nitrogen, and hydrogen metabolisms | BMC Genomics | 15 1107 |
| 2014 | 10.1186/1754-6834-7-71 | Gao, X., R. Kumar, S. Singh, B. A. Simmons, V. Balan, B. E. Dale and C. E. Wyman | Comparison of enzymatic reactivity of corn stover solids prepared by dilute acid, AFEX™, and ionic liquid pretreatments | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1038/ismej.2013.134 | Ceja-Navarro, J. A., N. H. Nguyen, U. Karaoz, S. R. Gross, D. J. Herman, G. L. Andersen, T. D. Bruns, J. Pett-Ridge, M. Blackwell and E. L. Brodie | Compartmentalized microbial composition, oxygen gradients and nitrogen fixation in the gut of Odontotaenius disjunctus | The ISME Journal | 8(1) 6–18 |
| 2014 | 10.1002/etc.2595 | Harris, J. B., M. L. Eldridge, G. Sayler, F. M. Menn, A. C. Layton and J. Baudry | A computational approach predicting CYP450 metabolism and estrogenic activity of an endocrine disrupting compound (PCB-30) | Environmental Toxicolology and Chemistry | 33(7) 1615–23 |
| 2014 | 10.1371/journal.pcbi.1003575 | Feist, A. M., H. Nagarajan, A. E. Rotaru, P. L. Tremblay, T. Zhang, K. P. Nevin, D. R. Lovley and K. Zengler | Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens | PLoS Computational Biology | 10(4) e1003575 |
| 2014 | 10.1002/mbo3.190 | Chu, H., S. Wang, H. Yue, Q. Lin, Y. Hu, X. Li, J. Zhou and Y. Yang | Contrasting soil microbial community functional structures in two major landscapes of the Tibetan alpine meadow | MicrobiologyOpen | 3(5) 585–94 |
| 2014 | 10.1111/1462-2920.12273 | Novichkov, P. S., X. Li, J. V. Kuehl, A. M. Deutschbauer, A. P. Arkin, M. N. Price and D. A. Rodionov | Control of methionine metabolism by the SahR transcriptional regulator in Proteobacteria | Environmental Microbiology | 16(1) 45299 |
| 2014 | 10.1007/s10570-013-0067-4 | He, J., S. V. Pingali, S. P. S. Chundawat, A. Pack, A. D. Jones, P. Langan, B. H. Davison, V. Urban, B. Evans and H. O'Neill | Controlled incorporation of deuterium into bacterial cellulose | Cellulose | 21(2) 927-936 |
| 2014 | 10.1021/ac5030914 | Lanni, E. J., R. N. Masyuko, C. M. Driscoll, S. J. Dunham, J. D. Shrout, P. W. Bohn and J. V. Sweedler | Correlated imaging with C60-SIMS and confocal Raman microscopy: Visualization of cell-scale molecular distributions in bacterial biofilms | Analytical Chemistry | 86(21) 10885–91 |
| 2014 | 10.1186/1754-6834-7-48 | Liu, T., D. L. Williams, S. Pattathil, M. Li, M. G. Hahn and D. B. Hodge | Coupling alkaline pre-extraction with alkaline-oxidative post-treatment of corn stover to enhance enzymatic hydrolysis and fermentability | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1371/journal.pone.0098811 | Yaung, S. J., K. M. Esvelt and G. M. Church | CRISPR/Cas9-mediated phage resistance is not impeded by the DNA modifications of phage T4 | PLoS One | 9(6) e98811 |
| 2014 | 10.1371/journal.pone.0100072 | Matos, D. A., B. J. Cole, I. P. Whitney, K. J. MacKinnon, S. A. Kay and S. P. Hazen | Daily changes in temperature, not the circadian clock, regulate growth rate in Brachypodium distachyon | PLoS One | 9(6) e100072 |
| 2014 | 10.1103/PhysRevLett.112.158102 | Hong, L., N. Smolin and J. C. Smith | de Gennes narrowing describes the relative motion of protein domains | Physical Review Letters | 112(15) 158102 |
| 2014 | 10.3389/fmicb.2014.00090 | Piotrowski, J. S., Y. Zhang, D. M. Bates, D. H. Keating, T. K. Sato, I. M. Ong and R. Landick | Death by a thousand cuts: The challenges and diverse landscape of lignocellulosic hydrolysate inhibitors | Frontiers in Microbiology | 5(MAR) |
| 2014 | 10.1111/jipb.12198 | Poire, R., V. Chochois, X. R. Sirault, J. P. Vogel, M. Watt and R. T. Furbank | Digital imaging approaches for phenotyping whole plant nitrogen and phosphorus response in Brachypodium distachyon | Journal of Integrative Plant Biology | 56(8) 781–96 |
| 2014 | 10.1128/AEM.00895-14 | Rotaru, A. E., P. M. Shrestha, F. Liu, B. Markovaite, S. Chen, K. P. Nevin and D. R. Lovley | Direct interspecies electron transfer between Geobacter metallireducens and Methanosarcina barkeri | Applied and Environmental Microbiology | 80(15) 4599–605 |
| 2014 | 10.1038/ncomms4212 | Mondav, R., B. J. Woodcroft, E. H. Kim, C. K. McCalley, S. B. Hodgkins, P. M. Crill, J. Chanton, G. B. Hurst, N. C. VerBerkmoes, S. R. Saleska, P. Hugenholtz, V. I. Rich and G. W. Tyson | Discovery of a novel methanogen prevalent in thawing permafrost | Nature Communications | 5 3212 |
| 2014 | 10.1038/nature13084 | Bonawitz, N. D., J. I. Kim, Y. Tobimatsu, P. N. Ciesielski, N. A. Anderson, E. Ximenes, J. Maeda, J. Ralph, B. S. Donohoe, M. Ladisch and C. Chapple | Disruption of Mediator rescues the stunted growth of a lignin-deficient Arabidopsis mutant | Nature | 509(7500) 376–80 |
| 2014 | 10.1038/ismej.2013.177 | He, Z., J. Xiong, A. D. Kent, Y. Deng, K. Xue, G. Wang, L. Wu, J. D. Van Nostrand and J. Zhou | Distinct responses of soil microbial communities to elevated CO2 and O3 in a soybean agro-ecosystem | The ISME Journal | 8(3) 714–26 |
| 2014 | 10.1111/1758-2229.12160 | Ma, Y., L. Z. Allen and B. Palenik | Diversity and genome dynamics of marine cyanophages using metagenomic analyses | Environmental Microbiology Reports | 6(6) 583–94 |
| 2014 | 10.1371/journal.pcbi.1003447 | O'Connor, D. L., A. Runions, A. Sluis, J. Bragg, J. P. Vogel, P. Prusinkiewicz and S. Hake | A division in PIN-mediated auxin patterning during organ initiation in grasses | PLoS Computational Biology | 10(1) e1003447 |
| 2014 | 10.3389/fpls.2014.00299 | Pendleton, A. L., K. E. Smith, N. Feau, F. M. Martin, I. V. Grigoriev, R. Hamelin, C. D. Nelson, J. G. Burleigh and J. M. Davis | Duplications and losses in gene families of rust pathogens highlight putative effectors | Frontiers in Plant Science | 5 299 |
| 2014 | 10.1104/pp.114.247494 | Jardine, K., J. Chambers, E. G. Alves, A. Teixeira, S. Garcia, J. Holm, N. Higuchi, A. Manzi, L. Abrell, J. D. Fuentes, L. K. Nielsen, M. S. Torn and C. E. Vickers | Dynamic balancing of isoprene carbon sources reflects photosynthetic and photorespiratory responses to temperature stress | Plant Physiology | 166(4) 2051–64 |
| 2014 | 10.1073/pnas.1405621111 | Yordanov, Y. S., C. Ma, S. H. Strauss and V. B. Busov | EARLY BUD-BREAK 1 (EBB1) is a regulator of release from seasonal dormancy in poplar trees | Proceedings of the National Academy of Sciences of the United States of America | 111(27) 10001–6 |
| 2014 | 10.1073/pnas.1322671111 | Plett, J. M., Y. Daguerre, S. Wittulsky, A. Vayssieres, A. Deveau, S. J. Melton, A. Kohler, J. L. Morrell-Falvey, A. Brun, C. Veneault-Fourrey and F. Martin | Effector MiSSP7 of the mutualistic fungus Laccaria bicolor stabilizes the Populus JAZ6 protein and represses jasmonic acid (JA) responsive genes | Proceedings of the National Academy of Sciences of the United States of America | 111(22) 8299–304 |
| 2014 | 10.1021/jp410788r | Johnson, Q. R., R. J. Lindsay, S. R. Raval, J. S. Dobbs, R. B. Nellas and T. Shen | Effects of branched O-glycosylation on a semiflexible peptide linker | Journal of Physical Chemistry B | 118(8) 2050–7 |
| 2014 | 10.1016/j.soilbio.2014.05.011 | Mouginot, C., R. Kawamura, K. L. Matulich, R. Berlemont, S. D. Allison, A. S. Amend and A. C. Martiny | Elemental stoichiometry of Fungi and Bacteria strains from grassland leaf litter | Soil Biology and Biochemistry | 76 278–85 |
| 2014 | 10.1038/ismej.2014.42 | Xu, M., Q. Zhang, C. Xia, Y. Zhong, G. Sun, J. Guo, T. Yuan, J. Zhou and Z. He | Elevated nitrate enriches microbial functional genes for potential bioremediation of complexly contaminated sediments | The ISME Journal | 8(9) 1932–44 |
| 2014 | 10.3835/plantgenome2013.11.0040 | Murphy, R. L., D. T. Morishige, J. A. Brady, W. L. Rooney, S. Yang, P. E. Klein and J. E. Mullet | Ghd7 (Ma6) represses sorghum flowering in long days: Ghd7 alleles enhance biomass accumulation and grain production | Plant Genome | 7(2) |
| 2014 | 10.1007/s10570-014-0379-z | Xiang, Z., R. Anthony, Y. Tobimatsu and T. Runge | Emulsifying properties of an arabinoxylan-protein gum from distillers' grains and the co-production of animal feed | Cellulose | 21(5) 3623-3635 |
| 2014 | 10.1007/s12155-013-9399-z | Kim, S., B. E. Dale and P. Keck | Energy Requirements and Greenhouse Gas Emissions of Maize Production in the USA | Bioenergy Research | 7(2) 753-764 |
| 2014 | 10.1126/science.1257859 | Lam, F. H., A. Ghaderi, G. R. Fink and G. Stephanopoulos | Engineering alcohol tolerance in yeast | Science | 346(6205) 71–5 |
| 2014 | 10.1016/j.tig.2014.09.004 | Raman, S., N. Taylor, N. Genuth, S. Fields and G. M. Church | Engineering allostery | Trends in Genetics | 30(12) 521–8 |
| 2014 | 10.1016/j.tplants.2014.01.006 | Borland, A. M., J. Hartwell, D. J. Weston, K. A. Schlauch, T. J. Tschaplinski, G. A. Tuskan, X. Yang and J. C. Cushman | Engineering crassulacean acid metabolism to improve water-use efficiency | Trends in Plant Science | 19(5) 327–38 |
| 2014 | 10.1093/jxb/eru221 | Warnasooriya, S. N. and T. P. Brutnell | Enhancing the productivity of grasses under high-density planting by engineering light responses: from model systems to feedstocks | Journal of Experimental Botany | 65(11) 2825–34 |
| 2014 | 10.1016/j.ymben.2014.06.006 | Lee, Y., J. G. Lafontaine Rivera and J. C. Liao | Ensemble Modeling for Robustness Analysis in engineering non-native metabolic pathways | Metabolic Engineering | 25 63–71 |
| 2014 | 10.1016/j.biombioe.2014.01.021 | Palmer, M. M., J. A. Forrester, D. E. Rothstein and D. J. Mladenoff | Establishment phase greenhouse gas emissions in short rotation woody biomass plantations in the Northern Lake States, USA | Biomass and Bioenergy | 62 26-36 |
| 2014 | 10.1038/ismej.2014.76 | Rodriguez-R., L. M. and K. T. Konstantinidis | Estimating coverage in metagenomic data sets and why it matters | The ISME Journal | 8(11) 2349–51 |
| 2014 | 10.1111/nph.12655 | Plett, J. M., A. Khachane, M. Ouassou, B. Sundberg, A. Kohler and F. Martin | Ethylene and jasmonic acid act as negative modulators during mutualistic symbiosis between Laccaria bicolor and Populus roots | New Phytologist | 202(1) 270–86 |
| 2014 | 10.1073/pnas.1401871111 | Rockwell, N. C., D. Duanmu, S. S. Martin, C. Bachy, D. C. Price, D. Bhattacharya, A. Z. Worden and J. C. Lagarias | Eukaryotic algal phytochromes span the visible spectrum | Proceedings of the National Academy of Sciences of the United States of America | 111(10) 3871–6 |
| 2014 | 10.1093/bioinformatics/btu391 | Utturkar, S. M., D. M. Klingeman, M. L. Land, C. W. Schadt, M. J. Doktycz, D. A. Pelletier and S. D. Brown | Evaluation and validation of de novo and hybrid assembly techniques to derive high-quality genome sequences | Bioinformatics | 30(19) 2709–16 |
| 2014 | 10.1021/bi500566q | Vinokur, J. M., T. P. Korman, Z. Cao and J. U. Bowie | Evidence of a novel mevalonate pathway in archaea | Biochemistry | 53(25) 4161-4168 |
| 2014 | 10.1186/s12918-014-0122-2 | Plaisier, C. L., F. Y. Lo, J. Ashworth, A. N. Brooks, K. D. Beer, A. Kaur, M. Pan, D. J. Reiss, M. T. Facciotti and N. S. Baliga | Evolution of context dependent regulation by expansion of feast/famine regulatory proteins | BMC Systems Biology | 8 122 |
| 2014 | 10.1111/mmi.12564 | Wurtmann, E. J., A. V. Ratushny, M. Pan, K. D. Beer, J. D. Aitchison and N. S. Baliga | An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation | Molecular Microbiology | 92(2) 369–82 |
| 2014 | 10.1371/journal.pone.0102458 | Beck, D. A., T. L. McTaggart, U. Setboonsarng, A. Vorobev, M. G. Kalyuzhnaya, N. Ivanova, L. Goodwin, T. Woyke, M. E. Lidstrom and L. Chistoserdova | The expanded diversity of Methylophilaceae from Lake Washington through cultivation and genomic sequencing of novel ecotypes | PLoS One | 9(7) e102458 |
| 2014 | 10.3389/fmicb.2014.00582 | Kuo, A., A. Kohler, F. M. Martin and I. V. Grigoriev | Expanding genomics of mycorrhizal symbiosis | Frontiers in Microbiology | 5 582 |
| 2014 | 10.1021/tx400350b | Esposito, E. X., T. R. Stouch, T. Wymore and J. D. Madura | Exploring the physicochemical properties of oxime-reactivation therapeutics for cyclosarin, sarin, tabun, and VX inactivated acetylcholinesterase | Chemical Research in Toxicology | 27(1) 99–110 |
| 2014 | 10.1177/0959683614538078 | Frolking, S., J. Talbot and Z. M. Subin | Exploring the relationship between peatland net carbon balance and apparent carbon accumulation rate at century to millennial time scales | Holocene | 24(9) 1167–73 |
| 2014 | 10.1016/j.pep.2014.02.013 | Lim, S., S. P. S. Chundawat and B. G. Fox | Expression, purification and characterization of a functional carbohydrate-binding module from Streptomyces sp. SirexAA-E | Protein Expression and Purification | 98 45300 |
| 2014 | 10.1073/pnas.1400592111 | Riley, R., A. A. Salamov, D. W. Brown, L. G. Nagy, D. Floudas, et al. | Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi | Proceedings of the National Academy of Sciences of the United States of America | 111(27) 9923–8 |
| 2014 | 10.1111/nph.12462 | Riley, R., P. Charron, A. Idnurm, L. Farinelli, Y. Dalpe, F. Martin and N. Corradi | Extreme diversification of the mating type-high-mobility group (MATA-HMG) gene family in a plant-associated arbuscular mycorrhizal fungus | New Phytologist | 201(1) 254–68 |
| 2014 | 10.1186/1754-6834-7-52 | Jabbour, D., E. R. Angelos, A. Mukhopadhyay, A. Womboldt, M. S. Borrusch and J. D. Walton | Factors contributing to the recalcitrance of herbaceous dicotyledons (forbs) to enzymatic deconstruction | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.3389/fmicb.2014.00061 | Lee, J. Z., L. C. Burow, D. Woebken, R. C. Everroad, M. D. Kubo, A. M. Spormann, P. K. Weber, J. Pett-Ridge, B. M. Bebout and T. M. Hoehler | Fermentation couples Chloroflexi and sulfate-reducing bacteria to Cyanobacteria in hypersaline microbial mats | Frontiers in Microbiology | 5 61 |
| 2014 | 10.1016/j.indcrop.2014.05.023 | Xiang, Z., J. Watson, Y. Tobimatsu and T. Runge | Film-forming polymers from distillers' grains: Structural and material properties | Industrial Crops and Products | 59 282-289 |
| 2014 | 10.17660/ActaHortic.2014.1042.1 | Amasino, R. | Florigen: A universal trigger for flowering? | Acta Horticulturae | 1042 21-26 |
| 2014 | 10.1093/nar/gku702 | Prestat, E., M. M. David, J. Hultman, N. Tas, R. Lamendella, J. Dvornik, R. Mackelprang, D. D. Myrold, A. Jumpponen, S. G. Tringe, E. Holman, K. Mavromatis and J. K. Jansson | FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus | Nucleic Acids Research | 42(19) e145 |
| 2014 | 10.1038/nature13867 | Rahimi, A., A. Ulbrich, J. J. Coon and S. S. Stahl | Formic-acid-induced depolymerization of oxidized lignin to aromatics | Nature | 515(7526) 249-252 |
| 2014 | 10.1016/j.jmb.2014.06.007 | Lomax, J. E., C. M. Bianchetti, A. Chang, G. N. Phillips Jr, B. G. Fox and R. T. Raines | Functional evolution of ribonuclease inhibitor: Insights from birds and reptiles | Journal of Molecular Biology | 426(17) 3041-3056 |
| 2014 | 10.1186/1471-2164-15-753 | Chen, Y., N. Qin, J. Guo, G. Qian, D. Fang, D. Shi, M. Xu, F. Yang, Z. He, J. D. Van Nostrand, T. Yuan, Y. Deng, J. Zhou and L. Li | Functional gene arrays-based analysis of fecal microbiomes in patients with liver cirrhosis | BMC Genomics | 15(1) 753 |
| 2014 | 10.1080/07352689.2014.870417 | Yin, H. F., C. J. Chen, J. Yang, D. J. Weston, J. G. Chen, W. Muchero, N. Ye, T. J. Tschaplinski, S. D. Wullschleger, Z. M. Cheng, G. A. Tuskan and X. H. Yang | Functional Genomics of Drought Tolerance in Bioenergy Crops | Critical Reviews in Plant Sciences | 33(45325) 205–24 |
| 2014 | 10.1111/nph.12891 | Labbe, J., J. Uehling, T. Payen and J. Plett | Fungal biology: compiling genomes and exploiting them | New Phytologist | 203(2) 359–61 |
| 2014 | 10.3389/fmicb.2014.00528 | Torto-Alalibo, T., E. Purwantini, J. Lomax, J. C. Setubal, B. Mukhopadhyay and B. M. Tyler | Genetic resources for advanced biofuel production described with the Gene Ontology | Frontiers in Microbiology | 5 528 |
| 2014 | 10.3389/fmicb.2014.00634 | Purwantini, E., T. Torto-Alalibo, J. Lomax, J. C. Setubal, B. M. Tyler and B. Mukhopadhyay | Genetic resources for methane production from biomass described with the Gene Ontology | Frontiers in Microbiology | 5 634 |
| 2014 | 10.1186/s12870-014-0312-5 | Yurchenko, O. P., S. Park, D. C. Ilut, J. J. Inmon, J. C. Millhollon, Z. Liechty, J. T. Page, M. A. Jenks, K. D. Chapman, J. A. Udall, M. A. Gore and J. M. Dyer | Genome-wide analysis of the omega-3 fatty acid desaturase gene family in Gossypium | BMC Plant Biology | 14 312 |
| 2014 | 10.1016/j.fgb.2014.08.007 | Veneault-Fourrey, C., C. Commun, A. Kohler, E. Morin, R. Balestrini, J. Plett, E. Danchin, P. Coutinho, A. Wiebenga, R. P. de Vries, B. Henrissat and F. Martin | Genomic and transcriptomic analysis of Laccaria bicolor CAZome reveals insights into polysaccharides remodelling during symbiosis establishment | Fungal Genetics and Biology | 72 168–81 |
| 2014 | 10.1093/aob/mcu054 | da Costa, R. M., S. J. Lee, G. G. Allison, S. P. Hazen, A. Winters and M. Bosch | Genotype, development and tissue-derived variation of cell-wall properties in the lignocellulosic energy crop Miscanthus | Annals of Botany | 114(6) 1265–77 |
| 2014 | 10.1111/1462-2920.12314 | Glass, J. B., H. Yu, J. A. Steele, K. S. Dawson, S. Sun, K. Chourey, C. Pan, R. L. Hettich and V. J. Orphan | Geochemical, metagenomic and metaproteomic insights into trace metal utilization by methane-oxidizing microbial consortia in sulphidic marine sediments | Environmental Microbiology | 16(6) 1592–611 |
| 2014 | 10.1111/1755-0998.12239 | Tu, Q., H. Yu, Z. He, Y. Deng, L. Wu, et al. | GeoChip 4: a functional gene-array-based high-throughput environmental technology for microbial community analysis | Molecular Ecology Resources | 14(5) 914–28 |
| 2014 | 10.1016/j.gdata.2014.06.003 | Gao, Y., S. Wang, D. Xu, H. Yu, L. Wu, Q. Lin, Y. Hu, X. Li, Z. He, Y. Deng, J. Zhou and Y. Yang | GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient | Genomics Data | 2 132–4 |
| 2014 | 10.1038/ncomms5044 | Almeida, P., C. Gonçalves, S. Teixeira, D. Libkind, M. Bontrager, I. Masneuf-Pomarède, W. Albertin, P. Durrens, D. J. Sherman, P. Marullo, C. Todd Hittinger, P. Gonçalves and J. P. Sampaio | A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum | Nature Communications | 5 |
| 2014 | 10.1021/ja5024783 | Rajeshwar, T. R., J. C. Smith and M. Krishnan | Hidden regularity and universal classification of fast side chain motions in proteins | Journal of the American Chemical Society | 136(24) 8590–605 |
| 2014 | 10.1002/cpe.2926 | Ellingson, S. R. and J. Baudry | High-throughput virtual molecular docking with AutoDockCloud | Concurrency and Computation: Practice and Experience | 26(4) 907–16 |
| 2014 | 10.1128/AEM.02111-14 | Yelle, D. J., A. N. Kapich, C. J. Houtman, F. Lu, V. I. Timokhin, R. C. Fort, Jr., J. Ralph and K. E. Hammel | A highly diastereoselective oxidant contributes to Ligninolysis by the white rot basidiomycete Ceriporiopsis subvermispora | Applied and Environmental Microbiology | 80(24) 7536–44 |
| 2014 | 10.4161/rna.28306 | Cole, J. R. and J. M. Tiedje | History and impact of RDP: a legacy from Carl Woese to microbiology | RNA Biology | 11(3) 239–43 |
| 2014 | 10.1021/bm5011849 | Petridis, L., H. M. O'Neill, M. Johnsen, B. Fan, R. Schulz, E. Mamontov, J. Maranas, P. Langan and J. C. Smith | Hydration control of the mechanical and dynamical properties of cellulose | Biomacromolecules | 15(11) 4152–9 |
| 2014 | 10.1021/jp410422c | Wymore, T., M. J. Field, P. Langan, J. C. Smith and J. M. Parks | Hydrolysis of DFP and the nerve agent (S)-sarin by DFPase proceeds along two different reaction pathways: implications for engineering bioscavengers | Journal of Physical Chemistry B | 118(17) 4479–89 |
| 2014 | 10.1111/gbi.12080 | Burow, L. C., D. Woebken, I. P. Marshall, S. W. Singer, J. Pett-Ridge, L. Prufert-Bebout, A. M. Spormann, B. M. Bebout, P. K. Weber and T. M. Hoehler | Identification of Desulfobacterales as primary hydrogenotrophs in a complex microbial mat community | Geobiology | 12(3) 221–30 |
| 2014 | 10.1016/j.jmb.2014.07.018 | Thompson, M. C., N. M. Wheatley, J. Jorda, M. R. Sawaya, S. D. Gidaniyan, H. Ahmed, Z. Yang, K. N. McCarty, J. P. Whitelegge and T. O. Yeates | Identification of a unique Fe-S cluster binding site in a glycyl-radical type microcompartment shell protein | Journal of molecular biology | 426(19) 3287-3304 |
| 2014 | 10.1186/1471-2164-15-179 | Gelli, M., Y. Duo, A. R. Konda, C. Zhang, D. Holding and I. Dweikat | Identification of differentially expressed genes between sorghum genotypes with contrasting nitrogen stress tolerance by genome-wide transcriptional profiling | BMC Genomics | 15 179 |
| 2014 | 10.1039/c4ra00824c | Li, M., S. Pattathil, M. G. Hahn and D. B. Hodge | Identification of features associated with plant cell wall recalcitrance to pretreatment by alkaline hydrogen peroxide in diverse bioenergy feedstocks using glycome profiling | RSC Advances | 4(33) 17282-17292 |
| 2014 | 10.1016/j.compag.2014.08.005 | Sahajpal, R., X. Zhang, R. C. Izaurralde, I. Gelfand and G. C. Hurtt | Identifying representative crop rotation patterns and grassland loss in the US Western Corn Belt | Computers and Electronics in Agriculture | 108 173-182 |
| 2014 | 10.1007/s10570-013-0149-3 | Williams, D. L. and D. B. Hodge | Impacts of delignification and hot water pretreatment on the water induced cell wall swelling behavior of grasses and its relation to cellulolytic enzyme hydrolysis and binding | Cellulose | 21(1) 221-235 |
| 2014 | 10.1371/journal.pone.0106232 | Li, J., L. Gu, J. Aach and G. M. Church | Improved cell-free RNA and protein synthesis system | PLoS One | 9(9) e106232 |
| 2014 | 10.1016/j.ymben.2014.06.003 | Sherkhanov, S., T. P. Korman and J. U. Bowie | Improving the tolerance of Escherichia coli to medium-chain fatty acid production | Metabolic Engineering | 25 45298 |
| 2014 | 10.1093/bioinformatics/btu015 | Young, J. D. | INCA: a computational platform for isotopically non-stationary metabolic flux analysis | Bioinformatics | 30(9) 1333–5 |
| 2014 | 10.1016/j.tibtech.2014.09.007 | Peers, G. | Increasing algal photosynthetic productivity by integrating ecophysiology with systems biology | Trends in Biotechnology | 32(11) 551–5 |
| 2014 | 10.1016/j.biombioe.2014.09.015 | Kim, S., B. E. Dale, R. Heijungs, A. Azapagic, T. Darlington and D. Kahlbaum | Indirect land use change and biofuels: Mathematical analysis reveals a fundamental flaw in the regulatory approach | Biomass and Bioenergy | 71 408-412 |
| 2014 | 10.1016/j.fuel.2013.11.047 | Min, D. Y., Q. Z. Li, V. Chiang, H. Jameel, H. M. Chang and L. Lucia | The influence of lignin-carbohydrate complexes on the cellulase-mediated saccharification I: Transgenic black cottonwood (western balsam poplar, California poplar) P. trichocarpa including the xylan down-regulated and the lignin down-regulated lines | Fuel | 119 207–13 |
| 2014 | 10.1016/j.fuel.2013.07.046 | Min, D. Y., C. Yang, V. Chiang, H. Jameel and H. M. Chang | The influence of lignin-carbohydrate complexes on the cellulase-mediated saccharification II: Transgenic hybrid poplars (Populus nigra L. and Populus maximowiczii A.) | Fuel | 116 56-62 |
| 2014 | 10.1128/mBio.02034-14 | Levar, C. E., C. H. Chan, M. G. Mehta-Kolte and D. R. Bond | An inner membrane cytochrome required only for reduction of high redox potential extracellular electron acceptors | mBio | 5(6) e02034 |
| 2014 | 10.1016/j.cois.2014.06.004 | Yang, L. H. and C. Gratton | Insects as drivers of ecosystem processes | Current Opinion in Insect Science | 2 26-32 |
| 2014 | 10.1016/j.ecolecon.2014.07.027 | Skevas, T., S. M. Swinton, T. D. Meehan, T. N. Kim, C. Gratton and A. Egbendewe-Mondzozo | Integrating agricultural pest biocontrol into forecasts of energy biomass production | Ecological Economics | 106 195-203 |
| 2014 | 10.1111/1758-2229.12201 | Youngblut, N. D. and D. H. Buckley | Intra-genomic variation in G + C content and its implications for DNA stable isotope probing | Environmental Microbiology Reports | 6(6) 767–75 |
| 2014 | 10.1073/pnas.1412269111 | Sivan, O., G. Antler, A. V. Turchyn, J. J. Marlow and V. J. Orphan | Iron oxides stimulate sulfate-driven anaerobic methane oxidation in seeps | Proceedings of the National Academy of Sciences of the United States of America | 111(40) E4139–47 |
| 2014 | 10.1128/AEM.03916-13 | Embree, M., Y. Qiu, W. Shieu, H. Nagarajan, R. O'Neil, D. Lovley and K. Zengler | The iron stimulon and fur regulon of Geobacter sulfurreducens and their role in energy metabolism | Applied and Environmental Microbiology | 80(9) 2918–27 |
| 2014 | 10.1016/j.str.2014.07.002 | Langan, P., A. K. Sangha, T. Wymore, J. M. Parks, Z. K. Yang, et al. | L-Arabinose binding, isomerization, and epimerization by D-xylose isomerase: X-ray/neutron crystallographic and molecular simulation study | Structure | 22(9) 1287–300 |
| 2014 | 10.1104/pp.114.245597 | Schuetz, M., A. Benske, R. A. Smith, Y. Watanabe, Y. Tobimatsu, J. Ralph, T. Demura, B. Ellis and A. L. Samuels | Laccases direct lignification in the discrete secondary cell wall domains of protoxylem | Plant Physiology | 166(2) 798–807 |
| 2014 | 10.1111/mec.12786 | Paula, F. S., J. L. Rodrigues, J. Zhou, L. Wu, R. C. Mueller, B. S. Mirza, B. J. Bohannan, K. Nusslein, Y. Deng, J. M. Tiedje and V. H. Pellizari | Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities | Molecular Ecology | 23(12) 2988–99 |
| 2014 | 10.1016/j.agee.2014.04.016 | Bennett, A. B. and R. Isaacs | Landscape composition influences pollinators and pollination services in perennial biofuel plantings | Agriculture, Ecosystems and Environment | 193 45299 |
| 2014 | 10.1038/ncomms5471 | Nagy, L. G., R. A. Ohm, G. M. Kovacs, D. Floudas, R. Riley, et al. | Latent homology and convergent regulatory evolution underlies the repeated emergence of yeasts | Nature Communications | 5 4471 |
| 2014 | 10.1093/jxb/eru022 | Barrera Zambrano, V. A., T. Lawson, E. Olmos, N. Fernandez-Garcia and A. M. Borland | Leaf anatomical traits which accommodate the facultative engagement of crassulacean acid metabolism in tropical trees of the genus Clusia | Journal of Experimental Botany | 65(13) 3513–23 |
| 2014 | 10.1186/s13068-014-0175-x | Gao, D., C. Haarmeyer, V. Balan, T. A. Whitehead, B. E. Dale and S. P. S. Chundawat | Lignin triggers irreversible cellulase loss during pretreated lignocellulosic biomass saccharification | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1186/1754-6834-7-2 | Fernández-Fueyo, E., F. J. Ruiz-Dueñas, M. J. Martínez, A. Romero, K. E. Hammel, F. J. Medrano and A. T. Martínez | Ligninolytic peroxidase genes in the oyster mushroom genome: Heterologous expression, molecular structure, catalytic and stability properties, and lignin-degrading ability | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1021/ac5020222 | Lanni, E. J., R. N. Masyuko, C. M. Driscoll, J. T. Aerts, J. D. Shrout, P. W. Bohn and J. V. Sweedler | MALDI-guided SIMS: multiscale imaging of metabolites in bacterial biofilms | Analytical Chemistry | 86(18) 9139–45 |
| 2014 | 10.1021/ic401992y | Zhou, J., D. Riccardi, A. Beste, J. C. Smith and J. M. Parks | Mercury methylation by HgcA: theory supports carbanion transfer to Hg(II) | Inorganic Chemistry | 53(2) 772–7 |
| 2014 | 10.1094/MPMI-12-13-0368-R | Karpinets, T. V., B. H. Park, M. H. Syed, M. G. Klotz and E. C. Uberbacher | Metabolic environments and genomic features associated with pathogenic and mutualistic interactions between bacteria and plants | Molecular Plant-Microbe Interactions | 27(7) 664–77 |
| 2014 | 10.1016/j.celrep.2014.03.070 | Harcombe, W. R., W. J. Riehl, I. Dukovski, B. R. Granger, A. Betts, A. H. Lang, G. Bonilla, A. Kar, N. Leiby, P. Mehta, C. J. Marx and D. Segre | Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics | Cell Reports | 7(4) 1104–15 |
| 2014 | 10.1093/nar/gkt1103 | Caspi, R., T. Altman, R. Billington, K. Dreher, H. Foerster, et al. | The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases | Nucleic Acids Research | 42(D1) D459-D471 |
| 2014 | 10.1128/genomeA.01217-14 | Chauhan, A., A. C. Layton, T. A. Vishnivetskaya, D. Williams, S. M. Pfiffner, B. Rekepalli, B. Stackhouse, M. C. Lau, T. J. Phelps, N. Mykytczuk, J. Ronholm, L. Whyte, T. C. Onstott and G. S. Sayler | Metagenomes from thawing low-soil-organic-carbon mineral cryosols and permafrost of the Canadian high arctic | Genome Announcements | 2(6) |
| 2014 | 10.1038/nature13798 | McCalley, C. K., B. J. Woodcroft, S. B. Hodgkins, R. A. Wehr, E. H. Kim, R. Mondav, P. M. Crill, J. P. Chanton, V. I. Rich, G. W. Tyson and S. R. Saleska | Methane dynamics regulated by microbial community response to permafrost thaw | Nature | 514(7523) 478–81 |
| 2014 | 10.1007/s10529-013-1378-0 | Noor-Mohammadi, S., A. Pourmir and T. W. Johannes | Method for assembling and expressing multiple genes in the nucleus of microalgae | Biotechnology Letters | 36(3) 561–6 |
| 2014 | 10.1371/journal.pone.0095109 | Sebastian, J., M. K. Wong, E. Tang and J. R. Dinneny | Methods to promote germination of dormant Setaria viridis seeds | PLoS One | 9(4) e95109 |
| 2014 | 10.1038/ismej.2013.146 | Yang, Y., Y. Gao, S. Wang, D. Xu, H. Yu, L. Wu, Q. Lin, Y. Hu, X. Li, Z. He, Y. Deng and J. Zhou | The microbial gene diversity along an elevation gradient of the Tibetan grassland | The ISME Journal | 8(2) 430–40 |
| 2014 | 10.1021/ac5014783 | Wang, Y., G. Kora, B. P. Bowen and C. Pan | MIDAS: a database-searching algorithm for metabolite identification in metabolomics | Analytical Chemistry | 86(19) 9496–503 |
| 2014 | 10.1002/jmr.2384 | Cashman, D. J., T. Zhu, R. F. Simmerman, C. Scott, B. D. Bruce and J. Baudry | Molecular interactions between photosystem I and ferredoxin: an integrated energy frustration and experimental model | Journal of Molecular Recognition | 27(10) 597–608 |
| 2014 | 10.1039/c4sm00066h | Pan, J., X. Cheng, L. Monticelli, F. A. Heberle, N. Kucerka, D. P. Tieleman and J. Katsaras | The molecular structure of a phosphatidylserine bilayer determined by scattering and molecular dynamics simulations | Soft Matter | 10(21) 3716–25 |
| 2014 | 10.1007/s10570-013-0162-6 | Pingali, S. V., H. M. O’Neill, Y. Nishiyama, L. He, Y. B. Melnichenko, V. Urban, L. Petridis, B. Davison and P. Langan | Morphological changes in the cellulose and lignin components of biomass occur at different stages during steam pretreatment | Cellulose | 21(2) 873–8 |
| 2014 | 10.1038/nnano.2014.12 | Welsher, K. and H. Yang | Multi-resolution 3D visualization of the early stages of cellular uptake of peptide-coated nanoparticles | Nature Nanotechnology | 9(3) 198–203 |
| 2014 | 10.1016/j.scitotenv.2014.01.099 | Zhang, X., R. Sahajpal, D. H. Manowitz, K. Zhao, S. D. LeDuc, M. Xu, W. Xiong, A. Zhang, R. C. Izaurralde, A. M. Thomson, T. O. West and W. M. Post | Multi-scale geospatial agroecosystem modeling: A case study on the influence of soil data resolution on carbon budget estimates | Science of the Total Environment | 479-480(1) 138-150 |
| 2014 | 10.1038/nature13761 | Gu, L., C. Li, J. Aach, D. E. Hill, M. Vidal and G. M. Church | Multiplex single-molecule interaction profiling of DNA-barcoded proteins | Nature | 515(7528) 554–7 |
| 2014 | 10.1088/0031-8949/89/10/108004 | Field, M. J. and T. W. Wymore | Multiscale modeling of nerve agent hydrolysis mechanisms: a tale of two Nobel Prizes | Physica Scripta | 89(10) |
| 2014 | 10.1093/nar/gku169 | Luo, C., L. M. Rodriguez-R. and K. T. Konstantinidis | MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences | Nucleic Acids Research | 42(8) e73 |
| 2014 | 10.1093/nar/gkt842 | Ling, J., R. Daoud, M. J. Lajoie, G. M. Church, D. Soll and B. F. Lang | Natural reassignment of CUU and CUA sense codons to alanine in Ashbya mitochondria | Nucleic Acids Research | 42(1) 499–508 |
| 2014 | 10.1038/srep04519 | Martin, J. A., N. V. Johnson, S. M. Gross, J. Schnable, X. Meng, M. Wang, D. Coleman-Derr, E. Lindquist, C. L. Wei, S. Kaeppler, F. Chen and Z. Wang | A near complete snapshot of the Zea mays seedling transcriptome revealed from ultra-deep sequencing | Scientific Reports | 4 |
| 2014 | 10.1093/nar/gkt1190 | Turkarslan, S., E. J. Wurtmann, W. J. Wu, N. Jiang, J. C. Bare, K. Foley, D. J. Reiss, P. Novichkov and N. S. Baliga | Network portal: A database for storage, analysis and visualization of biological networks | Nucleic Acids Research | 42(D1) D184-D190 |
| 2014 | 10.1039/c3ee42189a | Rotaru, A. E., P. M. Shrestha, F. H. Liu, M. Shrestha, D. Shrestha, M. Embree, K. Zengler, C. Wardman, K. P. Nevin and D. R. Lovley | A new model for electron flow during anaerobic digestion: direct interspecies electron transfer to Methanosaeta for the reduction of carbon dioxide to methane | Energy & Environmental Science | 7(1) 408–15 |
| 2014 | 10.3389/fpls.2014.00579 | Labbe, J. L., D. J. Weston, N. Dunkirk, D. A. Pelletier and G. A. Tuskan | Newly identified helper bacteria stimulate ectomycorrhizal formation in Populus | Frontiers in Plant Science | 5 579 |
| 2014 | 10.1038/ismej.2013.147 | Green-Saxena, A., A. E. Dekas, N. F. Dalleska and V. J. Orphan | Nitrate-based niche differentiation by distinct sulfate-reducing bacteria involved in the anaerobic oxidation of methane | The ISME Journal | 8(1) 150–63 |
| 2014 | 10.1074/jbc.M113.527515 | McKinlay, J. B., Y. Oda, M. Ruhl, A. L. Posto, U. Sauer and C. S. Harwood | Non-growing Rhodopseudomonas palustris increases the hydrogen gas yield from acetate by shifting from the glyoxylate shunt to the tricarboxylic acid cycle | Journal of Biological Chemistry | 289(4) 1960–70 |
| 2014 | 10.1093/bioinformatics/btt584 | Rodriguez, R. L. and K. T. Konstantinidis | Nonpareil: a redundancy-based approach to assess the level of coverage in metagenomic datasets | Bioinformatics | 30(5) 629–35 |
| 2014 | 10.1146/annurev-phyto-102313-045926 | Liu, W., J. Liu, L. Triplett, J. E. Leach and G. L. Wang | Novel insights into rice innate immunity against bacterial and fungal pathogens | Annual Review of Phytopathology | 52 213–41 |
| 2014 | 10.1016/j.biortech.2014.03.112 | Bhalla, A., K. M. Bischoff, N. Uppugundla, V. Balan and R. K. Sani | Novel thermostable endo-xylanase cloned and expressed from bacterium Geobacillus sp. WSUCF1 | Bioresource Technology | 165(C) 314-318 |
| 2014 | 10.1111/tpj.12601 | Evans, J., J. Kim, K. L. Childs, B. Vaillancourt, E. Crisovan, A. Nandety, D. J. Gerhardt, T. A. Richmond, J. A. Jeddeloh, S. M. Kaeppler, M. D. Casler and C. R. Buell | Nucleotide polymorphism and copy number variant detection using exome capture and next-generation sequencing in the polyploid grass Panicum virgatum | Plant Journal | 79(6) 993-1008 |
| 2014 | 10.1093/bioinformatics/btu150 | Latendresse, M., M. Krummenacker and P. D. Karp | Optimal metabolic route search based on atom mappings | Bioinformatics | 30(14) 2043–50 |
| 2014 | 10.1016/j.niox.2014.03.140 | Lopez-Garriga, J., T. Wymore, R. Pietri, E. M. Roman-Morales, B. Rios-Gonzalez and H. Arbelo | P90 Hydrogen sulfide activation by hemeproteins: Implications of the sulfheme scenario | Nitric Oxide | 39 |
| 2014 | 10.1016/j.ymben.2014.08.002 | Au, J., J. Choi, S. W. Jones, K. P. Venkataramanan and M. R. Antoniewicz | Parallel labeling experiments validate Clostridium acetobutylicum metabolic network model for 13C metabolic flux analysis | Metabolic Engineering | 26 23–33 |
| 2014 | 10.1128/EC.00013-14 | Goodenough, U., I. Blaby, D. Casero, S. D. Gallaher, C. Goodson, et al. | The path to triacylglyceride obesity in the sta6 strain of Chlamydomonas reinhardtii | Eukaryotic Cell | 13(5) 591–613 |
| 2014 | 10.1371/journal.pone.0095842 | Mayali, X., P. K. Weber, S. Mabery and J. Pett-Ridge | Phylogenetic patterns in the microbial response to resource availability: amino acid incorporation in San Francisco Bay | PLoS One | 9(4) e95842 |
| 2014 | 10.1111/pce.12164 | Jardine, K., F. Wegener, L. Abrell, J. van Haren and C. Werner | Phytogenic biosynthesis and emission of methyl acetate | Plant Cell & Environment | 37(2) 414–24 |
| 2014 | 10.1111/mec.12821 | Bonito, G., H. Reynolds, M. S. Robeson, 2nd, J. Nelson, B. P. Hodkinson, G. Tuskan, C. W. Schadt and R. Vilgalys | Plant host and soil origin influence fungal and bacterial assemblages in the roots of woody plants | Molecular Ecology | 23(13) 3356–70 |
| 2014 | 10.1093/pcp/pct197 | Kim, S. J. and F. Brandizzi | The plant secretory pathway: An essential factory for building the plant cell wall | Plant and Cell Physiology | 55(4) 687-693 |
| 2014 | 10.1007/s10658-013-0317-1 | Alexander, H. M., K. E. Mauck, A. E. Whitfield, K. A. Garrett and C. M. Malmstrom | Plant-virus interactions and the agro-ecological interface | European Journal of Plant Pathology | 138(3) 529-547 |
| 2014 | 10.1093/nar/gkt1094 | Lan, Y., J. C. Morrison, R. Hershberg and G. L. Rosen | POGO-DB—a database of pairwise-comparisons of genomes and conserved orthologous genes | Nucleic Acids Research | 42(Database issue) D625–32 |
| 2014 | 10.1080/08927022.2014.899699 | Ellingson, S. R., J. C. Smith and J. Baudry | Polypharmacology and Supercomputer-Based Docking: Opportunities and Challenges | Molecular Simulation | 40(10–11) 848–54 |
| 2014 | 10.1111/mec.12907 | Huang, P., M. Feldman, S. Schroder, B. A. Bahri, X. Diao, H. Zhi, M. Estep, I. Baxter, K. M. Devos and E. A. Kellogg | Population genetics of Setaria viridis, a new model system | Molecular Ecology | 23(20) 4912-4925 |
| 2014 | 10.2136/sssaj2013.07.0287dgs | Myrold, D. D., L. H. Zeglin and J. K. Jansson | The Potential of Metagenomic Approaches for Understanding Soil Microbial Processes | Soil Science Society of America Journal | 78(1) 3–10 |
| 2014 | 10.1038/nprot.2014.081 | Ma, N. J., D. W. Moonan and F. J. Isaacs | Precise manipulation of bacterial chromosomes by conjugative assembly genome engineering | Nature Protocols | 9(10) 2285–300 |
| 2014 | 10.1016/j.compchemeng.2015.04.007 | Han, J., S. Murat Sen, J. S. Luterbacher, D. M. Alonso, J. A. Dumesic and C. T. Maravelias | Process systems engineering studies for the synthesis of catalytic biomass-to-fuels strategies | Computers and Chemical Engineering | 81 57-69 |
| 2014 | 10.1016/j.ejbt.2013.12.003 | Kightlinger, W., K. Chen, A. Pourmir, D. W. Crunkleton, G. L. Price and T. W. Johannes | Production and characterization of algae extract from Chlamydomonas reinhardtii | Electronic Journal of Biotechnology | 17(1) |
| 2014 | 10.1007/s12155-013-9364-x | Yang, Z. Y., Z. X. Shen, H. Tetreault, L. Johnson, B. Friebe, T. Frazier, L. K. Huang, C. Burklew, X. Q. Zhang and B. Y. Zhao | Production of Autopolyploid Lowland Switchgrass Lines Through In Vitro Chromosome Doubling | BioEnergy Research | 7(1) 232–42 |
| 2014 | 10.1073/pnas.1413456111 | Sawaya, M. R., D. Cascio, M. Gingery, J. Rodriguez, L. Goldschmidt, et al. | Protein crystal structure obtained at 2.9 Å resolution from injecting bacterial cells into an X-ray free-electron laser beam | Proceedings of the National Academy of Sciences of the United States of America | 111(35) 12769-12774 |
| 2014 | 10.1016/j.biombioe.2014.03.032 | Kelkar, S., Z. Li, J. Bovee, K. D. Thelen, R. M. Kriegel and C. M. Saffron | Pyrolysis of North-American grass species: Effect of feedstock composition and taxonomy on pyrolysis products | Biomass and Bioenergy | 64 152-161 |
| 2014 | 10.1186/1944-3277-9-20 | Land, M. L., D. Hyatt, S. R. Jun, G. H. Kora, L. J. Hauser, O. Lukjancenko and D. W. Ussery | Quality scores for 32,000 genomes | Standards in Genomic Sciences | 9 20 |
| 2014 | 10.1021/ci400640v | Yue, Y. and H. Guo | Quantum mechanical/molecular mechanical study of catalytic mechanism and role of key residues in methylation reactions catalyzed by dimethylxanthine methyltransferase in caffeine biosynthesis | Journal of Chemical Information and Modeling | 54(2) 593–600 |
| 2014 | 10.1038/nprot.2014.082 | Gallagher, R. R., Z. Li, A. O. Lewis and F. J. Isaacs | Rapid editing and evolution of bacterial genomes using libraries of synthetic DNA | Nature Protocols | 9(10) 2301–16 |
| 2014 | 10.1093/nar/gkt1374 | Gregg, C. J., M. J. Lajoie, M. G. Napolitano, J. A. Mosberg, D. B. Goodman, J. Aach, F. J. Isaacs and G. M. Church | Rational optimization of tolC as a powerful dual selectable marker for genome engineering | Nucleic Acids Research | 42(7) 4779–90 |
| 2014 | 10.1186/s12918-014-0110-6 | Liu, J. K., E. J. O'Brien, J. A. Lerman, K. Zengler, B. O. Palsson and A. M. Feist | Reconstruction and modeling protein translocation and compartmentalization in Escherichia coli at the genome-scale | BMC Systems Biology | 8(1) |
| 2014 | 10.1186/1753-6561-8-S6-S5 | Qi, Q., J. Li and J. Cheng | Reconstruction of metabolic pathways by combining probabilistic graphical model-based and knowledge-based methods | BMC Proceedings | 8 |
| 2014 | 10.1016/j.copbio.2014.02.009 | Kim, J. and J. L. Reed | Refining metabolic models and accounting for regulatory effects | Current Opinion in Biotechnology | 29(1) 34-38 |
| 2014 | 10.1073/pnas.1408048111 | Mack, D. G., M. T. Falta, A. S. McKee, A. K. Martin, P. L. Simonian, F. Crawford, T. Gordon, R. R. Mercer, M. D. Hoover, P. Marrack, J. W. Kappler, R. M. Tuder and A. P. Fontenot | Regulatory T cells modulate granulomatous inflammation in an HLA-DP2 transgenic murine model of beryllium-induced disease | Proceedings of the National Academy of Sciences of the United States of America | 111(23) 8553–8 |
| 2014 | 10.1021/jp502889c | Mostofian, B., X. Cheng and J. C. Smith | Replica-exchange molecular dynamics simulations of cellulose solvated in water and in the ionic liquid 1-butyl-3-methylimidazolium chloride | Journal of Physical Chemistry B | 118(38) 11037–49 |
| 2014 | 10.1128/mBio.01105-14 | Lennon, C. W., K. C. Lemmer, J. L. Irons, M. I. Sellman, T. J. Donohue, R. L. Gourse and W. Ross | A Rhodobacter sphaeroides protein mechanistically similar to Escherichia coli DksA regulates photosynthetic growth | mBio | 5(3) |
| 2014 | 10.1093/nar/gkt1244 | Cole, J. R., Q. Wang, J. A. Fish, B. Chai, D. M. McGarrell, Y. Sun, C. T. Brown, A. Porras-Alfaro, C. R. Kuske and J. M. Tiedje | Ribosomal Database Project: data and tools for high throughput rRNA analysis | Nucleic Acids Research | 42(D1) D633–42 |
| 2014 | 10.1016/j.bpj.2014.10.065 | Erler, J., R. Zhang, L. Petridis, X. Cheng, J. C. Smith and J. Langowski | The role of histone tails in the nucleosome: a computational study | Biophysical Journal | 107(12) 2911–22 |
| 2014 | 10.1103/PhysRevA.89.052305 | Caravan, B., B. A. Friedman and G. C. Levine | Scaling of entanglement entropy in point-contact, free-fermion systems | Physical Review A | 89(5) |
| 2014 | 10.2134/jeq2014.02.0077 | Osterholz, W. R., C. J. Kucharik, J. L. Hedtcke and J. L. Posner | Seasonal nitrous oxide and methane fluxes from grain- and forage-based production systems in Wisconsin, USA | Journal of Environmental Quality | 43(6) 1833-1843 |
| 2014 | 10.1111/fwb.12433 | Kapuscinski, K. L., J. M. Farrell, S. V. Stehman, G. L. Boyer, D. D. Fernando, M. A. Teece and T. J. Tschaplinski | Selective herbivory by an invasive cyprinid, the rudd Scardinius erythrophthalmus | Freshwater Biology | 59(11) 2315–27 |
| 2014 | 10.1038/nature13560 | Anthony, K. M., S. A. Zimov, G. Grosse, M. C. Jones, P. M. Anthony, F. S. Chapin, 3rd, J. C. Finlay, M. C. Mack, S. Davydov, P. Frenzel and S. Frolking | A shift of thermokarst lakes from carbon sources to sinks during the Holocene epoch | Nature | 511(7510) 452–6 |
| 2014 | 10.1109/JSTQE.2014.2341568 | Michalet, X., A. Ingargiola, R. A. Colyer, G. Scalia, S. Weiss, P. Maccagnani, A. Gulinatti, I. Rech and M. Ghioni | Silicon photon-counting avalanche diodes for single-molecule fluorescence spectroscopy | IEEE Journal on Selected Topics in Quantum Electronics | 20(6) |
| 2014 | 10.1038/ismej.2013.187 | Embree, M., H. Nagarajan, N. Movahedi, H. Chitsaz and K. Zengler | Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community | The ISME Journal | 8(4) 757–67 |
| 2014 | 10.1128/AEM.03712-13 | Luo, C., R. L. Rodriguez, E. R. Johnston, L. Wu, L. Cheng, et al. | Soil microbial community responses to a decade of warming as revealed by comparative metagenomics | Applied and Environmental Microbiology | 80(5) 1777–86 |
| 2014 | 10.1021/jp503956m | Moritsugu, K., A. Kidera and J. C. Smith | Solvent friction effects propagate over the entire protein molecule through low-frequency collective modes | Journal of Physical Chemistry B | 118(29) 8559–65 |
| 2014 | 10.1093/nar/gkt905 | Joshi, T., M. R. Fitzpatrick, S. Chen, Y. Liu, H. Zhang, R. Z. Endacott, E. C. Gaudiello, G. Stacey, H. T. Nguyen and D. Xu | Soybean knowledge base (SoyKB): a web resource for integration of soybean translational genomics and molecular breeding | Nucleic Acids Research | 42(D1) D1245–52 |
| 2014 | 10.1111/1462-2920.12247 | Dekas, A. E., G. L. Chadwick, M. W. Bowles, S. B. Joye and V. J. Orphan | Spatial distribution of nitrogen fixation in methane seep sediment and the role of the ANME archaea | Environmental Microbiology | 16(10) 3012–29 |
| 2014 | 10.1039/c4an00435c | Masyuko, R. N., E. J. Lanni, C. M. Driscoll, J. D. Shrout, J. V. Sweedler and P. W. Bohn | Spatial organization of Pseudomonas aeruginosa biofilms probed by combined matrix-assisted laser desorption ionization mass spectrometry and confocal Raman microscopy | Analyst | 139(22) 5700–8 |
| 2014 | 10.1073/pnas.1324044111 | Zhou, J., Y. Deng, P. Zhang, K. Xue, Y. Liang, J. D. Van Nostrand, Y. Yang, Z. He, L. Wu, D. A. Stahl, T. C. Hazen, J. M. Tiedje and A. P. Arkin | Stochasticity, succession, and environmental perturbations in a fluidic ecosystem | Proceedings of the National Academy of Sciences of the United States of America | 111(9) E836–45 |
| 2014 | 10.1093/nar/gku138 | Tu, Q., Z. He and J. Zhou | Strain/species identification in metagenomes using genome-specific markers | Nucleic Acids Research | 42(8) e67 |
| 2014 | 10.1371/journal.pone.0093827 | Poretsky, R., L. M. Rodriguez-R., C. Luo, D. Tsementzi and K. T. Konstantinidis | Strengths and limitations of 16S rRNA gene amplicon sequencing in revealing temporal microbial community dynamics | PLoS One | 9(4) e93827 |
| 2014 | 10.1021/pr400925t | Li, Z., O. Czarnecki, K. Chourey, J. Yang, G. A. Tuskan, G. B. Hurst, C. Pan and J. G. Chen | Strigolactone-regulated proteins revealed by iTRAQ-based quantitative proteomics in Arabidopsis | Journal of Proteome Research | 13(3) 1359–72 |
| 2014 | 10.1016/j.bpj.2014.06.013 | Hong, L., M. A. Sharp, S. Poblete, R. Biehl, M. Zamponi, et al. | Structure and dynamics of a compact state of a multidomain protein, the mercuric ion reductase | Biophysical Journal | 107(2) 393–400 |
| 2014 | 10.1186/1754-6834-7-73 | Sarks, C., M. Jin, T. K. Sato, V. Balan and B. E. Dale | Studying the rapid bioconversion of lignocellulosic sugars into ethanol using high cell density fermentations with cell recycle | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1038/nchembio.1662 | Hong-Hermesdorf, A., M. Miethke, S. D. Gallaher, J. Kropat, S. C. Dodani, et al. | Subcellular metal imaging identifies dynamic sites of Cu accumulation in Chlamydomonas | Nature Chemical Biology | 10(12) 1034–42 |
| 2014 | 10.1002/biot.201300477 | You, L., B. Berla, L. He, H. B. Pakrasi and Y. J. Tang | 13C-MFA delineates the photomixotrophic metabolism of Synechocystis sp. PCC 6803 under light- and carbon-sufficient conditions | Biotechnology Journal | 9(5) 684–92 |
| 2014 | 10.1111/1462-2920.12488 | Justice, N. B., Z. Li, Y. Wang, S. E. Spaudling, A. C. Mosier, R. L. Hettich, C. Pan and J. F. Banfield | 15N- and 2H proteomic stable isotope probing links nitrogen flow to archaeal heterotrophic activity | Environmental Microbiology | 16(10) 3224–37 |
| 2014 | 10.1016/j.ijhydene.2014.09.090 | Masukawa, H., H. Sakurai, R. P. Hausinger and K. Inoue | Sustained photobiological hydrogen production in the presence of N2 by nitrogenase mutants of the heterocyst-forming cyanobacterium Anabaena | International Journal of Hydrogen Energy | 39(34) 19444-19451 |
| 2014 | 10.1038/ncomms5113 | Opgenorth, P. H., T. P. Korman and J. U. Bowie | A synthetic biochemistry molecular purge valve module that maintains redox balance | Nature Communications | 5 |
| 2014 | 10.1093/jxb/eru038 | DePaoli, H. C., A. M. Borland, G. A. Tuskan, J. C. Cushman and X. Yang | Synthetic biology as it relates to CAM photosynthesis: challenges and opportunities | Journal of Experimental Botany | 65(13) 3381–93 |
| 2014 | 10.1073/pnas.1405641111 | Mee, M. T., J. J. Collins, G. M. Church and H. H. Wang | Syntrophic exchange in synthetic microbial communities | Proceedings of the National Academy of Sciences of the United States of America | 111(20) E2149–56 |
| 2014 | 10.15252/msb.20145160 | Brooks, A. N., D. J. Reiss, A. Allard, W. J. Wu, D. M. Salvanha, C. L. Plaisier, S. Chandrasekaran, M. Pan, A. Kaur and N. S. Baliga | A system-level model for the microbial regulatory genome | Molecular Systems Biology | 10(7) 740 |
| 2014 | 10.1371/journal.pcbi.1003837 | Nam, H., M. Campodonico, A. Bordbar, D. R. Hyduke, S. Kim, D. C. Zielinski and B. O. Palsson | A systems approach to predict oncometabolites via context-specific genome-scale metabolic networks | PLoS Computational Biology | 10(9) e1003837 |
| 2014 | 10.1039/c4gc01160k | Luterbacher, J. S., D. Martin Alonso and J. A. Dumesic | Targeted chemical upgrading of lignocellulosic biomass to platform molecules | Green Chemistry | 16(12) 4816-4838 |
| 2014 | 10.1007/s10570-014-0181-y | Diehl, B. G., H. D. Watts, J. D. Kubicki, M. R. Regner, J. Ralph and N. R. Brown | Towards lignin-protein crosslinking: Amino acid adducts of a lignin model quinone methide | Cellulose | 21(3) 1395-1407 |
| 2014 | 10.1016/j.plantsci.2014.04.004 | Newhouse, A. E., L. D. Polin-McGuigan, K. A. Baier, K. E. Valletta, W. H. Rottmann, T. J. Tschaplinski, C. A. Maynard and W. A. Powell | Transgenic American chestnuts show enhanced blight resistance and transmit the trait to T1 progeny | Plant Science | 228 88–97 |
| 2014 | 10.1093/jxb/ert416 | Braun, D. M., L. Wang and Y. L. Ruan | Understanding and manipulating sucrose phloem loading, unloading, metabolism, and signalling to enhance crop yield and food security | Journal of Experimental Botany | 65(7) 1713–35 |
| 2014 | 10.1021/ez500107r | Lin, H., R. A. Hurt, A. Johs, J. M. Parks, J. L. Morrell-Falvey, L. Liang, D. A. Elias and B. Gu | Unexpected Effects of Gene Deletion on Interactions of Mercury with the Methylation-Deficient Mutant ΔhgcAB | Environmental Science & Technology Letters | 1(5) 271–6 |
| 2014 | 10.1111/tpj.12642 | Berim, A., J. J. Park and D. R. Gang | Unexpected roles for ancient proteins: flavone 8-hydroxylase in sweet basil trichomes is a Rieske-type, PAO-family oxygenase | The Plant Journal | 80(3) 385–95 |
| 2014 | 10.1186/1471-2164-15-1066 | Christopherson, M. R., J. A. Dawson, D. M. Stevenson, A. C. Cunningham, S. Bramhacharya, P. J. Weimer, C. Kendziorski and G. Suen | Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis | BMC Genomics | 15(1) 1066 |
| 2014 | 10.3389/fpls.2014.00732 | Brunner, A. M., L. M. Evans, C. Y. Hsu and X. Sheng | Vernalization and the chilling requirement to exit bud dormancy: shared or separate regulation? | Frontiers in Plant Science | 5 732 |
| 2014 | 10.1021/bi500608u | Lian, P., H. B. Guo, D. Riccardi, A. Dong, J. M. Parks, Q. Xu, E. F. Pai, S. M. Miller, D. Q. Wei, J. C. Smith and H. Guo | X-ray structure of a Hg2+ complex of mercuric reductase (MerA) and quantum mechanical/molecular mechanical study of Hg2+ transfer between the C-terminal and buried catalytic site cysteine pairs | Biochemistry | 53(46) 7211–22 |
| 2013 | 10.1038/nmeth.2596 | Martin, M. C., C. Dabat-Blondeau, M. Unger, J. Sedlmair, D. Y. Parkinson, H. A. Bechtel, B. Illman, J. M. Castro, M. Keiluweit, D. Buschke, B. Ogle, M. J. Nasse and C. J. Hirschmugl | 3D spectral imaging with synchrotron Fourier transform infrared spectro-microtomography | Nature Methods | 10(9) 861–4 |
| 2013 | 10.1021/jp406266u | Devarajan, A., S. Markutsya, M. H. Lamm, X. Cheng, J. C. Smith, J. Y. Baluyut, Y. Kholod, M. S. Gordon and T. L. Windus | Ab initio study of molecular interactions in cellulose Iα | Journal of Physical Chemistry B | 117(36) 10430–43 |
| 2013 | 10.1038/srep01030 | Takasuka, T. E., A. J. Book, G. R. Lewin, C. R. Currie and B. G. Fox | Aerobic deconstruction of cellulosic biomass by an insect-associated Streptomyces | Scientific Reports | 3 |
| 2013 | 10.1007/s12155-013-9335-2 | Hoagland, K. C., M. D. Ruark, M. J. Renz and R. D. Jackson | Agricultural management of switchgrass for fuel quality and thermal energy yield on highly erodible land in the driftless area of Southwest Wisconsin | Bioenergy Research | 6(3) 1012-1021 |
| 2013 | 10.1890/12-2018.1 | Zeglin, L. H., P. J. Bottomley, A. Jumpponen, C. W. Rice, M. Arango, A. Lindsley, A. McGowan, P. Mfombep and D. D. Myrold | Altered precipitation regime affects the function and composition of soil microbial communities on multiple time scales | Ecology | 94(10) 2334–45 |
| 2013 | 10.1038/ncomms3833 | Yoo, H., J. R. Widhalm, Y. Qian, H. Maeda, B. R. Cooper, A. S. Jannasch, I. Gonda, E. Lewinsohn, D. Rhodes and N. Dudareva | An alternative pathway contributes to phenylalanine biosynthesis in plants via a cytosolic tyrosine:phenylpyruvate aminotransferase | Nature Communications | 4 2833 |
| 2013 | 10.4161/psb.27325 | Zhao, C. and E. Beers | Alternative splicing of Myb-related genes MYR1 and MYR2 may modulate activities through changes in dimerization, localization, or protein folding | Plant Signaling & Behavior | 8(11) e27325 |
| 2013 | 10.1038/ismej.2012.150 | Burow, L. C., D. Woebken, I. P. Marshall, E. A. Lindquist, B. M. Bebout, L. Prufert-Bebout, T. M. Hoehler, S. G. Tringe, J. Pett-Ridge, P. K. Weber, A. M. Spormann and S. W. Singer | Anoxic carbon flux in photosynthetic microbial mats as revealed by metatranscriptomics | The ISME Journal | 7(4) 817–29 |
| 2013 | 10.1016/B978-0-12-394430-6.00017-0 | Wang, H. H., M. T. Mee and G. M. Church | Applications of Engineered Synthetic Ecosystems | Synthetic Biology | 317-325 |
| 2013 | 10.1111/1462-2920.12081 | Nuccio, E. E., A. Hodge, J. Pett-Ridge, D. J. Herman, P. K. Weber and M. K. Firestone | An arbuscular mycorrhizal fungus significantly modifies the soil bacterial community and nitrogen cycling during litter decomposition | Environmental Microbiology | 15(6) 1870–81 |
| 2013 | 10.1186/1754-1611-7-30 | Karas, B. J., B. Molparia, J. Jablanovic, W. J. Hermann, Y. C. Lin, et al. | Assembly of eukaryotic algal chromosomes in yeast | Journal of Biological Engineering | 7(1) 30 |
| 2013 | 10.1016/j.febslet.2013.07.032 | Reznik, E., O. Chaudhary and D. Segrè | The average enzyme principle | FEBS Letters | 587(17) 2891-2894 |
| 2013 | 10.4155/bfs.13.44 | Brumm, P. J. | Bacterial genomes: What they teach us about cellulose degradation | Biofuels | 4(6) 669-681 |
| 2013 | 10.1371/journal.pgen.1003839 | Park, D. M., M. S. Akhtar, A. Z. Ansari, R. Landick and P. J. Kiley | The Bacterial Response Regulator ArcA Uses a Diverse Binding Site Architecture to Regulate Carbon Oxidation Globally | PLoS Genetics | 9(10) |
| 2013 | 10.1128/JB.00634-13 | Gall, D. L., J. Ralph, T. J. Donohue and D. R. Noguera | Benzoyl coenzyme a pathway-mediated metabolism of meta-hydroxy-aromatic acids in Rhodopseudomonas palustris | Journal of Bacteriology | 195(18) 4112–20 |
| 2013 | 10.3389/fpls.2013.00218 | Tanger, P., J. L. Field, C. E. Jahn, M. W. Defoort and J. E. Leach | Biomass for thermochemical conversion: targets and challenges | Frontiers in Plant Science | 4 218 |
| 2013 | 10.1109/Tkde.2012.132 | Chen, C. Q., A. Watve, S. Pramanik and Q. Zhu | The BoND-Tree: An Efficient Indexing Method for Box Queries in Nonordered Discrete Data Spaces | IEEE Transactions on Knowledge and Data Engineering | 25(11) 2629–43 |
| 2013 | 10.1007/s10841-012-9523-y | Meehan, T. D., J. Glassberg and C. Gratton | Butterfly community structure and landscape composition in agricultural landscapes of the central United States | Journal of Insect Conservation | 17(2) 411-419 |
| 2013 | 10.1007/978-3-642-27494-7_3 | Cantrell, J. H. and S. A. Cantrell | Cantilever Dynamics: Theoretical Modeling | Acoustic Scanning Probe Microscopy | 47–100 |
| 2013 | 10.1186/1471-2164-14-663 | Patyshakuliyeva, A., E. Jurak, A. Kohler, A. Baker, E. Battaglia, et al. | Carbohydrate utilization and metabolism is highly differentiated in Agaricus bisporus | BMC Genomics | 14 663 |
| 2013 | 10.1038/nmeth.2649 | Mali, P., K. M. Esvelt and G. M. Church | Cas9 as a versatile tool for engineering biology | Nature Methods | 10(10) 957–63 |
| 2013 | 10.1038/nbt.2675 | Mali, P., J. Aach, P. B. Stranges, K. M. Esvelt, M. Moosburner, S. Kosuri, L. Yang and G. M. Church | CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering | Nature Biotechnology | 31(9) 833–8 |
| 2013 | 10.1007/s10570-013-0011-7 | Lian, P., H.-B. Guo, J. C. Smith, D.-Q. Wei and H. Guo | Catalytic mechanism and origin of high activity of cellulase TmCel12A at high temperature: a quantum mechanical/molecular mechanical study | Cellulose | 21(2) 937–49 |
| 2013 | 10.1126/science.1241934 | Goodman, D. B., G. M. Church and S. Kosuri | Causes and effects of N-terminal codon bias in bacterial genes | Science | 342(6157) 475–9 |
| 2013 | 10.1371/journal.pone.0080640 | Matos, D. A., I. P. Whitney, M. J. Harrington and S. P. Hazen | Cell walls and the developmental anatomy of the Brachypodium distachyon stem internode | PLoS One | 8(11) e80640 |
| 2013 | 10.1186/1471-2164-14-759 | Park, J. J., S. Lechno-Yossef, C. P. Wolk and C. Vieille | Cell-specific gene expression in Anabaena variabilis grown phototrophically, mixotrophically, and heterotrophically | BMC Genomics | 14(1) |
| 2013 | 10.1021/ie302478d | Smith, J. D., A. A. Neto, S. Cremaschi and D. W. Crunkleton | CFD-Based Optimization of a Flooded Bed Algae Bioreactor | Industrial & Engineering Chemistry Research | 52(22) 7181–8 |
| 2013 | 10.1111/1574-6968.12194 | Caspi, R., K. Dreher and P. D. Karp | The challenge of constructing, classifying, and representing metabolic pathways | FEMS Microbiology Letters | 345(2) 85–93 |
| 2013 | 10.1038/ncomms3809 | Nagarajan, H., M. Embree, A. E. Rotaru, P. M. Shrestha, A. M. Feist, B. O. Palsson, D. R. Lovley and K. Zengler | Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association | Nature Communications | 4 2809 |
| 2013 | 10.1016/j.phytochem.2013.05.001 | Berim, A. and D. R. Gang | Characterization of two candidate flavone 8-O-methyltransferases suggests the existence of two potential routes to nevadensin in sweet basil | Phytochemistry | 92 33–41 |
| 2013 | 10.1186/1475-2859-12-118 | Nagarajan, H., M. Sahin, J. Nogales, H. Latif, D. R. Lovley, A. Ebrahim and K. Zengler | Characterizing acetogenic metabolism using a genome-scale metabolic reconstruction of Clostridium ljungdahlii | Microbial Cell Factories | 12 118 |
| 2013 | 10.1038/ncomms2743 | Qiu, Y., H. Nagarajan, M. Embree, W. Shieu, E. Abate, K. Juarez, B. K. Cho, J. G. Elkins, K. P. Nevin, C. L. Barrett, D. R. Lovley, B. O. Palsson and K. Zengler | Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks | Nature Communications | 4 1755 |
| 2013 | 10.1016/j.cbpa.2013.03.039 | Rothamer, D. A. and T. J. Donohue | Chemistry and combustion of fit-for-purpose biofuels | Current Opinion in Chemical Biology | 17(3) 522-528 |
| 2013 | 10.4324/9780203066317 | Ackerman, F. and E. A. Stanton | Climate economics: The state of the art | ||
| 2013 | 10.1021/ct300296k | Riccardi, D., H. B. Guo, J. M. Parks, B. Gu, L. Liang and J. C. Smith | Cluster-Continuum Calculations of Hydration Free Energies of Anions and Group 12 Divalent Cations | Journal of Chemical Theory and Computation | 9(1) 555–69 |
| 2013 | 10.1016/j.ibiod.2013.04.006 | Schilling, J. S., S. M. Duncan, G. N. Presley, T. R. Filley, J. A. Jurgens and R. A. Blanchette | Colocalizing incipient reactions in wood degraded by the brown rot fungus Postia placenta | International Biodeterioration & Biodegradation | 83 56–62 |
| 2013 | 10.1186/1471-2164-14-597 | Sun, E. I., S. A. Leyn, M. D. Kazanov, M. H. Saier, P. S. Novichkov and D. A. Rodionov | Comparative genomics of metabolic capacities of regulons controlled by cis-regulatory RNA motifs in bacteria | BMC Genomics | 14(1) |
| 2013 | 10.1111/1462-2920.12086 | Shakya, M., C. Quince, J. H. Campbell, Z. K. Yang, C. W. Schadt and M. Podar | Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities | Environmental Microbiology | 15(6) 1882–99 |
| 2013 | 10.1016/j.str.2013.02.008 | Miallau, L., P. Jain, M. A. Arbing, D. Cascio, T. Phan, C. J. Ahn, S. Chan, I. Chernishof, M. Maxson, J. Chiang, W. R. Jacobs Jr and D. S. Eisenberg | Comparative proteomics identifies the cell-associated lethality of M. tuberculosis RelBE-like toxin-antitoxin complexes | Structure | 21(4) 627-637 |
| 2013 | 10.2136/sssaj2013.01.0023 | Duran, B. E. L. and C. J. Kucharik | Comparison of two chamber methods for measuring soil trace-gas fluxes in bioenergy cropping systems | Soil Science Society of America Journal | 77(5) 1601-1612 |
| 2013 | 10.1128/genomeA.00238-12 | Aylward, F. O., D. M. Tremmel, D. C. Bruce, P. Chain, A. Chen, et al. | Complete genome of Enterobacteriaceae bacterium strain FGI 57, a strain associated with leaf-cutter ant fungus gardens | Genome Announcements | 1(1) |
| 2013 | 10.1128/genomeA.00239-12 | Aylward, F. O., D. M. Tremmel, G. J. Starrett, D. C. Bruce, P. Chain, et al. | Complete genome of Serratia sp. strain FGI 94, a strain associated with leaf-cutter ant fungus gardens | Genome Announcements | 1(2) |
| 2013 | 10.1073/pnas.1301301110 | Kosuri, S., D. B. Goodman, G. Cambray, V. K. Mutalik, Y. Gao, A. P. Arkin, D. Endy and G. M. Church | Composability of regulatory sequences controlling transcription and translation in Escherichia coli | Proceedings of the National Academy of Sciences of the United States of America | 110(34) 14024–9 |
| 2013 | 10.1016/j.chroma.2013.08.059 | Yang, S., J. C. Hoggard, M. E. Lidstrom and R. E. Synovec | Comprehensive discovery of 13C labeled metabolites in the bacterium Methylobacterium extorquens AM1 using gas chromatography-mass spectrometry | Journal of Chromatography A | 1317 175–85 |
| 2013 | 10.1002/biot.201200315 | Vu, T. T., E. A. Hill, L. A. Kucek, A. E. Konopka, A. S. Beliaev and J. L. Reed | Computational evaluation of Synechococcus sp. PCC 7002 metabolism for chemical production | Biotechnology Journal | 8(5) 619–30 |
| 2013 | 10.1371/journal.pone.0064929 | Wang, J., L. Chen, Y. Wang, J. Zhang, Y. Liang and D. Xu | A computational systems biology study for understanding salt tolerance mechanism in rice | PLoS One | 8(6) e64929 |
| 2013 | 10.1371/journal.pcbi.1003337 | Ortega, D. R., G. Mo, K. Lee, H. Zhou, J. Baudry, F. W. Dahlquist and I. B. Zhulin | Conformational coupling between receptor and kinase binding sites through a conserved salt bridge in a signaling complex scaffold protein | PLoS Computational Biology | 9(11) e1003337 |
| 2013 | 10.1111/gcb.12273 | Li, D., X. Zhou, L. Wu, J. Zhou and Y. Luo | Contrasting responses of heterotrophic and autotrophic respiration to experimental warming in a winter annual-dominated prairie | Global Change Biology | 19(11) 3553–64 |
| 2013 | 10.1017/S1431927613013482 | Carpenter, K. J., P. K. Weber, M. L. Davisson, J. Pett-Ridge, M. I. Haverty and P. J. Keeling | Correlated SEM, FIB-SEM, TEM, and NanoSIMS imaging of microbes from the hindgut of a lower termite: methods for in situ functional and ecological studies of uncultivable microbes | Microscopy and Microanalysis | 19(6) 1490–501 |
| 2013 | 10.1186/1471-2164-14-864 | Barling, A., K. Swaminathan, T. Mitros, B. T. James, J. Morris, O. Ngamboma, M. C. Hall, J. Kirkpatrick, M. Alabady, A. K. Spence, M. E. Hudson, D. S. Rokhsar and S. P. Moose | A detailed gene expression study of the Miscanthus genus reveals changes in the transcriptome associated with the rejuvenation of spring rhizomes | BMC Genomics | 14(1) 864 |
| 2013 | 10.1016/j.soilbio.2013.07.008 | Li, D. J., C. Schaedel, M. L. Haddix, E. A. Paul, R. Conant, J. W. Li, J. Z. Zhou and Y. Q. Luo | Differential responses of soil organic carbon fractions to warming: Results from an analysis with data assimilation | Soil Biology and Biochemistry | 67 24–30 |
| 2013 | 10.1016/j.febslet.2013.02.021 | Tjellström, H., M. Strawsine, J. Silva, E. B. Cahoon and J. B. Ohlrogge | Disruption of plastid acyl:acyl carrier protein synthetases increases medium chain fatty acid accumulation in seeds of transgenic Arabidopsis | FEBS Letters | 587(7) 936-942 |
| 2013 | 10.1128/genomeA.00030-12 | Rusch, D. B., M. J. Lombardo, J. Yee-Greenbaum, M. Novotny, L. M. Brinkac, R. S. Lasken and C. L. Dupont | Draft genome sequence of a single cell of SAR86 clade subgroup IIIa | Genome Announcements | 1(1) |
| 2013 | 10.1128/genomeA.00527-13 | Everroad, R. C., D. Woebken, S. W. Singer, L. C. Burow, N. Kyrpides, T. Woyke, L. Goodwin, A. Detweiler, L. Prufert-Bebout and J. Pett-Ridge | Draft Genome Sequence of an Oscillatorian Cyanobacterium, Strain ESFC-1 | Genome Announcements | 1(4) |
| 2013 | 10.3390/ijms14047681 | Czarnecki, O., J. Yang, D. J. Weston, G. A. Tuskan and J. G. Chen | A dual role of strigolactones in phosphate acquisition and utilization in plants | International Journal of Molecular Sciences | 14(4) 7681–701 |
| 2013 | 10.1016/j.ymben.2013.04.006 | Chen, X., A. P. Alonso and Y. Shachar-Hill | Dynamic metabolic flux analysis of plant cell wall synthesis | Metabolic Engineering | 18 78-85 |
| 2013 | 10.1063/1.4824070 | Lindner, B., Z. Yi, J. H. Prinz, J. C. Smith and F. Noe | Dynamic neutron scattering from conformational dynamics. I. Theory and Markov models | Journal of Chemical Physics | 139(17) 175101 |
| 2013 | 10.1063/1.4793573 | Reznik, E., T. J. Kaper and D. Segrè | The dynamics of hybrid metabolic-genetic oscillators | Chaos | 23(1) |
| 2013 | 10.1128/mBio.00592-13 | Wang, Q., J. F. Quensen, 3rd, J. A. Fish, T. K. Lee, Y. Sun, J. M. Tiedje and J. R. Cole | Ecological patterns of nifH genes in four terrestrial climatic zones explored with targeted metagenomics using FrameBot, a new informatics tool | mBio | 4(5) e00592-13 |
| 2013 | 10.1007/s10021-013-9661-4 | Niu, S. L., R. A. Sherry, X. H. Zhou and Y. Q. Luo | Ecosystem Carbon Fluxes in Response to Warming and Clipping in a Tallgrass Prairie | Ecosystems | 16(6) 948–61 |
| 2013 | 10.1016/j.soilbio.2013.09.002 | Sanford, G. R. and C. J. Kucharik | Effect of methodological consideration on soil carbon parameter estimates obtained via the acid hydrolysis-incubation method | Soil Biology and Biochemistry | 67 295-305 |
| 2013 | 10.1016/j.biortech.2013.08.018 | Jin, M., W. Bothfeld, S. Austin, T. K. Sato, A. La Reau, et al. | Effect of storage conditions on the stability and fermentability of enzymatic lignocellulosic hydrolysate | Bioresource Technology | 147 212-220 |
| 2013 | 10.1016/j.envsoft.2013.03.013 | Zhang, X., P. Beeson, R. Link, D. Manowitz, R. C. Izaurralde, A. Sadeghi, A. M. Thomson, R. Sahajpal, R. Srinivasan and J. G. Arnold | Efficient multi-objective calibration of a computationally intensive hydrologic model with parallel computing software in Python | Environmental Modelling and Software | 46 208-218 |
| 2013 | 10.1103/PhysRevLett.110.028104 | Hong, L., D. C. Glass, J. D. Nickels, S. Perticaroli, Z. Yi, M. Tyagi, H. O'Neill, Q. Zhang, A. P. Sokolov and J. C. Smith | Elastic and conformational softness of a globular protein | Physical Review Letters | 110(2) 028104 |
| 2013 | 10.1186/1471-2180-13-124 | Xu, M., Z. He, Y. Deng, L. Wu, J. D. van Nostrand, S. E. Hobbie, P. B. Reich and J. Zhou | Elevated CO2 influences microbial carbon and nitrogen cycling | BMC Microbiology | 13 124 |
| 2013 | 10.1002/anie.201305075 | Wang, X., T. Yang, X. Cheng and Q. Shen | Enantioselective electrophilic trifluoromethylthiolation of β-ketoesters: a case of reactivity and selectivity bias for organocatalysis | Angewandte Chemie International Edition | 52(49) 12860–4 |
| 2013 | 10.1007/978-3-642-32867-1_2 | Levar, C., J. Rollefson and D. R. Bond | Energetic and molecular constraints on the mechanism of environmental Fe (III) reduction by Geobacter | Microbial Metal Respiration: From Geochemistry to Potential Applications | 29–48 |
| 2013 | 10.1186/1754-6834-6-58 | Jabbour, D., M. S. Borrusch, G. Banerjee and J. D. Walton | Enhancement of fermentable sugar yields by α-xylosidase supplementation of commercial cellulases | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1016/j.str.2013.11.005 | Smith, J. C. and B. Roux | Eppur si muove! The 2013 Nobel Prize in Chemistry | Structure | 21(12) 2102–5 |
| 2013 | 10.1128/AEM.03880-12 | Korripally, P., V. I. Timokhin, C. J. Houtman, M. D. Mozuch and K. E. Hammel | Evidence from Serpula lacrymans that 2,5-dimethoxyhydroquinone Is a lignocellulolytic agent of divergent brown rot basidiomycetes | Applied and Environmental Microbiology | 79(7) 2377–83 |
| 2013 | 10.1111/tpj.12073 | Ye, C. Y., T. Li, H. Yin, D. J. Weston, G. A. Tuskan, T. J. Tschaplinski and X. Yang | Evolutionary analyses of non-family genes in plants | The Plant Journal | 73(5) 788–97 |
| 2013 | 10.1007/s00253-013-4911-0 | Youngquist, J. T., J. P. Rose and B. F. Pfleger | Free fatty acid production in Escherichia coli under phosphate-limited conditions | Applied Microbiology and Biotechnology | 97(11) 5149–59 |
| 2013 | 10.1016/j.agrformet.2013.07.015 | Zenone, T., I. Gelfand, J. Chen, S. K. Hamilton and G. P. Robertson | From set-aside grassland to annual and perennial cellulosic biofuel crops: Effects of land use change on carbon balance | Agricultural and Forest Meteorology | 182-183 45303 |
| 2013 | 10.1093/nar/gks1184 | Kazanov, M. D., X. Li, M. S. Gelfand, A. L. Osterman and D. A. Rodionov | Functional diversification of ROK-family transcriptional regulators of sugar catabolism in the Thermotogae phylum | Nucleic Acids Research | 41(2) 790-803 |
| 2013 | 10.1073/pnas.1300643110 | Chan, Y., J. D. Van Nostrand, J. Zhou, S. B. Pointing and R. L. Farrell | Functional ecology of an Antarctic Dry Valley | Proceedings of the National Academy of Sciences of the United States of America | 110(22) 8990–5 |
| 2013 | 10.3389/fmicb.2013.00279 | Penton, C. R., T. A. Johnson, J. F. Quensen, 3rd, S. Iwai, J. R. Cole and J. M. Tiedje | Functional genes to assess nitrogen cycling and aromatic hydrocarbon degradation: primers and processing matter | Frontiers in Microbiology | 4 279 |
| 2013 | 10.1128/AEM.01702-13 | Penton, C. R., D. St Louis, J. R. Cole, Y. Luo, L. Wu, E. A. Schuur, J. Zhou and J. M. Tiedje | Fungal diversity in permafrost and tallgrass prairie soils under experimental warming conditions | Applied and Environmental Microbiology | 79(22) 7063–72 |
| 2013 | 10.3389/fmicb.2013.00291 | Fish, J. A., B. Chai, Q. Wang, Y. Sun, C. T. Brown, J. M. Tiedje and J. R. Cole | FunGene: the functional gene pipeline and repository | Frontiers in Microbiology | 4 291 |
| 2013 | 10.1126/science.1230667 | Parks, J. M., A. Johs, M. Podar, R. Bridou, R. A. Hurt, Jr., et al. | The genetic basis for bacterial mercury methylation | Science | 339(6125) 1332–5 |
| 2013 | 10.1534/g3.112.005207 | Mauro-Herrera, M., X. Wang, H. Barbier, T. P. Brutnell, K. M. Devos and A. N. Doust | Genetic control and comparative genomic analysis of flowering time in Setaria (Poaceae) | G3 Genes|Genomes|Genetics | 3(2) 283–95 |
| 2013 | 10.1007/978-1-4419-5947-8_17 | Vermerris, W. and A. Saballos | Genetic enhancement of sorghum for biomass utilization | Genomics of the Saccharinae | 11 391–425 |
| 2013 | 10.1371/journal.pone.0054468 | Muchero, W., M. M. Sewell, P. Ranjan, L. E. Gunter, T. J. Tschaplinski, T. Yin and G. A. Tuskan | Genome anchored QTLs for biomass productivity in hybrid Populus grown under contrasting environments | PLoS One | 8(1) e54468 |
| 2013 | 10.1093/nar/gkt135 | DiCarlo, J. E., J. E. Norville, P. Mali, X. Rios, J. Aach and G. M. Church | Genome engineering in Saccharomyces cerevisiae using CRISPR-Cas systems | Nucleic Acids Research | 41(7) 4336–43 |
| 2013 | 10.1073/pnas.1313452110 | Tisserant, E., M. Malbreil, A. Kuo, A. Kohler, A. Symeonidi, et al. | Genome of an arbuscular mycorrhizal fungus provides insight into the oldest plant symbiosis | Proceedings of the National Academy of Sciences of the United States of America | 110(50) 20117–22 |
| 2013 | 10.1371/journal.pone.0053954 | Christopherson, M. R., G. Suen, S. Bramhacharya, K. A. Jewell, F. O. Aylward, D. Mead and P. J. Brumm | The genome sequences of Cellulomonas fimi and “Cellvibrio gilvus” reveal the cellulolytic strategies of two facultative anaerobes, transfer of “Cellvibrio gilvus” to the genus Cellulomonas, and proposal of Cellulomonas gilvus sp. nov | PLoS One | 8(1) e53954 |
| 2013 | 10.1186/1471-2164-14-94 | Ravcheev, D. A., A. A. Best, N. V. Sernova, M. D. Kazanov, P. S. Novichkov and D. A. Rodionov | Genomic reconstruction of transcriptional regulatory networks in lactic acid bacteria | BMC Genomics | 14(1) |
| 2013 | 10.1126/science.1241459 | Lajoie, M. J., A. J. Rovner, D. B. Goodman, H. R. Aerni, A. D. Haimovich, et al. | Genomically recoded organisms expand biological functions | Science | 342(6156) 357–60 |
| 2013 | 10.1146/annurev-ecolsys-110512-135806 | Des Marais, D. L., K. M. Hernandez and T. E. Juenger | Genotype-by-environment interaction and plasticity: Exploring genomic responses of plants to the abiotic environment | Annual Review of Ecology, Evolution, and Systematics | 44 45441 |
| 2013 | 10.1186/1752-0509-7-89 | Imam, S., D. R. Noguera and T. J. Donohue | Global insights into energetic and metabolic networks in Rhodobacter sphaeroides | BMC Systems Biology | 7 |
| 2013 | 10.3389/fmicb.2013.00070 | Yang, S., J. B. Matsen, M. Konopka, A. Green-Saxena, J. Clubb, M. Sadilek, V. J. Orphan, D. Beck and M. G. Kalyuzhnaya | Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part II. Metabolomics and 13C-Labeling Study | Frontiers in Microbiology | 4 70 |
| 2013 | 10.3389/fmicb.2013.00040 | Matsen, J. B., S. Yang, L. Y. Stein, D. Beck and M. G. Kalyuzhnaya | Global molecular analyses of methane metabolism in Methanotrophic alphaproteobacterium, methylosinus trichosporium OB3b. Part I: Transcriptomic study | Frontiers in Microbiology | 4(APR) |
| 2013 | 10.1093/bioinformatics/btt055 | Pronk, S., S. Pall, R. Schulz, P. Larsson, P. Bjelkmar, R. Apostolov, M. R. Shirts, J. C. Smith, P. M. Kasson, D. van der Spoel, B. Hess and E. Lindahl | GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit | Bioinformatics | 29(7) 845–54 |
| 2013 | 10.1098/rsob.120186 | Urano, D., J. G. Chen, J. R. Botella and A. M. Jones | Heterotrimeric G protein signalling in the plant kingdom | Open Biology | 3(3) 120186 |
| 2013 | 10.1038/ncomms3785 | Kalyuzhnaya, M. G., S. Yang, O. N. Rozova, N. E. Smalley, J. Clubb, et al. | Highly efficient methane biocatalysis revealed in a methanotrophic bacterium | Nature Communications | 4 2785 |
| 2013 | 10.1371/journal.pone.0070705 | Cashman, D. J., D. R. Ortega, I. B. Zhulin and J. Baudry | Homology modeling of the CheW coupling protein of the chemotaxis signaling complex | PLoS One | 8(8) e70705 |
| 2013 | 10.7554/eLife.01102 | Di Rienzi, S. C., I. Sharon, K. C. Wrighton, O. Koren, L. A. Hug, B. C. Thomas, J. K. Goodrich, J. T. Bell, T. D. Spector, J. F. Banfield and R. E. Ley | The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria | eLife | 2 e01102 |
| 2013 | 10.3852/12-094 | Urbina, H., R. Frank and M. Blackwell | Scheffersomyces cryptocercus: a new xylose-fermenting yeast associated with the gut of wood roaches and new combinations in the Sugiyamaella yeast clade | Mycologia | 105(3) 650–60 |
| 2013 | 10.1007/s10482-012-9811-2 | Motaung, T. E., J. Albertyn, J. L. Kock, C. F. Lee, S. O. Suh, M. Blackwell and C. H. Pohl | Trichosporon vanderwaltii sp. nov., an asexual basidiomycetous yeast isolated from soil and beetles | Antonie Van Leeuwenhoek | 103(2) 313–9 |
| 2013 | 10.1021/ci400537n | Chen, Q., J. K. Buolamwini, J. C. Smith, A. Li, Q. Xu, X. Cheng and D. Wei | Impact of resistance mutations on inhibitor binding to HIV-1 integrase | Journal of Chemical Information and Modeling | 53(12) 3297–307 |
| 2013 | 10.1039/c3ra44847a | Culbertson, A., M. Jin, L. Da Costa Sousa, B. E. Dale and V. Balan | In-house cellulase production from AFEX™ pretreated corn stover using Trichoderma reesei RUT C-30 | RSC Advances | 3(48) 25960-25969 |
| 2013 | 10.1016/j.bpj.2012.12.052 | Ghattyvenkatakrishna, P. K., E. M. Alekozai, G. T. Beckham, R. Schulz, M. F. Crowley, E. C. Uberbacher and X. Cheng | Initial recognition of a cellodextrin chain in the cellulose-binding tunnel may affect cellobiohydrolase directional specificity | Biophysical Journal | 104(4) 904–12 |
| 2013 | 10.3835/plantgenome2012.06.0007 | Ruzicka, D., S. Chamala, F. H. Barrios-Masias, F. Martin, S. Smith, L. E. Jackson, W. B. Barbazuk and D. P. Schachtman | Inside Arbuscular Mycorrhizal Roots - Molecular Probes to Understand the Symbiosis | Plant Genome | 6(2) |
| 2013 | 10.1186/1745-6150-8-9 | Podar, M., K. S. Makarova, D. E. Graham, Y. I. Wolf, E. V. Koonin and A. L. Reysenbach | Insights into archaeal evolution and symbiosis from the genomes of a nanoarchaeon and its inferred crenarchaeal host from Obsidian Pool, Yellowstone National Park | Biology Direct | 8 9 |
| 2013 | 10.4155/bfs.12.87 | Keegstra, K. | Interview with professor Kenneth Keegstra | Biofuels | 4(2) 147-150 |
| 2013 | 10.1186/1745-6150-8-7 | Reznik, E., S. Yohe and D. Segrè | Invariance and optimality in the regulation of an enzyme | Biology Direct | 8(1) |
| 2013 | 10.1002/bit.24958 | Yang, D., J. M. Moran-Mirabal, J. Y. Parlange and L. P. Walker | Investigation of the porous structure of cellulosic substrates through confocal laser scanning microscopy | Biotechnology and Bioengineering | 110(11) 2836–45 |
| 2013 | 10.1111/pce.12036 | Sukumar, P., V. Legue, A. Vayssieres, F. Martin, G. A. Tuskan and U. C. Kalluri | Involvement of auxin pathways in modulating root architecture during beneficial plant-microorganism interactions | Plant, Cell & Environment | 36(5) 909–19 |
| 2013 | 10.1523/JNEUROSCI.0539-13.2013 | Su, Y. Y., M. Ye, L. Li, C. Liu, J. Pan, W. W. Liu, Y. Jiang, X. Y. Jiang, X. Zhang, Y. Shu and L. Bao | KIF5B promotes the forward transport and axonal function of the voltage-gated sodium channel Nav1.8 | Journal of Neuroscience | 33(45) 17884-17896 |
| 2013 | 10.1002/biot.201200276 | Wasylenko, T. M. and G. Stephanopoulos | Kinetic isotope effects significantly influence intracellular metabolite 13C labeling patterns and flux determination | Biotechnology Journal | 8(9) 1080–9 |
| 2013 | 10.1111/1462-2920.12080 | Hacquard, S., E. Tisserant, A. Brun, V. Legue, F. Martin and A. Kohler | Laser microdissection and microarray analysis of Tuber melanosporum ectomycorrhizas reveal functional heterogeneity between mantle and Hartig net compartments | Environmental Microbiology | 15(6) 1853–69 |
| 2013 | 10.1021/bm4011358 | Hansen, R. R., J. P. Hinestrosa, K. R. Shubert, J. L. Morrell-Falvey, D. A. Pelletier, J. M. Messman, S. M. Kilbey, 2nd, B. S. Lokitz and S. T. Retterer | Lectin-functionalized poly(glycidyl methacrylate)-block-poly(vinyldimethyl azlactone) surface scaffolds for high avidity microbial capture | Biomacromolecules | 14(10) 3742–8 |
| 2013 | 10.1371/journal.pone.0068266 | Lacayo, C. I., M. S. Hwang, S. Y. Ding and M. P. Thelen | Lignin depletion enhances the digestibility of cellulose in cultured xylem cells | PLoS One | 8(7) e68266 |
| 2013 | 10.1016/j.mib.2013.10.001 | Allen, A. E., L. Z. Allen and J. P. McCrow | Lineage specific gene family enrichment at the microscale in marine systems | Current Opinion in Microbiology | 16(5) 605–17 |
| 2013 | 10.4161/psb.27141 | Gidda, S. K., S. C. Watt, J. Collins-Silva, A. Kilaru, V. Arondel, O. Yurchenko, P. J. Horn, C. N. James, D. Shintani, J. B. Ohlrogge, K. D. Chapman, R. T. Mullen and J. M. Dyer | Lipid droplet-associated proteins (LDAPs) are involved in the compartmentalization of lipophilic compounds in plant cells | Plant Signaling and Behavior | 8(11) |
| 2013 | 10.1103/PhysRevE.88.052706 | Vural, D., L. Hong, J. C. Smith and H. R. Glyde | Long-time mean-square displacements in proteins | Physical Review E | 88(5) 052706 |
| 2013 | 10.1073/pnas.1312234110 | Zhao, Q., Y. Tobimatsu, R. Zhou, S. Pattathil, L. Gallego-Giraldo, C. Fu, L. A. Jackson, M. G. Hahn, H. Kim, F. Chen, J. Ralph and R. A. Dixon | Loss of function of cinnamyl alcohol dehydrogenase 1 leads to unconventional lignin and a temperature-sensitive growth defect in Medicago truncatula | Proceedings of the National Academy of Sciences of the United States of America | 110(33) 13660–5 |
| 2013 | 10.1128/AEM.01417-13 | Schaefer, A. L., C. R. Lappala, R. P. Morlen, D. A. Pelletier, T. Y. Lu, P. K. Lankford, C. S. Harwood and E. P. Greenberg | LuxR- and luxI-type quorum-sensing circuits are prevalent in members of the Populus deltoides microbiome | Applied and Environmental Microbiology | 79(18) 5745–52 |
| 2013 | 10.1016/j.enpol.2013.02.021 | Egbendewe-Mondzozo, A., S. M. Swinton, R. C. Izaurralde, D. H. Manowitz and X. Zhang | Maintaining environmental quality while expanding biomass production: Sub-regional U.S. policy simulations | Energy Policy | 57 518-531 |
| 2013 | 10.1186/1471-2105-14-32 | Cotten, C. and J. L. Reed | Mechanistic analysis of multi-omics datasets to generate kinetic parameters for constraint-based metabolic models | BMC Bioinformatics | 14(1) |
| 2013 | 10.7717/peerj.23 | Beck, D. A., M. G. Kalyuzhnaya, S. Malfatti, S. G. Tringe, T. Glavina Del Rio, N. Ivanova, M. E. Lidstrom and L. Chistoserdova | A metagenomic insight into freshwater methane-utilizing communities and evidence for cooperation between the Methylococcaceae and the Methylophilaceae | PeerJ | 1 e23 |
| 2013 | 10.1371/journal.pcbi.1002880 | Pang, W. L., A. Kaur, A. V. Ratushny, A. Cvetkovic, S. Kumar, M. Pan, A. P. Arkin, J. D. Aitchison, M. W. Adams and N. S. Baliga | Metallochaperones regulate intracellular copper levels | PLoS Computational Biology | 9(1) e1002880 |
| 2013 | 10.3791/50527 | Jiang, H., H. Barbier and T. Brutnell | Methods for performing crosses in Setaria viridis, a new model system for the grasses | Journal of Visualized Experiments | (80) e50527 |
| 2013 | 10.1016/j.copbio.2013.02.028 | Lennen, R. M. and B. F. Pfleger | Microbial production of fatty acid-derived fuels and chemicals | Current Opinion in Biotechnology | 24(6) 1044-1053 |
| 2013 | 10.1016/j.scitotenv.2013.06.056 | Zhang, X., R. C. Izaurralde, J. G. Arnold, J. R. Williams and R. Srinivasan | Modifying the Soil and Water Assessment Tool to simulate cropland carbon flux: Model development and initial evaluation | Science of the Total Environment | 463-464 810-822 |
| 2013 | 10.1016/j.phytochem.2013.06.014 | Zhao, N., J. Yao, M. Chaiprasongsuk, G. Li, J. Guan, T. J. Tschaplinski, H. Guo and F. Chen | Molecular and biochemical characterization of the jasmonic acid methyltransferase gene from black cottonwood (Populus trichocarpa) | Phytochemistry | 94 74–81 |
| 2013 | 10.1371/journal.pone.0069058 | Payne, A. C., M. Andregg, K. Kemmish, M. Hamalainen, C. Bowell, A. Bleloch, N. Klejwa, W. Lehrach, K. Schatz, H. Stark, A. Marblestone, G. Church, C. S. Own and W. Andregg | Molecular threading: mechanical extraction, stretching and placement of DNA molecules from a liquid-air interface | PLoS One | 8(7) e69058 |
| 2013 | 10.1371/journal.pone.0076382 | Shakya, M., N. Gottel, H. Castro, Z. K. Yang, L. Gunter, J. Labbe, W. Muchero, G. Bonito, R. Vilgalys, G. Tuskan, M. Podar and C. W. Schadt | A multifactor analysis of fungal and bacterial community structure in the root microbiome of mature Populus deltoides trees | PLoS One | 8(10) e76382 |
| 2013 | 10.1038/nbt.2654 | Li, J. F., J. E. Norville, J. Aach, M. McCormack, D. Zhang, J. Bush, G. M. Church and J. Sheen | Multiplex and homologous recombination-mediated genome editing in Arabidopsis and Nicotiana benthamiana using guide RNA and Cas9 | Nature Biotechnology | 31(8) 688-691 |
| 2013 | 10.1002/9781118735893.ch8 | Martin, F. and A. Kohler | The Mycorrhizal Symbiosis Genomics | The Ecological Genomics of Fungi | 169–89 |
| 2013 | 10.1111/nph.12545 | Selosse, M. A. and F. Martin | Mycorrhizas and New Phytologist: une vraie histoire d'amour | New Phytologist | 200(3) 587–9 |
| 2013 | 10.1016/j.pbi.2013.02.001 | Juenger, T. E. | Natural variation and genetic constraints on drought tolerance | Current Opinion in Plant Biology | 16(3) 274–81 |
| 2013 | 10.1016/j.geoderma.2012.07.025 | Mayes, M., S. Jagadamma, H. Ambaye, L. Petridis and V. Lauter | Neutron reflectometry reveals the internal structure of organic compounds deposited on aluminum oxide | Geoderma | 192 182–8 |
| 2013 | 10.5248/123.233 | Urbina, H. and M. Blackwell | New combinations, Scheffersomyces amazonensis and S. ergatensis | Mycotaxon | 123 233–4 |
| 2013 | 10.3852/12-087 | Guevara, G., G. Bonito, J. M. Trappe, E. Cazares, G. Williams, R. A. Healy, C. Schadt and R. Vilgalys | New North American truffles (Tuber spp.) and their ectomycorrhizal associations | Mycologia | 105(1) 194–209 |
| 2013 | 10.1007/s10533-012-9802-4 | Robertson, G. P., T. W. Bruulsema, R. J. Gehl, D. Kanter, D. L. Mauzerall, C. A. Rotz and C. O. Williams | Nitrogen-climate interactions in US agriculture | Biogeochemistry | 114(45294) 41-70 |
| 2013 | 10.1186/1471-2180-13-130 | Decanio, M. S., R. Landick and R. J. Haft | The non-pathogenic Escherichia coli strain W secretes SslE via the virulence-associated type II secretion system beta | BMC microbiology | 13 |
| 2013 | 10.1111/1462-2920.12096 | Rodionova, I. A., S. A. Leyn, M. D. Burkart, N. Boucher, K. M. Noll, A. L. Osterman and D. A. Rodionov | Novel inositol catabolic pathway in Thermotoga maritima | Environmental Microbiology | 15(8) 2254–66 |
| 2013 | 10.1021/jp402024s | Shen, T., X. Qi and R. B. Nellas | Nucleation dynamics of active particles | Journal of Physical Chemistry B | 117(42) 12844–9 |
| 2013 | 10.1038/msb.2013.21 | Xu, Y. F., F. Letisse, F. Absalan, W. Lu, E. Kuznetsova, G. Brown, A. A. Caudy, A. F. Yakunin, J. R. Broach and J. D. Rabinowitz | Nucleotide degradation and ribose salvage in yeast | Molecular Systems Biology | 9 665 |
| 2013 | 10.1038/nmeth.2681 | Esvelt, K. M., P. Mali, J. L. Braff, M. Moosburner, S. J. Yaung and G. M. Church | Orthogonal Cas9 proteins for RNA-guided gene regulation and editing | Nature Methods | 10(11) 1116–21 |
| 2013 | 10.1371/journal.pone.0073523 | Sathitsuksanoh, N., B. Xu, B. Zhao and Y. H. Zhang | Overcoming biomass recalcitrance by combining genetically modified switchgrass and cellulose solvent-based lignocellulose pretreatment | PLoS One | 8(9) e73523 |
| 2013 | 10.1186/gb-2013-14-12-r145 | Jeong, D. H., S. A. Schmidt, L. A. Rymarquis, S. Park, M. Ganssmann, et al. | Parallel analysis of RNA ends enhances global investigation of microRNAs and target RNAs of Brachypodium distachyon | Genome Biology | 14(12) R145 |
| 2013 | 10.1038/ismej.2013.88 | Lee, Y. J., J. D. van Nostrand, Q. Tu, Z. Lu, L. Cheng, T. Yuan, Y. Deng, M. Q. Carter, Z. He, L. Wu, F. Yang, J. Xu and J. Zhou | The PathoChip, a functional gene array for assessing pathogenic properties of diverse microbial communities | The ISME Journal | 7(10) 1974–84 |
| 2013 | 10.1007/s12155-012-9258-3 | Robertson, B. A., D. A. Landis, T. S. Sillett, E. R. Loomis and R. A. Rice | Perennial Agroenergy Feedstocks as En Route Habitat for Spring Migratory Birds | Bioenergy Research | 6(1) 311-320 |
| 2013 | 10.1186/1754-6834-6-40 | Harun, S., V. Balan, M. S. Takriff, O. Hassan, J. Jahim and B. E. Dale | Performance of AFEX™ pretreated rice straw as source of fermentable sugars: The influence of particle size | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1038/ncomms3881 | Ortega, D. R., C. Yang, P. Ames, J. Baudry, J. S. Parkinson and I. B. Zhulin | A phenylalanine rotameric switch for signal-state control in bacterial chemoreceptors | Nature Communications | 4 2881 |
| 2013 | 10.1093/nar/gkt399 | Afrasiabi, C., B. Samad, D. Dineen, C. Meacham and K. Sjolander | The PhyloFacts FAT-CAT web server: ortholog identification and function prediction using fast approximate tree classification | Nucleic Acids Research | 41(W1) W242–8 |
| 2013 | 10.1155/2013/423189 | Wu, X., J. Wu, Y. Luo, J. Bragg, O. Anderson, J. Vogel and Y. Q. Gu | Phylogenetic, Molecular, and Biochemical Characterization of Caffeic Acid o-Methyltransferase Gene Family in Brachypodium distachyon | International Journal of Plant Genomics | 2013 423189 |
| 2013 | 10.1186/1754-6834-6-45 | Chylla, R. A., R. Van Acker, H. Kim, A. Azapira, P. Mukerjee, J. L. Markley, V. Storme, W. Boerjan and J. Ralph | Plant cell wall profiling by fast maximum likelihood reconstruction (FMLR) and region-of-interest (ROI) segmentation of solution-state 2D 1H-13C NMR spectra | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1002/9780470975831.ch3 | Davison, B. H., J. Parks, M. F. Davis and B. S. Donohoe | Plant Cell Walls Basics of Structure, Chemistry, Accessibility and the Influence on Conversion | Aqueous Pretreatment of Plant Biomass for Biological and Chemical Conversion to Fuels and Chemicals | 23–38 |
| 2013 | 10.1186/1471-2164-14-873 | Ravcheev, D. A., A. Godzik, A. L. Osterman and D. A. Rodionov | Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: Comparative genomics reconstruction of metabolic and regulatory networks | BMC Genomics | 14(1) |
| 2013 | 10.1007/s00425-013-1858-4 | Zhu, R., O. Shevchenko, C. Ma, S. Maury, M. Freitag and S. H. Strauss | Poplars with a PtDDM1-RNAi transgene have reduced DNA methylation and show aberrant post-dormancy morphology | Planta | 237(6) 1483–93 |
| 2013 | 10.1186/1471-2105-14-278 | Zhu, M., J. L. Dahmen, G. Stacey and J. Cheng | Predicting gene regulatory networks of soybean nodulation from RNA-Seq transcriptome data | BMC Bioinformatics | 14 278 |
| 2013 | 10.1039/c3ra42818d | Zhu, Y. M., M. Regner, F. C. Lu, H. Kim, A. Mohammadi, T. J. Pearson and J. Ralph | Preparation of monolignol γ-acetate, γ-p-hydroxycinnamate, and γ-p-hydroxybenzoate conjugates: selective deacylation of phenolic acetates with hydrazine acetate | RSC Advances | 3(44) 21964–71 |
| 2013 | 10.1126/science.1241460 | Lajoie, M. J., S. Kosuri, J. A. Mosberg, C. J. Gregg, D. Zhang and G. M. Church | Probing the limits of genetic recoding in essential genes | Science | 342(6156) 361–3 |
| 2013 | 10.1007/s11244-013-0113-3 | Gallo, J. M. R., D. M. Alonso, M. A. Mellmer, J. H. Yeap, H. C. Wong and J. A. Dumesic | Production of furfural from lignocellulosic biomass using beta zeolite and biomass-derived solvent | Topics in Catalysis | 56(18-20) 1775-1781 |
| 2013 | 10.1016/j.ymben.2013.10.006 | Youngquist, J. T., M. H. Schumacher, J. P. Rose, T. C. Raines, M. C. Politz, M. F. Copeland and B. F. Pfleger | Production of medium chain length fatty alcohols from glucose in Escherichia coli | Metabolic Engineering | 20 177-186 |
| 2013 | 10.1016/j.copbio.2012.10.021 | Rubakhin, S. S., E. J. Lanni and J. V. Sweedler | Progress toward single cell metabolomics | Current Opinion in Biotechnology | 24(1) 95–104 |
| 2013 | 10.1063/1.4772182 | Chaudret, R., J. M. Parks and W. Yang | Pseudobond parameters for QM/MM studies involving nucleosides, nucleotides, and their analogs | Journal of Chemical Physics | 138(4) 045102 |
| 2013 | 10.1038/nature12445 | Reaves, M. L., B. D. Young, A. M. Hosios, Y. F. Xu and J. D. Rabinowitz | Pyrimidine homeostasis is accomplished by directed overflow metabolism | Nature | 500(7461) 237–41 |
| 2013 | 10.1080/08927022.2012.714467 | Yao, J., Q. Xu and H. Guo | QM/MM and free-energy simulations of deacylation reaction catalysed by sedolisin, a serine-carboxyl peptidase | Molecular Simulation | 39(3) 206–13 |
| 2013 | 10.1139/cjc-2012-0483 | Chu, Y., G. Li and H. Guo | QM/MM MD and free energy simulations of the methylation reactions catalyzed by protein arginine methyltransferase PRMT3 | Canadian Journal of Chemistry | 91(7) 605–12 |
| 2013 | 10.1128/mBio.00324-13 | Zhou, J., Y. H. Jiang, Y. Deng, Z. Shi, B. Y. Zhou, K. Xue, L. Wu, Z. He and Y. Yang | Random sampling process leads to overestimation of β-diversity of microbial communities | mBio | 4(3) e00324-13 |
| 2013 | 10.1186/1754-6834-6-119 | Li, Z., C. H. Chen, E. L. Hegg and D. B. Hodge | Rapid and effective oxidative pretreatment of woody biomass at mild reaction conditions and low oxidant loadings | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1186/1752-0509-7-142 | Mueller, T. J., B. M. Berla, H. B. Pakrasi and C. D. Maranas | Rapid construction of metabolic models for a family of Cyanobacteria using a multiple source annotation workflow | BMC Systems Biology | 7 142 |
| 2013 | 10.1371/journal.pcbi.1002882 | Rockwell, G., N. J. Guido and G. M. Church | Redirector: designing cell factories by reconstructing the metabolic objective | PloS Computational Biology | 9(1) e1002882 |
| 2013 | 10.1186/1471-2164-14-745 | Novichkov, P. S., A. E. Kazakov, D. A. Ravcheev, S. A. Leyn, G. Y. Kovaleva, R. A. Sutormin, M. D. Kazanov, W. Riehl, A. P. Arkin, I. Dubchak and D. A. Rodionov | RegPrecise 3.0 - A resource for genome-scale exploration of transcriptional regulation in bacteria | BMC Genomics | 14(1) |
| 2013 | 10.1186/1471-2164-14-213 | Cipriano, M. J., P. N. Novichkov, A. E. Kazakov, D. A. Rodionov, A. P. Arkin, M. S. Gelfand and I. Dubchak | RegTransBase - a database of regulatory sequences and interactions based on literature: A resource for investigating transcriptional regulation in prokaryotes | BMC Genomics | 14(1) |
| 2013 | 10.3389/fpls.2013.00177 | Bihmidine, S., C. T. Hunter, 3rd, C. E. Johns, K. E. Koch and D. M. Braun | Regulation of assimilate import into sink organs: update on molecular drivers of sink strength | Frontiers in Plant Science | 4 177 |
| 2013 | 10.1111/gcb.12065 | Yang, Y., L. Wu, Q. Lin, M. Yuan, D. Xu, H. Yu, Y. Hu, J. Duan, X. Li, Z. He, K. Xue, J. van Nostrand, S. Wang and J. Zhou | Responses of the functional structure of soil microbial community to livestock grazing in the Tibetan alpine grassland | Global Change Biology | 19(2) 637–48 |
| 2013 | 10.1371/journal.pone.0062595 | Orellana, M. V., W. L. Pang, P. M. Durand, K. Whitehead and N. S. Baliga | A role for programmed cell death in the microbial loop | PLoS One | 8(5) e62595 |
| 2013 | 10.1007/s12374-013-0213-4 | Jeong, D. H. and P. J. Green | The role of rice microRNAs in abiotic stress responses | Journal of Plant Biology | 56(4) 187–97 |
| 2013 | 10.1074/jbc.M112.420448 | Berim, A. and D. R. Gang | The roles of a flavone-6-hydroxylase and 7-O-demethylation in the flavone biosynthetic network of sweet basil | Journal of Biological Chemistry | 288(3) 1795–805 |
| 2013 | 10.1186/2049-2618-1-2 | Lan, Y., A. Kriete and G. L. Rosen | Selecting age-related functional characteristics in the human gut microbiome | Microbiome | 1(1) 2 |
| 2013 | 10.1007/s00442-012-2577-4 | Schadel, C., Y. Luo, R. David Evans, S. Fei and S. M. Schaeffer | Separating soil CO2 efflux into C-pool-specific decay rates via inverse analysis of soil incubation data | Oecologia | 171(3) 721–32 |
| 2013 | 10.1038/ismej.2012.120 | Li, X., Y. Deng, Q. Li, C. Lu, J. Wang, H. Zhang, J. Zhu, J. Zhou and Z. He | Shifts of functional gene representation in wheat rhizosphere microbial communities under elevated ozone | The ISME Journal | 7(3) 660–71 |
| 2013 | 10.1007/s10570-013-0026-0 | Alekozai, E. M., P. K. GhattyVenkataKrishna, E. C. Uberbacher, M. F. Crowley, J. C. Smith and X. Cheng | Simulation Analysis of the Cellulase Cel7A Carbohydrate Binding Module on the Surface of the Cellulose Iβ | Cellulose | 21(2) 951–71 |
| 2013 | 10.1007/s10570-013-0018-0 | Mostofian, B., J. C. Smith and X. Cheng | Simulation of a cellulose fiber in ionic liquid suggests a synergistic approach to dissolution | Cellulose | 21(2) 983–97 |
| 2013 | 10.1093/bioinformatics/btt329 | Wang, Y., T. H. Ahn, Z. Li and C. Pan | Sipros/ProRata: a versatile informatics system for quantitative community proteomics | Bioinformatics | 29(16) 2064–5 |
| 2013 | 10.1103/PhysRevLett.111.127801 | Godec, A., J. C. Smith and F. Merzel | Soft collective fluctuations governing hydrophobic association | Physical Review Letters | 111(12) 127801 |
| 2013 | 10.1016/j.soilbio.2012.09.006 | Liang, C., D. S. Duncan, T. C. Balser, J. M. Tiedje and R. D. Jackson | Soil microbial residue storage linked to soil legacy under biofuel cropping systems in southern Wisconsin, USA | Soil Biology and Biochemistry | 57 939-942 |
| 2013 | 10.1021/bm400442n | Lindner, B., L. Petridis, R. Schulz and J. C. Smith | Solvent-driven preferential association of lignin with regions of crystalline cellulose in molecular dynamics simulation | Biomacromolecules | 14(10) 3390–8 |
| 2013 | 10.1021/bi400537z | Nellas, R. B., Q. R. Johnson and T. Shen | Solvent-induced α- to 310-helix transition of an amphiphilic peptide | Biochemistry | 52(40) 7137–44 |
| 2013 | 10.1111/1462-2920.12039 | Hunt, C. G., C. J. Houtman, D. C. Jones, P. Kitin, P. Korripally and K. E. Hammel | Spatial mapping of extracellular oxidant production by a white rot basidiomycete on wood reveals details of ligninolytic mechanism | Environmental Microbiology | 15(3) 956–66 |
| 2013 | 10.1002/jcc.23164 | Jenkins, D. D., J. B. Harris, E. E. Howell, R. J. Hinde and J. Baudry | STAAR: statistical analysis of aromatic rings | Journal of Computational Chemistry | 34(6) 518–22 |
| 2013 | 10.1021/cb400210q | Fischer, C. R., B. P. Bowen, C. Pan, T. R. Northen and J. F. Banfield | Stable-isotope probing reveals that hydrogen isotope fractionation in proteins and lipids in a microbial community are different and species-specific | ACS Chemical Biology | 8(8) 1755–63 |
| 2013 | 10.1021/es4018656 | Zhou, A., Z. He, Y. Qin, Z. Lu, Y. Deng, Q. Tu, C. L. Hemme, J. D. Van Nostrand, L. Wu, T. C. Hazen, A. P. Arkin and J. Zhou | StressChip as a high-throughput tool for assessing microbial community responses to environmental stresses | Environmental Science & Technology | 47(17) 9841–9 |
| 2013 | 10.1126/science.1234012 | Chang, R. L., K. Andrews, D. Kim, Z. Li, A. Godzik and B. O. Palsson | Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli | Science | 340(6137) 1220–3 |
| 2013 | 10.1007/s10570-013-9974-7 | Sawada, D., Y. Nishiyama, L. Petridis, R. Parthasarathi, S. Gnanakaran, V. T. Forsyth, M. Wada and P. Langan | Structure and dynamics of a complex of cellulose with EDA: insights into the action of amines on cellulose | Cellulose | 20(4) 1563–71 |
| 2013 | 10.1016/j.jmr.2013.04.013 | Warshaviak, D. T., V. V. Khramtsov, D. Cascio, C. Altenbach and W. L. Hubbell | Structure and dynamics of an imidazoline nitroxide side chain with strongly hindered internal motion in proteins | Journal of Magnetic Resonance | 232 53-61 |
| 2013 | 10.1016/j.jmb.2013.05.030 | Bianchetti, C. M., P. Brumm, R. W. Smith, K. Dyer, G. L. Hura, T. J. Rutkoski and G. N. Phillips Jr | Structure, dynamics, and specificity of endoglucanase D from clostridium cellulovorans | Journal of Molecular Biology | 425(22) 4267-4285 |
| 2013 | 10.1098/rsif.2013.0087 | Reznik, E., A. Watson and O. Chaudhary | The stubborn roots of metabolic cycles | Journal of The Royal Society Interface | 10(83) 20130087 |
| 2013 | 10.1080/07352689.2013.789648 | Zhao, N., G. D. Wang, A. Norris, X. L. Chen and F. Chen | Studying Plant Secondary Metabolism in the Age of Genomics | Critical Reviews in Plant Sciences | 32(6) 369–82 |
| 2013 | 10.1007/s11103-012-9985-z | Wagner, A., Y. Tobimatsu, G. Goeminne, L. Phillips, H. Flint, D. Steward, K. Torr, L. Donaldson, W. Boerjan and J. Ralph | Suppression of CCR impacts metabolite profile and cell wall composition in Pinus radiata tracheary elements | Plant Molecular Biology | 81(45293) 105-117 |
| 2013 | 10.1002/jrs.4380 | Nie, B., C. L. He and L. J. Liu | Surface-enhanced Raman scattering within silver-nanoparticle-decorated nanometric apertures | Journal of Raman Spectroscopy | 44(11) 1512–7 |
| 2013 | 10.1038/nature11811 | Gelfand, I., R. Sahajpal, X. Zhang, R. C. Izaurralde, K. L. Gross and G. P. Robertson | Sustainable bioenergy production from marginal lands in the US Midwest | Nature | 493(7433) 514-517 |
| 2013 | 10.1088/1478-3975/10/2/026005 | Qi, X., R. B. Nellas, M. W. Byrn, M. H. Russell, A. N. Bible, G. Alexandre and T. Shen | Swimming motility plays a key role in the stochastic dynamics of cell clumping | Physical Biology | 10(2) 026005 |
| 2013 | 10.1371/journal.pgen.1003215 | Lu, F., A. E. Lipka, J. Glaubitz, R. Elshire, J. H. Cherney, M. D. Casler, E. S. Buckler and D. E. Costich | Switchgrass genomic diversity, ploidy, and evolution: novel insights from a network-based SNP discovery protocol | PLoS Genetics | 9(1) e1003215 |
| 2013 | 10.1016/j.bmcl.2013.09.009 | Sharma, H., T. W. Sanchez, N. Neamati, M. Detorio, R. F. Schinazi, X. Cheng and J. K. Buolamwini | Synthesis, docking, and biological studies of phenanthrene β-diketo acids as novel HIV-1 integrase inhibitors | Bioorganic & Medicinal Chemistry Letters | 23(22) 6146–51 |
| 2013 | 10.1016/j.ces.2012.12.023 | Agnew, D. E. and B. F. Pfleger | Synthetic biology strategies for synthesizing polyhydroxyalkanoates from unrelated carbon sources | Chemical Engineering Science | 103 58-67 |
| 2013 | 10.1186/1471-2105-14-112 | Altman, T., M. Travers, A. Kothari, R. Caspi and P. D. Karp | A systematic comparison of the MetaCyc and KEGG pathway databases | BMC Bioinformatics | 14 112 |
| 2013 | 10.1101/gr.153916.112 | Yoon, S. H., S. Turkarslan, D. J. Reiss, M. Pan, J. A. Burn, K. C. Costa, T. J. Lie, J. Slagel, R. L. Moritz, M. Hackett, J. A. Leigh and N. S. Baliga | A systems level predictive model for global gene regulation of methanogenesis in a hydrogenotrophic methanogen | Genome Research | 23(11) 1839–51 |
| 2013 | 10.1038/nbt.2655 | Nekrasov, V., B. Staskawicz, D. Weigel, J. D. G. Jones and S. Kamoun | Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided endonuclease | Nature Biotechnology | 31(8) 691-693 |
| 2013 | 10.1111/j.1574-6941.12000.x | Mayali, X., P. K. Weber and J. Pett-Ridge | Taxon-specific C/N relative use efficiency for amino acids in an estuarine community | FEMS Microbiology Ecology | 83(2) 402–12 |
| 2013 | 10.1111/tpj.12088 | Patel, D., M. Basu, S. Hayes, I. Majlath, F. M. Hetherington, T. J. Tschaplinski and K. A. Franklin | Temperature-dependent shade avoidance involves the receptor-like kinase ERECTA | The Plant Journal | 73(6) 980–92 |
| 2013 | 10.1093/dnares/dst016 | Le, Y., H. Chen, R. Zagursky, J. H. Wu and W. Shao | Thermostable DNA ligase-mediated PCR production of circular plasmid (PPCP) and its application in directed evolution via in situ error-prone PCR | DNA Research | 20(4) 375–82 |
| 2013 | 10.1021/jp400564q | Glass, D. C., M. Krishnan, J. C. Smith and J. Baudry | Three entropic classes of side chain in a globular protein | Journal of Physical Chemistry B | 117(11) 3127–34 |
| 2013 | 10.1186/1752-0509-7-120 | Wang, Q., K. P. Venkataramanan, H. Huang, E. T. Papoutsakis and C. H. Wu | Transcription factors and genetic circuits orchestrating the complex, multilayered response of Clostridium acetobutylicum to butanol and butyrate stress | BMC Systems Biology | 7 120 |
| 2013 | 10.1111/nph.12160 | Konotchick, T., C. L. Dupont, R. E. Valas, J. H. Badger and A. E. Allen | Transcriptomic analysis of metabolic function in the giant kelp, Macrocystis pyrifera, across depth and season | New Phytologist | 198(2) 398–407 |
| 2013 | 10.1016/j.soilbio.2013.05.007 | Sul, W. J., S. Asuming-Brempong, Q. Wang, D. M. Tourlousse, C. R. Penton, Y. Deng, J. L. M. Rodrigues, S. G. K. Adiku, J. W. Jones, J. Zhou, J. R. Cole and J. M. Tiedje | Tropical agricultural land management influences on soil microbial communities through its effect on soil organic carbon | Soil Biology and Biochemistry | 65 33-38 |
| 2013 | 10.1007/s12155-012-9247-6 | Yelle, D. J., P. Kaparaju, C. G. Hunt, K. Hirth, H. Kim, J. Ralph and C. Felby | Two-dimensional NMR evidence for cleavage of lignin and xylan substituents in wheat straw through hydrothermal pretreatment and enzymatic hydrolysis | Bioenergy Research | 6(1) 211-221 |
| 2013 | 10.1002/chem.201301310 | Yao, J., A. Wlodawer and H. Guo | Understanding the autocatalytic process of pro-kumamolisin activation from molecular dynamics and quantum mechanical/molecular mechanical (QM/MM) free-energy simulations | Chemistry | 19(33) 10849–52 |
| 2013 | 10.1016/B978-0-12-407863-5.00023-X | Luo, C., L. M. Rodriguez-R and K. T. Konstantinidis | A user's guide to quantitative and comparative analysis of metagenomic datasets | Methods in Enzymology | 531 525-547 |
| 2013 | 10.1002/jcc.23367 | Ellingson, S. R., J. C. Smith and J. Baudry | VinaMPI: facilitating multiple receptor high-throughput virtual docking on high-performance computers | Journal of Computational Chemistry | 34(25) 2212–21 |
| 2013 | 10.1111/tpj.12299 | Tobimatsu, Y., A. Wagner, L. Donaldson, P. Mitra, C. Niculaes, O. Dima, J. I. Kim, N. Anderson, D. Loque, W. Boerjan, C. Chapple and J. Ralph | Visualization of plant cell wall lignification using fluorescence-tagged monolignols | The Plant Journal | 76(3) 357–66 |
| 2013 | 10.1002/9781118297674.ch47 | Veneault-Fourrey, C., J. M. Plett and F. Martin | Who is Controlling whom within the Ectomycorrhizal Symbiosis: Insights from Genomic and Functional Analyses | Molecular Microbial Ecology of the Rhizosphere | 501–12 |
| 2013 | 10.1021/jz401075b | Riccardi, D., H.-B. Guo, J. M. Parks, B. Gu, A. O. Summers, S. M. Miller, L. Liang and J. C. Smith | Why Mercury Prefers Soft Ligands | Journal of Physical Chemistry Letters | 4(14) 2317–22 |
| 2013 | 10.1016/j.bbagrm.2013.03.005 | Nagarajan, V. K., C. I. Jones, S. F. Newbury and P. J. Green | XRN 5'→3' exoribonucleases: structure, mechanisms and functions | Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms | 1829(45450) 590–603 |
| 2013 | 10.1021/sb400117c | DiCarlo, J. E., A. J. Conley, M. Penttila, J. Jantti, H. H. Wang and G. M. Church | Yeast oligo-mediated genome engineering (YOGE) | ACS Synthetic Biology | 2(12) 741–9 |
| 2013 | 10.1016/j.biombioe.2012.12.017 | Smith, S. L., K. D. Thelen and S. J. MacDonald | Yield and quality analyses of bioenergy crops grown on a regulatory brownfield | Biomass and Bioenergy | 49 123-130 |
| 2013 | 10.1140/epje/i2013-13072-5 | Miao, Y., L. Hong, Z. Yi and J. C. Smith | Zaccai neutron resilience and site-specific hydration dynamics in a globular protein | The European Physical Journal E | 36(7) 72 |
| 2013 | 10.1007/s00253-012-4423-3 | Paper, J. M., J. S. Scott-Craig, D. Cavalier, A. Faik, R. E. Wiemels, M. S. Borrusch, M. Bongers and J. D. Walton | α-Fucosidases with different substrate specificities from two species of Fusarium | Applied Microbiology and Biotechnology | 97(12) 5371-5380 |
| 2013 | 10.1105/tpc.113.111898 | Park, S., S. K. Gidda, C. N. James, P. J. Horn, N. Khuu, D. C. Seay, J. Keereetaweep, K. D. Chapman, R. T. Mullen and J. M. Dyer | The α/β hydrolase CGI-58 and peroxisomal transport protein PXA1 coregulate lipid homeostasis and signaling in Arabidopsis | The Plant Cell | 25(5) 1726–39 |
| 2012 | 10.1007/978-3-642-30826-0_6 | Plett, J. M., A. Kohler and F. Martin | 6 De-Constructing a Mutualist: How the Molecular Blueprints of Model Symbiotic Fungi Are Changing Our Understanding of Mutualism | Fungal Associations | 9 93–117 |
| 2012 | 10.1021/ci3002217 | Latendresse, M., J. P. Malerich, M. Travers and P. D. Karp | Accurate atom-mapping computation for biochemical reactions | Journal of Chemical Information and Modeling | 52(11) 2970–82 |
| 2012 | 10.1007/s12155-011-9134-6 | Garlock, R. J., Y. S. Wong, V. Balan and B. E. Dale | AFEX pretreatment and enzymatic conversion of black locust (Robinia pseudoacacia L.) to soluble sugars | Bioenergy Research | 5(2) 306-318 |
| 2012 | 10.1007/s12155-011-9161-3 | Robertson, B. A., C. Porter, D. A. Landis and D. W. Schemske | Agroenergy Crops Influence the Diversity, Biomass, and Guild Structure of Terrestrial Arthropod Communities | Bioenergy Research | 5(1) 179-188 |
| 2012 | 10.1016/j.biombioe.2012.07.015 | Kim, S., B. E. Dale and R. G. Ong | An alternative approach to indirect land use change: Allocating greenhouse gas effects among different uses of land | Biomass and Bioenergy | 46 447-452 |
| 2012 | 10.1186/1471-2164-13-533 | Broadbent, J. R., E. C. Neeno-Eckwall, B. Stahl, K. Tandee, H. Cai, W. Morovic, P. Horvath, J. Heidenreich, N. T. Perna, R. Barrangou and J. L. Steele | Analysis of the Lactobacillus casei supragenome and its influence in species evolution and lifestyle adaptation | BMC Genomics | 13(1) |
| 2012 | 10.1093/nar/gks403 | Karpinets, T. V., B. H. Park and E. C. Uberbacher | Analyzing large biological datasets with association networks | Nucleic Acids Research | 40(17) e131 |
| 2012 | 10.1007/s00425-012-1592-3 | Harholt, J., J. K. Jensen, Y. Verhertbruggen, C. Søgaard, S. Bernard, M. Nafisi, C. P. Poulsen, N. Geshi, Y. Sakuragi, A. Driouich, J. P. Knox and H. V. Scheller | ARAD proteins associated with pectic Arabinan biosynthesis form complexes when transiently overexpressed in planta | Planta | 236(1) 115-128 |
| 2012 | 10.1111/j.1462-2920.2011.02668.x | Caro-Quintero, A. and K. T. Konstantinidis | Bacterial species may exist, metagenomics reveal | Environmental Microbiology | 14(2) 347–55 |
| 2012 | 10.1021/jp209536e | Mintz, B. J. and J. M. Parks | Benchmark interaction energies for biologically relevant noncovalent complexes containing divalent sulfur | Journal of Physical Chemistry A | 116(3) 1086–92 |
| 2012 | 10.1073/pnas.1207530109 | Risser, D. D., F. C. Wong and J. C. Meeks | Biased inheritance of the protein PatN frees vegetative cells to initiate patterned heterocyst differentiation | Proceedings of the National Academy of Sciences of the United States of America | 109(38) 15342–7 |
| 2012 | 10.1093/ae/58.3.172 | Grieshop, M. J., B. P. Werling, K. Buehrer, J. Perrone, R. Isaacs and D. Landis | Big Brother is Watching: Studying Insect Predation in the Age of Digital Surveillance | American Entomologist | 58(3) 172-182 |
| 2012 | 10.4137/GRSB.S9357 | Leuze, M. R., T. V. Karpinets, M. H. Syed, A. S. Beliaev and E. C. Uberbacher | Binding Motifs in Bacterial Gene Promoters Modulate Transcriptional Effects of Global Regulators CRP and ArcA | Gene Regulation and Systems Biology | 6 93–107 |
| 2012 | 10.1007/978-1-4471-2903-5_7 | Balan, V., S. Kumar, B. Bals, S. Chundawat, M. Jin and B. Dale | Biochemical and thermochemical conversion of switchgrass to biofuels | Green Energy and Technology | 94 153-185 |
| 2012 | 10.1093/database/bar061 | Childs, K. L., K. Konganti and C. R. Buell | The Biofuel Feedstock Genomics Resource: a web-based portal and database to enable functional genomics of plant biofuel feedstock species | Database | 2012 bar061 |
| 2012 | 10.1194/jlr.R021436 | Chapman, K. D., J. M. Dyer and R. T. Mullen | Biogenesis and functions of lipid droplets in plants: Thematic Review Series: Lipid Droplet Synthesis and Metabolism: from Yeast to Man | Journal of Lipid Research | 53(2) 215–26 |
| 2012 | 10.1016/j.soilbio.2012.03.007 | Xu, X., Y. Q. Luo and J. Z. Zhou | Carbon quality and the temperature sensitivity of soil organic carbon decomposition in a tallgrass prairie | Soil Biology and Biochemistry | 50 142–8 |
| 2012 | 10.1128/JB.00061-12 | Hu, B. and M. Lidstrom | CcrR, a TetR family transcriptional regulator, activates the transcription of a gene of the Ethylmalonyl coenzyme A pathway in Methylobacterium extorquens AM1 | Journal of Bacteriology | 194(11) 2802–8 |
| 2012 | 10.1016/B978-0-444-59506-5.50013-4 | Smith, J., S. Cremaschi and D. Crunkleton | CFD-Based Optimization of a Flooded Bed Bioreactor for Algae Production | Computer Aided Chemical Engineering | 31 910-914 |
| 2012 | 10.1371/journal.pone.0040197 | Labbe, J., C. Murat, E. Morin, G. A. Tuskan, F. Le Tacon and F. Martin | Characterization of transposable elements in the ectomycorrhizal fungus Laccaria bicolor | PLoS One | 7(8) e40197 |
| 2012 | 10.3389/fmicb.2012.00419 | McGlynn, S. E., E. S. Boyd, J. W. Peters and V. J. Orphan | Classifying the metal dependence of uncharacterized nitrogenases | Frontiers in Microbiology | 3 419 |
| 2012 | 10.1186/1754-6834-5-55 | Asztalos, A., M. Daniels, A. Sethi, T. Shen, P. Langan, A. Redondo and S. Gnanakaran | A coarse-grained model for synergistic action of multiple enzymes on cellulose | Biotechnology for Biofuels | 5(1) 55 |
| 2012 | 10.1371/journal.pone.0050854 | Fernandes, N., P. Steinberg, D. Rusch, S. Kjelleberg and T. Thomas | Community structure and functional gene profile of bacteria on healthy and diseased thalli of the red seaweed Delisea pulchra | PLoS One | 7(12) e50854 |
| 2012 | 10.1186/1471-2229-12-65 | Li, C., H. Rudi, E. J. Stockinger, H. Cheng, M. Cao, S. E. Fox, T. C. Mockler, B. Westereng, S. Fjellheim, O. A. Rognli and S. R. Sandve | Comparative analyses reveal potential uses of Brachypodium distachyon as a model for cold stress responses in temperate grasses | BMC Plant Biology | 12 |
| 2012 | 10.1038/ng.2309 | Hufford, M. B., X. Xu, J. Van Heerwaarden, T. Pyhäjärvi, J. M. Chia, et al. | Comparative population genomics of maize domestication and improvement | Nature Genetics | 44(7) 808-811 |
| 2012 | 10.1007/s00216-012-6120-6 | Tfaily, M. M., S. Hodgkins, D. C. Podgorski, J. P. Chanton and W. T. Cooper | Comparison of dialysis and solid-phase extraction for isolation and concentration of dissolved organic matter prior to Fourier transform ion cyclotron resonance mass spectrometry | Analytical and Bioanalytical Chemistry | 404(2) 447–57 |
| 2012 | 10.1016/j.fuel.2012.01.033 | He, Y., S. E. Barnes, D. W. Crunkleton and G. L. Price | Comparison of ginger oil conversion over MFI, BEA, and FAU | Fuel | 96(1) 469–75 |
| 2012 | 10.4056/sigs.2605792 | Mead, D. A., S. Lucas, A. Copeland, A. Lapidus, J. F. Cheng, et al. | Complete genome sequence of Paenibacillus strain Y4.12MC10, a novel Paenibacillus lautus strain isolated from obsidian hot spring in yellowstone national park | Standards in Genomic Sciences | 6(3) 366-385 |
| 2012 | 10.1128/JB.00761-12 | Wise, K. S., M. J. Calcutt, M. F. Foecking, R. Madupu, R. T. DeBoy, K. Roske, M. L. Hvinden, T. R. Martin, A. S. Durkin, J. I. Glass and B. A. Methe | Complete genome sequences of Mycoplasma leachii strain PG50T and the pathogenic Mycoplasma mycoides subsp. mycoides small colony biotype strain Gladysdale | Journal of Bacteriology | 194(16) 4448–9 |
| 2012 | 10.1016/j.cub.2012.07.025 | Nagel, D. H. and S. A. Kay | Complexity in the wiring and regulation of plant circadian networks | Current Biology | 22(16) R648–57 |
| 2012 | 10.1016/B978-0-12-394277-7.00006-3 | Li, X., C. S. Zhu, J. K. Wang and J. M. Yu | Computer Simulation in Plant Breeding | Advances in Agronomy | 116 219–64 |
| 2012 | 10.1038/nrmicro2737 | Lewis, N. E., H. Nagarajan and B. O. Palsson | Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods | Nature Reviews Microbiology | 10(4) 291–305 |
| 2012 | 10.1101/gr.125146.111 | Rodgers-Melnick, E., S. P. Mane, P. Dharmawardhana, G. T. Slavov, O. R. Crasta, S. H. Strauss, A. M. Brunner and S. P. Difazio | Contrasting patterns of evolution following whole genome versus tandem duplication events in Populus | Genome Research | 22(1) 95–105 |
| 2012 | 10.1039/c2an15790j | Nie, B., R. N. Masyuko and P. W. Bohn | Correlation of surface-enhanced Raman spectroscopy and laser desorption-ionization mass spectrometry acquired from silver nanoparticle substrates | Analyst | 137(6) 1421–7 |
| 2012 | 10.1016/j.bpj.2012.10.013 | Miao, Y., Z. Yi, C. Cantrell, D. C. Glass, J. Baudry, N. Jain and J. C. Smith | Coupled flexibility change in cytochrome P450cam substrate binding determined by neutron scattering, NMR, and molecular dynamics simulation | Biophysical Journal | 103(10) 2167–76 |
| 2012 | 10.1007/s11103-012-9909-y | Wang, Y., A. P. Alonso, C. G. Wilkerson and K. Keegstra | Deep EST profiling of developing fenugreek endosperm to investigate galactomannan biosynthesis and its regulation | Plant Molecular Biology | 79(3) 243-258 |
| 2012 | 10.1021/jp2102868 | Yi, Z., Y. Miao, J. Baudry, N. Jain and J. C. Smith | Derivation of mean-square displacements for protein dynamics from elastic incoherent neutron scattering | Journal of Physical Chemistry B | 116(16) 5028–36 |
| 2012 | 10.1099/ijs.0.024349-0 | Maune, M. W. and R. S. Tanner | Description of Anaerobaculum hydrogeniformans sp. nov., an anaerobe that produces hydrogen from glucose, and emended description of the genus Anaerobaculum | International Journal of Systematic and Evolutionary Microbiology | 62(Part 4) 832–8 |
| 2012 | 10.1007/s11306-011-0344-x | Fischer, C. R., P. Wilmes, B. P. Bowen, T. R. Northen and J. F. Banfield | Deuterium-exchange metabolomics identifies N-methyl lyso phosphatidylethanolamines as abundant lipids in acidophilic mixed microbial communities | Metabolomics | 8(4) 566–78 |
| 2012 | 10.1016/B978-0-12-386897-8.00017-6 | Izaurralde, R. C., W. B. McGill and J. R. Williams | Development and Application of the EPIC Model for Carbon Cycle, Greenhouse Gas Mitigation, and Biofuel Studies | Managing Agricultural Greenhouse Gases: Coordinated Agricultural Research through GRACEnet to Address our Changing Climate | 293-308 |
| 2012 | 10.1109/TNS.2012.2210908 | Rozler, M., H. Liang and W. Chang | Development of a Cost-Effective Modular Pixelated NaI(Tl) Detector for Clinical SPECT Applications | IEEE Transactions on Nuclear Science | 59(5) 1831–40 |
| 2012 | 10.1007/978-1-61779-827-6_18 | Navid, A. | Development of constraint-based system-level models of microbial metabolism | Microbial Systems Biology: Methods and Protocols | 881 531–49 |
| 2012 | 10.1371/journal.pone.0030087 | Luo, C., D. Tsementzi, N. Kyrpides, T. Read and K. T. Konstantinidis | Direct comparisons of Illumina vs. Roche 454 sequencing technologies on the same microbial community DNA sample | PLoS One | 7(2) e30087 |
| 2012 | 10.5936/csbj.201209012 | Pourmir, A. and T. W. Johannes | Directed evolution: selection of the host organism | Computational and Structural Biotechnology Journal | 2 e201209012 |
| 2012 | 10.1021/bi201763d | Shen, Y. Q., F. Bonnot, E. M. Imsand, J. M. RoseFigura, K. Sjolander and J. P. Klinman | Distribution and properties of the genes encoding the biosynthesis of the bacterial cofactor, pyrroloquinoline quinone | Biochemistry | 51(11) 2265–75 |
| 2012 | 10.1007/s00425-012-1677-z | Hong, J. J., Y. S. Park, A. Bravo, K. K. Bhattarai, D. A. Daniels and M. J. Harrison | Diversity of morphology and function in arbuscular mycorrhizal symbioses in Brachypodium distachyon | Planta | 236(3) 851–65 |
| 2012 | 10.1209/0295-5075/97/38004 | Biswas, M., T. Wocjan, J. Langowski and J. C. Smith | DNA bending potentials for loop-mediated nucleosome repositioning | Europhysics Letters | 97(3) |
| 2012 | 10.1186/1754-6834-5-71 | Tschaplinski, T. J., R. F. Standaert, N. L. Engle, M. Z. Martin, A. K. Sangha, et al. | Down-regulation of the caffeic acid O-methyltransferase gene in switchgrass reveals a novel monolignol analog | Biotechnology for Biofuels | 5(1) 71 |
| 2012 | 10.1128/JB.00198-12 | Brown, S. D., D. M. Klingeman, T. Y. Lu, C. M. Johnson, S. M. Utturkar, M. L. Land, C. W. Schadt, M. J. Doktycz and D. A. Pelletier | Draft genome sequence of Rhizobium sp. strain PDO1-076, a bacterium isolated from Populus deltoides | Journal of Bacteriology | 194(9) 2383–4 |
| 2012 | 10.1186/1471-2164-13-27 | Vining, K. J., K. R. Pomraning, L. J. Wilhelm, H. D. Priest, M. Pellegrini, T. C. Mockler, M. Freitag and S. H. Strauss | Dynamic DNA cytosine methylation in the Populus trichocarpa genome: tissue-level variation and relationship to gene expression | BMC Genomics | 13 27 |
| 2012 | 10.1111/j.1365-313X.2011.04771.x | Zhuang, X., T. G. Kollner, N. Zhao, G. Li, Y. Jiang, L. Zhu, J. Ma, J. Degenhardt and F. Chen | Dynamic evolution of herbivore-induced sesquiterpene biosynthesis in sorghum and related grass crops | The Plant Journal | 69(1) 70–80 |
| 2012 | 10.1016/j.bpj.2012.08.046 | Nickels, J. D., H. O'Neill, L. Hong, M. Tyagi, G. Ehlers, K. L. Weiss, Q. Zhang, Z. Yi, E. Mamontov, J. C. Smith and A. P. Sokolov | Dynamics of protein and its hydration water: neutron scattering studies on fully deuterated GFP | Biophysical Journal | 103(7) 1566–75 |
| 2012 | 10.1016/j.biombioe.2011.10.018 | Miesel, J. R., M. J. Renz, J. E. Doll and R. D. Jackson | Effectiveness of weed management methods in establishment of switchgrass and a native species mixture for biofuels in Wisconsin | Biomass and Bioenergy | 36 121-131 |
| 2012 | 10.1007/s12155-012-9218-y | Ralph, J., T. Akiyama, H. D. Coleman and S. D. Mansfield | Effects on Lignin Structure of Coumarate 3-Hydroxylase Downregulation in Poplar | Bioenergy Research | 5(4) 1009-1019 |
| 2012 | 10.1128/AEM.06924-11 | Deng, Y., Z. He, M. Xu, Y. Qin, J. D. Van Nostrand, L. Wu, B. A. Roe, G. Wiley, S. E. Hobbie, P. B. Reich and J. Zhou | Elevated carbon dioxide alters the structure of soil microbial communities | Applied and Environmental Microbiology | 78(8) 2991–5 |
| 2012 | 10.1002/jcc.22947 | Pool, R., J. Heringa, M. Hoefling, R. Schulz, J. C. Smith and K. A. Feenstra | Enabling grand-canonical Monte Carlo: extending the flexibility of GROMACS through the GromPy python interface module | Journal of Computational Chemistry | 33(12) 1207–14 |
| 2012 | 10.1016/j.ymben.2012.08.003 | Agnew, D. E., A. K. Stevermer, J. Youngquist and B. F. Pfleger | Engineering Escherichia coli for production of C12-C14 polyhydroxyalkanoate from glucose | Metabolic Engineering | 14(6) 705-713 |
| 2012 | 10.1016/j.tibtech.2012.09.006 | Lennen, R. M. and B. F. Pfleger | Engineering Escherichia coli to synthesize free fatty acids | Trends in Biotechnology | 30(12) 659-667 |
| 2012 | 10.1371/journal.pone.0042116 | Blanchette, C., C. I. Lacayo, N. O. Fischer, M. Hwang and M. P. Thelen | Enhanced cellulose degradation using cellulase-nanosphere complexes | PLoS One | 7(8) e42116 |
| 2012 | 10.1093/database/bas013 | Nag, A., T. V. Karpinets, C. H. Chang and M. Bar-Peled | Enhancing a Pathway-Genome Database (PGDB) to capture subcellular localization of metabolites and enzymes: the nucleotide-sugar biosynthetic pathways of Populus trichocarpa | Database | 2012 bas013 |
| 2012 | 10.1186/1754-6834-5-59 | Elumalai, S., Y. Tobimatsu, J. H. Grabber, X. Pan and J. Ralph | Epigallocatechin gallate incorporation into lignin enhances the alkaline delignification and enzymatic saccharification of cell walls | Biotechnology for Biofuels | 5 |
| 2012 | 10.1186/1471-2148-12-6 | Zhang, X. C., Z. Wang, X. Zhang, M. H. Le, J. Sun, D. Xu, J. Cheng and G. Stacey | Evolutionary dynamics of protein domain architecture in plants | BMC Evolutionary Biology | 12 6 |
| 2012 | 10.1109/tcbb.2011.113 | Chen, X., X. Hu, T. Y. Lim, X. Shen, E. K. Park and G. L. Rosen | Exploiting the functional and taxonomic structure of genomic data by probabilistic topic modeling | IEEE/ACM Transactions on Computational Biology and Bioinformatics | 9(4) 980–91 |
| 2012 | 10.1111/j.1399-3054.2011.01538.x | Petzold, H. E., M. Zhao and E. P. Beers | Expression and functions of proteases in vascular tissues | Physiologia Plantarum | 145(1) 121–9 |
| 2012 | 10.1007/s12155-011-9151-5 | Zhu, Y., A. Mohammadi and J. Ralph | Facile Synthesis of 4-Hydroxycinnamaldehydes | Bioenergy Research | 5(2) 407-411 |
| 2012 | 10.1371/journal.pone.0038333 | Cui, Y., M. Y. Lee, N. Huo, J. Bragg, L. Yan, et al. | Fine mapping of the Bsr1 barley stripe mosaic virus resistance gene in the model grass Brachypodium distachyon | PLoS One | 7(6) e38333 |
| 2012 | 10.1103/PhysRevB.86.174202 | Levine, G. C., M. J. Bantegui and J. A. Burg | Full counting statistics in a disordered free fermion system | Physical Review B | 86(17) |
| 2012 | 10.1016/j.chroma.2012.03.072 | Yang, S., J. S. Nadeau, E. M. Humston-Fulmer, J. C. Hoggard, M. E. Lidstrom and R. E. Synovec | Gas chromatography-mass spectrometry with chemometric analysis for determining 12C and 13C labeled contributions in metabolomics and 13C flux analysis | Journal of Chromatography A | 1240 156–64 |
| 2012 | 10.1093/bioinformatics/bts429 | Hyatt, D., P. F. LoCascio, L. J. Hauser and E. C. Uberbacher | Gene and translation initiation site prediction in metagenomic sequences | Bioinformatics | 28(17) 2223–30 |
| 2012 | 10.1002/9780470559277.ch110190 | Eroshenko, N., S. Kosuri, A. H. Marblestone, N. Conway and G. M. Church | Gene Assembly from Chip-Synthesized Oligonucleotides | Current Protocols in Chemical Biology | 4 1–17 |
| 2012 | 10.1371/journal.pone.0041916 | Bragg, J. N., J. Wu, S. P. Gordon, M. E. Guttman, R. Thilmony, G. R. Lazo, Y. Q. Gu and J. P. Vogel | Generation and characterization of the Western Regional Research Center Brachypodium T-DNA insertional mutant collection | PLoS One | 7(9) e41916 |
| 2012 | 10.1371/journal.pone.0040236 | Petrus, A. K., K. S. Swithers, C. Ranjit, S. Wu, H. M. Brewer, J. P. Gogarten, L. Pasa-Tolic and K. M. Noll | Genes for the major structural components of Thermotogales species' togas revealed by proteomic and evolutionary analyses of OmpA and OmpB homologs | PLoS One | 7(6) e40236 |
| 2012 | 10.1016/B978-0-12-415931-0.00018-5 | Gardner, J. G. and D. H. Keating | Genetic and functional genomic approaches for the study of plant cell wall degradation in cellvibrio japonicus | Methods in Enzymology | 510 331-347 |
| 2012 | 10.1007/s13280-012-0275-4 | Masukawa, H., M. Kitashima, K. Inoue, H. Sakurai and R. P. Hausinger | Genetic engineering of cyanobacteria to enhance biohydrogen production from sunlight and water | Ambio | 41(SUPPL.2) 169-173 |
| 2012 | 10.1128/AEM.01602-12 | Wang, H., Z. He, Z. Lu, J. Zhou, J. D. Van Nostrand, X. Xu and Z. Zhang | Genetic linkage of soil carbon pools and microbial functions in subtropical freshwater wetlands in response to experimental warming | Applied and Environmental Microbiology | 78(21) 7652–61 |
| 2012 | 10.1080/07352689.2011.616052 | Chen, H., M. J. Stout, Q. Qian and F. Chen | Genetic, Molecular and Genomic Basis of Rice Defense against Insects | Critical Reviews in Plant Sciences | 31(1) 74–91 |
| 2012 | 10.1186/1752-0509-6-150 | Navid, A. and E. Almaas | Genome-level transcription data of Yersinia pestis analyzed with a new metabolic constraint-based approach | BMC Systems Biology | 6 150 |
| 2012 | 10.1016/j.mrfmmm.2011.10.011 | Harper, M. and C. J. Lee | Genome-wide analysis of mutagenesis bias and context sensitivity of N-methyl-N'-nitro-N-nitrosoguanidine (NTG) | Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis | 731(45293) 64-67 |
| 2012 | 10.1038/ismej.2011.189 | Dupont, C. L., D. B. Rusch, S. Yooseph, M. J. Lombardo, R. A. Richter, et al. | Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage | The ISME Journal | 6(6) 1186–99 |
| 2012 | 10.1016/j.cub.2012.07.054 | Worden, A. Z., J. Janouskovec, D. McRose, A. Engman, R. M. Welsh, S. Malfatti, S. G. Tringe and P. J. Keeling | Global distribution of a wild alga revealed by targeted metagenomics | Current Biology | 22(17) R675–7 |
| 2012 | 10.1093/nar/gks864 | Antunes, A., E. Camiade, M. Monot, E. Courtois, F. Barbut, N. V. Sernova, D. A. Rodionov, I. Martin-Verstraete and B. Dupuy | Global transcriptional control by glucose and carbon regulator CcpA in Clostridium difficile | Nucleic Acids Research | 40(21) 10701-10718 |
| 2012 | 10.1371/journal.pone.0044224 | Lee, C. K., C. W. Herbold, S. W. Polson, K. E. Wommack, S. J. Williamson, I. R. McDonald and S. C. Cary | Groundtruthing next-gen sequencing for microbial ecology-biases and errors in community structure estimates from PCR amplicon pyrosequencing | PLoS One | 7(9) e44224 |
| 2012 | 10.1186/1754-6834-5-37 | Kim, S., S. Lowman, G. Hou, J. Nowak, B. Flinn and C. Mei | Growth promotion and colonization of switchgrass (Panicum virgatum) cv. Alamo by bacterial endophyte Burkholderia phytofirmans strain PsJN | Biotechnology for Biofuels | 5(1) 37 |
| 2012 | 10.1016/j.indcrop.2011.07.025 | Chundawat, S. P. S., L. Chang, C. Gunawan, V. Balan, C. McMahan and B. E. Dale | Guayule as a feedstock for lignocellulosic biorefineries using ammonia fiber expansion (AFEX) pretreatment | Industrial Crops and Products | 37(1) 486-492 |
| 2012 | 10.1128/AEM.01938-12 | Justice, N. B., C. Pan, R. Mueller, S. E. Spaulding, V. Shah, C. L. Sun, A. P. Yelton, C. S. Miller, B. C. Thomas, M. Shah, N. VerBerkmoes, R. Hettich and J. F. Banfield | Heterotrophic archaea contribute to carbon cycling in low-pH, suboxic biofilm communities | Applied and Environmental Microbiology | 78(23) 8321–30 |
| 2012 | 10.1063/1.3700183 | Nellas, R. B., M. M. Glover, D. Hamelberg and T. Shen | High-pressure effect on the dynamics of solvated peptides | Journal of Chemical Physics | 136(14) 145103 |
| 2012 | 10.1186/1754-6834-5-27 | Muttoni, G., J. M. Johnson, N. Santoro, C. J. Rhiner, K. J. H. Von Mogel, S. M. Kaeppler and N. De Leon | A high-throughput core sampling device for the evaluation of maize stalk composition | Biotechnology for Biofuels | 5 |
| 2012 | 10.1038/ismej.2011.175 | Mayali, X., P. K. Weber, E. L. Brodie, S. Mabery, P. D. Hoeprich and J. Pett-Ridge | High-throughput isotopic analysis of RNA microarrays to quantify microbial resource use | The ISME Journal | 6(6) 1210–21 |
| 2012 | 10.1007/s10529-011-0742-1 | Gardner, J. G., L. A. Zeitler, W. J. S. Wigstrom, K. C. Engel and D. H. Keating | A high-throughput solid phase screening method for identification of lignocellulose-degrading bacteria from environmental isolates | Biotechnology Letters | 34(1) 81-89 |
| 2012 | 10.1021/ci200485a | Sharma, H., X. Cheng and J. K. Buolamwini | Homology model-guided 3D-QSAR studies of HIV-1 integrase inhibitors | Journal of Chemical Information and Modeling | 52(2) 515–44 |
| 2012 | 10.1038/ismej.2011.142 | Burow, L. C., D. Woebken, B. M. Bebout, P. J. McMurdie, S. W. Singer, J. Pett-Ridge, L. Prufert-Bebout, A. M. Spormann, P. K. Weber and T. M. Hoehler | Hydrogen production in photosynthetic microbial mats in the Elkhorn Slough estuary, Monterey Bay | The ISME Journal | 6(4) 863–74 |
| 2012 | 10.1104/pp.112.204453 | Rigal, A., Y. S. Yordanov, I. Perrone, A. Karlberg, E. Tisserant, C. Bellini, V. B. Busov, F. Martin, A. Kohler, R. Bhalerao and V. Legue | The AINTEGUMENTA LIKE1 homeotic transcription factor PtAIL1 controls the formation of adventitious root primordia in poplar | Plant Physiology | 160(4) 1996–2006 |
| 2012 | 10.1111/j.1365-313X.2012.04933.x | Saballos, A., S. E. Sattler, E. Sanchez, T. P. Foster, Z. Xin, C. Kang, J. F. Pedersen and W. Vermerris | Brown midrib2 (Bmr2) encodes the major 4-coumarate:coenzyme A ligase involved in lignin biosynthesis in sorghum (Sorghum bicolor (L.) Moench) | The Plant Journal | 70(5) 818–30 |
| 2012 | 10.4161/psb.7.1.18491 | Schnabel, E., A. Karve, T. Kassaw, A. Mukherjee, X. Zhou, T. Hall and J. Frugoli | The M. truncatula SUNN gene is expressed in vascular tissue, similarly to RDN1, consistent with the role of these nodulation regulation genes in long distance signaling | Plant Signaling & Behavior | 7(1) 4–6 |
| 2012 | 10.1094/MPMI-09-11-0253 | Weston, D. J., D. A. Pelletier, J. L. Morrell-Falvey, T. J. Tschaplinski, S. S. Jawdy, et al. | Pseudomonas fluorescens induces strain-dependent and strain-independent host plant responses in defense networks, primary metabolism, photosynthesis, and fitness | Molecular Plant-Microbe Interactions | 25(6) 765–78 |
| 2012 | 10.1007/s12155-012-9197-z | Sattler, S. E., N. A. Palmer, A. Saballos, A. M. Greene, Z. G. Xin, G. Sarath, W. Vermerris and J. F. Pedersen | Identification and Characterization of Four Missense Mutations in Brown midrib 12 (Bmr12), the Caffeic O-Methyltranferase (COMT) of Sorghum | BioEnergy Research | 5(4) 855–65 |
| 2012 | 10.1038/ismej.2011.200 | Woebken, D., L. C. Burow, L. Prufert-Bebout, B. M. Bebout, T. M. Hoehler, J. Pett-Ridge, A. M. Spormann, P. K. Weber and S. W. Singer | Identification of a novel cyanobacterial group as active diazotrophs in a coastal microbial mat using NanoSIMS analysis | The ISME Journal | 6(7) 1427–39 |
| 2012 | 10.1093/molbev/msr224 | Nguyen, T. A., J. Brescic, D. J. Vinyard, T. Chandrasekar and G. C. Dismukes | Identification of an oxygenic reaction center psbADC operon in the cyanobacterium Gloeobacter violaceus PCC 7421 | Molecular Biology and Evolution | 29(1) 35–8 |
| 2012 | 10.1155/2012/873589 | Rohlin, L., D. R. Leon, U. Kim, J. A. Loo, R. R. Ogorzalek Loo and R. P. Gunsalus | Identification of the major expressed S-layer and cell surface-layer-related proteins in the model methanogenic archaea: Methanosarcina barkeri Fusaro and Methanosarcina acetivorans C2A | Archaea | 2012 873589 |
| 2012 | 10.1111/j.1469-8137.2012.04087.x | Johnson, D., F. Martin, J. W. G. Cairney and I. C. Anderson | The importance of individuals: intraspecific diversity of mycorrhizal plants and fungi in ecosystems | New Phytologist | 194(3) 614–28 |
| 2012 | 10.1038/ismej.2011.147 | Luo, C., D. Tsementzi, N. C. Kyrpides and K. T. Konstantinidis | Individual genome assembly from complex community short-read metagenomic datasets | The ISME Journal | 6(4) 898–901 |
| 2012 | 10.1073/pnas.1201731109 | Bertrand, E. M., A. E. Allen, C. L. Dupont, T. M. Norden-Krichmar, J. Bai, R. E. Valas and M. A. Saito | Influence of cobalamin scarcity on diatom molecular physiology and identification of a cobalamin acquisition protein | Proceedings of the National Academy of Sciences of the United States of America | 109(26) E1762–71 |
| 2012 | 10.1038/ismej.2012.48 | Reith, F., J. Brugger, C. M. Zammit, A. L. Gregg, K. C. Goldfarb, G. L. Andersen, T. Z. DeSantis, Y. M. Piceno, E. L. Brodie, Z. Lu, Z. He, J. Zhou and S. A. Wakelin | Influence of geogenic factors on microbial communities in metallogenic Australian soils | The ISME Journal | 6(11) 2107–18 |
| 2012 | 10.1038/ismej.2011.201 | Zeigler Allen, L., E. E. Allen, J. H. Badger, J. P. McCrow, I. T. Paulsen, L. D. Elbourne, M. Thiagarajan, D. B. Rusch, K. H. Nealson, S. J. Williamson, J. C. Venter and A. E. Allen | Influence of nutrients and currents on the genomic composition of microbes across an upwelling mosaic | The ISME Journal | 6(7) 1403–14 |
| 2012 | 10.1016/j.biombioe.2011.12.036 | Garlock, R. J., B. Bals, P. Jasrotia, V. Balan and B. E. Dale | Influence of variable species composition on the saccharification of AFEX™ pretreated biomass from unmanaged fields in comparison to corn stover | Biomass and Bioenergy | 37 49-59 |
| 2012 | 10.3389/fmicb.2012.00375 | Bertrand, E. M. and A. E. Allen | Influence of vitamin B auxotrophy on nitrogen metabolism in eukaryotic phytoplankton | Frontiers in Microbiology | 3 375 |
| 2012 | 10.1111/j.1469-8137.2012.04288.x | Karve, A. A., S. S. Jawdy, L. E. Gunter, S. M. Allen, X. Yang, G. A. Tuskan, S. D. Wullschleger and D. J. Weston | Initial characterization of shade avoidance response suggests functional diversity between Populus phytochrome B genes | New Phytologist | 196(3) 726–37 |
| 2012 | 10.1016/j.biombioe.2012.01.037 | Nikièma, P., D. E. Rothstein and R. O. Miller | Initial greenhouse gas emissions and nitrogen leaching losses associated with converting pastureland to short-rotation woody bioenergy crops in northern Michigan, USA | Biomass and Bioenergy | 39 413-426 |
| 2012 | 10.1007/s10533-011-9636-5 | Treseder, K. K., T. C. Balser, M. A. Bradford, E. L. Brodie, E. A. Dubinsky, V. T. Eviner, K. S. Hofmockel, J. T. Lennon, U. Y. Levine, B. J. MacGregor, J. Pett-Ridge and M. P. Waldrop | Integrating microbial ecology into ecosystem models: challenges and priorities | Biogeochemistry | 109(1–3) 7–18 |
| 2012 | 10.1021/jp310345j | Pan, J., X. Cheng, F. A. Heberle, B. Mostofian, N. Kucerka, P. Drazba and J. Katsaras | Interactions between ether phospholipids and cholesterol as determined by scattering and molecular dynamics simulations | Journal of Physical Chemistry B | 116(51) 14829–38 |
| 2012 | 10.1111/j.1365-2486.2012.02651.x | Xu, X., S. L. Niu, R. A. Sherry, X. H. Zhou, J. Z. Zhou and Y. Q. Luo | Interannual variability in responses of belowground net primary productivity (NPP) and NPP partitioning to long-term warming and clipping in a tallgrass prairie | Global Change Biology | 18(5) 1648–56 |
| 2012 | 10.1128/AEM.01946-12 | Rotaru, A. E., P. M. Shrestha, F. Liu, T. Ueki, K. Nevin, Z. M. Summers and D. R. Lovley | Interspecies electron transfer via hydrogen and formate rather than direct electrical connections in cocultures of Pelobacter carbinolicus and Geobacter sulfurreducens | Applied and Environmental Microbiology | 78(21) 7645–51 |
| 2012 | 10.1074/jbc.M111.305839 | Wang, H. L., X. Cheng and S. M. Sine | Intramembrane proton binding site linked to activation of bacterial pentameric ion channel | Journal of Biological Chemistry | 287(9) 6482–9 |
| 2012 | 10.1088/0031-9155/57/22/7355 | Komarov, S., Y. Yin, H. Wu, J. Wen, H. Krawczynski, L. J. Meng and Y. C. Tai | Investigation of the limitations of the highly pixilated CdZnTe detector for PET applications | Physics in Medicine and Biology | 57(22) 7355–80 |
| 2012 | 10.1093/ajae/aar142 | Miao, R., D. A. Hennessy and B. A. Babcock | Investment in cellulosic biofuel refineries: Do waivable biofuel mandates matter? | American Journal of Agricultural Economics | 94(3) 750-762 |
| 2012 | 10.1016/j.tplants.2012.02.005 | Fernie, A. R., T. Obata, A. E. Allen, W. L. Araujo and C. Bowler | Leveraging metabolomics for functional investigations in sequenced marine diatoms | Trends in Plant Science | 17(7) 395–403 |
| 2012 | 10.1016/B978-0-12-416023-1.00002-1 | Wagner, A., L. Donaldson and J. Ralph | Lignification and lignin manipulations in conifers | Advances in Botanical Research | 61 37-76 |
| 2012 | 10.1111/j.1365-313X.2011.04868.x | Horn, P. J. and K. D. Chapman | Lipidomics in tissues, cells and subcellular compartments | The Plant Journal | 70(1) 69–80 |
| 2012 | 10.1002/cssc.201100734 | Liu, Y. and D. R. Bond | Long-distance electron transfer by G. sulfurreducens biofilms results in accumulation of reduced c-type cytochromes | ChemSusChem | 5(6) 1047–53 |
| 2012 | 10.1007/s11104-012-1265-9 | Xu, X., R. A. Sherry, S. L. Niu, J. Z. Zhou and Y. Q. Luo | Long-term experimental warming decreased labile soil organic carbon in a tallgrass prairie | Plant and Soil | 361(1–2) 307–15 |
| 2012 | 10.1093/nar/gks751 | Lajoie, M. J., C. J. Gregg, J. A. Mosberg, G. C. Washington and G. M. Church | Manipulating replisome dynamics to enhance lambda Red-mediated multiplex genome engineering | Nucleic Acids Research | 40(22) e170 |
| 2012 | 10.1016/j.jprot.2012.03.017 | Lanni, E. J., S. S. Rubakhin and J. V. Sweedler | Mass spectrometry imaging and profiling of single cells | Journal of Proteomics | 75(16) 5036–51 |
| 2012 | 10.1016/j.copbio.2011.10.003 | Kontur, W. S., D. R. Noguera and T. J. Donohue | Maximizing reductant flow into microbial H2 production | Current Opinion in Biotechnology | 23(3) 382–9 |
| 2012 | 10.1093/nar/gkr1014 | Caspi, R., T. Altman, K. Dreher, C. A. Fulcher, P. Subhraveti, et al. | The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases | Nucleic Acids Research | 40(D1) D742–53 |
| 2012 | 10.1038/ismej.2012.10 | Aylward, F. O., K. E. Burnum, J. J. Scott, G. Suen, S. G. Tringe, et al. | Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens | ISME Journal | 6(9) 1688-1701 |
| 2012 | 10.1371/journal.pone.0042047 | Williamson, S. J., L. Z. Allen, H. A. Lorenzi, D. W. Fadrosh, D. Brami, M. Thiagarajan, J. P. McCrow, A. Tovchigrechko, S. Yooseph and J. C. Venter | Metagenomic exploration of viruses throughout the Indian Ocean | PLoS One | 7(10) e42047 |
| 2012 | 10.1002/bit.24569 | Noor-Mohammadi, S., A. Pourmir and T. W. Johannes | Method to assemble and integrate biochemical pathways into the chloroplast genome of Chlamydomonas reinhardtii | Biotechnology and Bioengineering | 109(11) 2896–903 |
| 2012 | 10.1038/Nclimate1331 | Zhou, J. Z., K. Xue, J. P. Xie, Y. Deng, L. Y. Wu, X. H. Cheng, S. F. Fei, S. P. Deng, Z. L. He, J. D. Van Nostrand and Y. Q. Luo | Microbial mediation of carbon-cycle feedbacks to climate warming | Nature Climate Change | 2(2) 106–10 |
| 2012 | 10.1002/stem.1005 | Klempin, F., R. A. Marr and D. A. Peterson | Modification of pax6 and olig2 expression in adult hippocampal neurogenesis selectively induces stem cell fate and alters both neuronal and glial populations | Stem Cells | 30(3) 500–9 |
| 2012 | 10.1007/978-1-62703-050-2_11 | Cheng, X. and I. Ivanov | Molecular Dynamics | Computational Toxicology | 929 243–85 |
| 2012 | 10.1186/1471-2105-13-113 | Deng, Y., Y. H. Jiang, Y. Yang, Z. He, F. Luo and J. Zhou | Molecular ecological network analyses | BMC Bioinformatics | 13 113 |
| 2012 | 10.1002/ep.10628 | Sangha, A. K., L. Petridis, J. C. Smith, A. Ziebell and J. M. Parks | Molecular simulation as a tool for studying lignin | Environmental Progress & Sustainable Energy | 31(1) 47–54 |
| 2012 | 10.1039/9781849735049-00087 | Cheng, X., J. M. Parks, L. Petridis, B. Lindner, R. Schulz, H.-B. Guo, G. Srinivas and J. C. Smith | Molecular Simulation in the Energy Biosciences | Innovations in Biomolecular Modeling and Simulations | 1 87–114 |
| 2012 | 10.1063/1.4765337 | Lian, M., C. P. Collier, M. J. Doktycz and S. T. Retterer | Monodisperse alginate microgel formation in a three-dimensional microfluidic droplet generator | Biomicrofluidics | 6(4) 44108 |
| 2012 | 10.1371/journal.pone.0039128 | Urbina, H. and M. Blackwell | Multilocus phylogenetic study of the Scheffersomyces yeast clade and characterization of the N-terminal region of xylose reductase gene | PLoS One | 7(6) e39128 |
| 2012 | 10.1007/978-1-61779-827-6_13 | Pett-Ridge, J. and P. K. Weber | NanoSIP: NanoSIMS Applications for Microbial Biology | Microbial Systems Biology: Methods and Protocols | 375–408 |
| 2012 | 10.1063/1.4730658 | Guo, H. | Narrowing the Gap in Understanding Protein Structure and Function through Computer Simulations | AIP Conference Proceedings | 1456(1) 180–6 |
| 2012 | 10.1016/j.jbiotec.2011.12.001 | Brune, I., S. Götker, J. Schneider, D. A. Rodionov and A. Tauch | Negative transcriptional control of biotin metabolism genes by the TetR-type regulator BioQ in biotin-auxotrophic Corynebacterium glutamicum ATCC 13032 | Journal of Biotechnology | 159(3) 225-234 |
| 2012 | 10.1126/science.1216861 | Nam, H., N. E. Lewis, J. A. Lerman, D. H. Lee, R. L. Chang, D. Kim and B. O. Palsson | Network context and selection in the evolution to enzyme specificity | Science | 337(6098) 1101–4 |
| 2012 | 10.1089/ind.2012.0012 | Langan, P., B. R. Evans, M. Foston, W. T. Heller, H. O'Neill, L. Petridis, S. V. Pingali, A. J. Ragauskas, J. C. Smith, V. S. Urban and B. H. Davison | Neutron Technologies for Bioenergy Research | Industrial Biotechnology | 8(4) 209–16 |
| 2012 | 10.1080/10448632.2012.695714 | Merzel, F., M. R. Johnson and J. C. Smith | Normal modes and neutrons: defining collective, functional biomolecular motions | Neutron News | 23(3) 26–30 |
| 2012 | 10.1128/AEM.02214-12 | Al-Hinai, M. A., A. G. Fast and E. T. Papoutsakis | Novel system for efficient isolation of Clostridium double-crossover allelic exchange mutants enabling markerless chromosomal gene deletions and DNA integration | Applied and Environmental Microbiology | 78(22) 8112–21 |
| 2012 | 10.1111/j.1462-2920.2011.02518.x | Jansson, J. K., J. D. Neufeld, M. A. Moran and J. A. Gilbert | Omics for understanding microbial functional dynamics | Environmental Microbiology | 14(1) 1–3 |
| 2012 | 10.1002/cssc.201100748 | Bond, D. R., S. M. Strycharz-Glaven, L. M. Tender and C. I. Torres | On electron transport through Geobacter biofilms | ChemSusChem | 5(6) 1099–105 |
| 2012 | 10.1093/mp/ssr098 | Wang, H. Z. and R. A. Dixon | On-off switches for secondary cell wall biosynthesis | Molecular Plant | 5(2) 297-303 |
| 2012 | 10.1002/rcm.6194 | Horn, P. J., U. Joshi, A. K. Behrendt, K. D. Chapman and G. F. Verbeck | On-stage liquid-phase lipid microextraction coupled to nanospray mass spectrometry for detailed, nano-scale lipid analysis | Rapid Communications in Mass Spectrometry | 26(8) 957–62 |
| 2012 | 10.1371/journal.pone.0047399 | Xu, B., N. Sathitsuksanoh, Y. Tang, M. K. Udvardi, J. Y. Zhang, Z. Shen, M. Balota, K. Harich, P. Y. Zhang and B. Zhao | Overexpression of AtLOV1 in Switchgrass alters plant architecture, lignin content, and flowering time | PLoS One | 7(12) e47399 |
| 2012 | 10.1021/bm3004836 | McRae, S., X. Chen, K. Kratz, D. Samanta, E. Henchey, S. Schneider and T. Emrick | Pentafluorophenyl ester-functionalized phosphorylcholine polymers: preparation of linear, two-arm, and grafted polymer-protein conjugates | Biomacromolecules | 13(7) 2099–109 |
| 2012 | 10.1111/j.1462-2920.2011.02560.x | Hodkinson, B. P., N. R. Gottel, C. W. Schadt and F. Lutzoni | Photoautotrophic symbiont and geography are major factors affecting highly structured and diverse bacterial communities in the lichen microbiome | Environmental Microbiology | 14(1) 147–61 |
| 2012 | 10.1016/j.fgb.2012.01.002 | Plett, J. M., J. Gibon, A. Kohler, K. Duffy, P. J. Hoegger, R. Velagapudi, J. Han, U. Kues, I. V. Grigoriev and F. Martin | Phylogenetic, genomic organization and expression analysis of hydrophobin genes in the ectomycorrhizal basidiomycete Laccaria bicolor | Fungal Genetics and Biology | 49(3) 199–209 |
| 2012 | 10.1105/tpc.112.096586 | Hu, J., A. Baker, B. Bartel, N. Linka, R. T. Mullen, S. Reumann and B. K. Zolman | Plant peroxisomes: biogenesis and function | The Plant Cell | 24(6) 2279–303 |
| 2012 | 10.1021/bc200667s | Chen, X., S. S. Parelkar, E. Henchey, S. Schneider and T. Emrick | PolyMPC-doxorubicin prodrugs | Bioconjugate Chemistry | 23(9) 1753–63 |
| 2012 | 10.1073/pnas.1201700109 | Wu, Y., X. Li, W. Xiang, C. Zhu, Z. Lin, et al. | Presence of tannins in sorghum grains is conditioned by different natural alleles of Tannin1 | Proceedings of the National Academy of Sciences of the United States of America | 109(26) 10281–6 |
| 2012 | 10.1039/c2ee22459c | Liu, F. H., A. E. Rotaru, P. M. Shrestha, N. S. Malvankar, K. P. Nevin and D. R. Lovley | Promoting direct interspecies electron transfer with activated carbon | Energy & Environmental Science | 5(10) 8982–9 |
| 2012 | 10.1093/nar/gkr1022 | Kelly, L., K. H. Huang, H. Ding and S. W. Chisholm | ProPortal: a resource for integrated systems biology of Prochlorococcus and its phage | Nucleic Acids Research | 40(D1) D632–40 |
| 2012 | 10.1371/journal.pone.0037674 | Chu, Y., J. Yao and H. Guo | QM/MM MD and free energy simulations of G9a-like protein (GLP) and its mutants: understanding the factors that determine the product specificity | PLoS One | 7(5) e37674 |
| 2012 | 10.1007/s00253-012-3968-5 | Haft, R. J. F., J. G. Gardner and D. H. Keating | Quantitative colorimetric measurement of cellulose degradation under microbial culture conditions | Applied Microbiology and Biotechnology | 94(1) 223-229 |
| 2012 | 10.1016/j.biortech.2012.01.154 | Jin, M., V. Balan, C. Gunawan and B. E. Dale | Quantitatively understanding reduced xylose fermentation performance in AFEX TM treated corn stover hydrolysate using Saccharomyces cerevisiae 424A (LNH-ST) and Escherichia coli KO11 | Bioresource Technology | 111 294-300 |
| 2012 | 10.1021/jp2122449 | Sangha, A. K., J. M. Parks, R. F. Standaert, A. Ziebell, M. Davis and J. C. Smith | Radical coupling reactions in lignin synthesis: a density functional theory study | Journal of Physical Chemistry B | 116(16) 4760–8 |
| 2012 | 10.1021/bm300460f | Glass, D. C., K. Moritsugu, X. Cheng and J. C. Smith | REACH coarse-grained simulation of a cellulose fiber | Biomacromolecules | 13(9) 2634–44 |
| 2012 | 10.1016/j.jcat.2012.03.014 | O'Neill, B. J., E. I. Gürbüz and J. A. Dumesic | Reaction kinetics studies of the conversions of formic acid and butyl formate over carbon-supported palladium in the liquid phase | Journal of Catalysis | 290 193-201 |
| 2012 | 10.1111/j.1365-2958.2012.08130.x | Burgos, R., G. E. Wood, L. Young, J. I. Glass and P. A. Totten | RecA mediates MgpB and MgpC phase and antigenic variation in Mycoplasma genitalium, but plays a minor role in DNA repair | Molecular Microbiology | 85(4) 669–83 |
| 2012 | 10.1186/1471-2164-13-437 | Zhu, M., X. Deng, T. Joshi, D. Xu, G. Stacey and J. Cheng | Reconstructing differentially co-expressed gene modules and regulatory networks of soybean cells | BMC Genomics | 13 437 |
| 2012 | 10.1371/journal.pone.0048285 | Saha, R., A. T. Verseput, B. M. Berla, T. J. Mueller, H. B. Pakrasi and C. D. Maranas | Reconstruction and comparison of the metabolic potential of cyanobacteria Cyanothece sp. ATCC 51142 and Synechocystis sp. PCC 6803 | PLoS One | 7(10) e48285 |
| 2012 | 10.1021/jp2104853 | Krishnan, M. and J. C. Smith | Reconstruction of protein side-chain conformational free energy surfaces from NMR-derived methyl axis order parameters | Journal of Physical Chemistry B | 116(14) 4124–33 |
| 2012 | 10.1038/nbt.2196 | Bennetzen, J. L., J. Schmutz, H. Wang, R. Percifield, J. Hawkins, et al. | Reference genome sequence of the model plant Setaria | Nature Biotechnology | 30(6) 555–61 |
| 2012 | 10.1016/j.molcel.2012.07.013 | Xu, Y. F., X. Zhao, D. S. Glass, F. Absalan, D. H. Perlman, J. R. Broach and J. D. Rabinowitz | Regulation of yeast pyruvate kinase by ultrasensitive allostery independent of phosphorylation | Molecular Cell | 48(1) 52–62 |
| 2012 | 10.1016/j.bpj.2012.06.040 | Ulmschneider, J. P., J. C. Smith, M. B. Ulmschneider, A. S. Ulrich and E. Strandberg | Reorientation and dimerization of the membrane-bound antimicrobial peptide PGLa from microsecond all-atom MD simulations | Biophysical Journal | 103(3) 472–82 |
| 2012 | 10.1016/j.copbio.2011.12.005 | Ashworth, J., E. J. Wurtmann and N. S. Baliga | Reverse engineering systems models of regulation: discovery, prediction and mechanisms | Current Opinion in Biotechnology | 23(4) 598–603 |
| 2012 | 10.1128/JB.01214-12 | Kontur, W. S., W. S. Schackwitz, N. Ivanova, J. Martin, K. Labutti, S. Deshpande, H. N. Tice, C. Pennacchio, E. Sodergren, G. M. Weinstock, D. R. Noguera and T. J. Donohue | Revised sequence and annotation of the Rhodobacter sphaeroides 2.4.1 genome | Journal of Bacteriology | 194(24) 7016–7 |
| 2012 | 10.1093/mp/sss032 | Jensen, J. K., A. Schultink, K. Keegstra, C. G. Wilkerson and M. Pauly | RNA-seq analysis of developing nasturtium seeds (Tropaeolum majus): Identification and characterization of an additional galactosyltransferase involved in xyloglucan biosynthesis | Molecular Plant | 5(5) 984-992 |
| 2012 | 10.1038/nrmicro2763 | Zengler, K. and B. O. Palsson | A road map for the development of community systems (CoSy) biology | Nature Reviews Microbiology | 10(5) 366–72 |
| 2012 | 10.1016/j.cpc.2012.02.010 | Lindner, B. and J. C. Smith | Sassena — X-ray and neutron scattering calculated from molecular dynamics trajectories using massively parallel computers | Computer Physics Communications | 183(7) 1491–501 |
| 2012 | 10.1021/pr200895f | Vincent, D., A. Kohler, S. Claverol, E. Solier, J. Joets, J. Gibon, M. H. Lebrun, C. Plomion and F. Martin | Secretome of the free-living mycelium from the ectomycorrhizal basidiomycete Laccaria bicolor | Journal of Proteome Research | 11(1) 157–71 |
| 2012 | 10.1371/journal.pone.0048053 | Aziz, R. K., S. Devoid, T. Disz, R. A. Edwards, C. S. Henry, G. J. Olsen, R. Olson, R. Overbeek, B. Parrello, G. D. Pusch, R. L. Stevens, V. Vonstein and F. Xia | SEED Servers: High-Performance Access to the SEED Genomes, Annotations, and Metabolic Models | PLoS ONE | 7(10) |
| 2012 | 10.2135/cropsci2011.04.0192 | Qian, J. Y., G. Q. Jia, H. Zhi, W. Li, Y. F. Wang, H. Q. Li, Z. L. Shang, A. N. Doust and X. M. Diao | Sensitivity to Gibberellin of Dwarf Foxtail Millet Varieties | Crop Science | 52(3) 1068–75 |
| 2012 | 10.1007/s12127-011-0083-8 | Xu, J., F. Han and H. Li | Separation principle and Monte Carlo studies for differential mobility spectrometry | International Journal for Ion Mobility Spectrometry | 15(3) 91-98 |
| 2012 | 10.1104/pp.112.204164 | Berim, A., D. C. Hyatt and D. R. Gang | A set of regioselective O-methyltransferases gives rise to the complex pattern of methoxylated flavones in sweet basil | Plant Physiology | 160(2) 1052–69 |
| 2012 | 10.1016/B978-0-12-394423-8.00001-9 | Dufour, Y. S. and T. J. Donohue | Signal correlations in ecological niches can shape the organization and evolution of bacterial gene regulatory networks | Advances in Microbial Physiology | 61 1–36 |
| 2012 | 10.1016/j.biortech.2012.01.150 | Jin, M., C. Gunawan, V. Balan, M. W. Lau and B. E. Dale | Simultaneous saccharification and co-fermentation (SSCF) of AFEX™ pretreated corn stover for ethanol production using commercial enzymes and Saccharomyces cerevisiae 424A(LNH-ST) | Bioresource Technology | 110 587-594 |
| 2012 | 10.1109/Tnano.2012.2186823 | Koorie, M. A., Y. Khopkar, H. F. Ji and S. R. Zivanovic | Single Mesowire Transistor From Perylene Tetracarboxylic Diimide | IEEE Transactions on Nanotechnology | 11(3) 448–50 |
| 2012 | 10.1371/journal.pone.0044112 | Ersoz, E. S., M. H. Wright, J. L. Pangilinan, M. J. Sheehan, C. Tobias, M. D. Casler, E. S. Buckler and D. E. Costich | SNP discovery with EST and NextGen sequencing in switchgrass (Panicum virgatum L.) | PLoS One | 7(9) e44112 |
| 2012 | 10.1016/j.agee.2012.08.011 | Sanford, G. R., J. L. Posner, R. D. Jackson, C. J. Kucharik, J. L. Hedtcke and T. L. Lin | Soil carbon lost from Mollisols of the North Central U.S.A. with 20 years of agricultural best management practices | Agriculture, Ecosystems and Environment | 162 68-76 |
| 2012 | 10.1016/j.apsoil.2011.11.015 | Liang, C., E. D. C. Jesus, D. S. Duncan, R. D. Jackson, J. M. Tiedje and T. C. Balser | Soil microbial communities under model biofuel cropping systems in southern Wisconsin, USA: Impact of crop species and soil properties | Applied Soil Ecology | 54 24-31 |
| 2012 | 10.1021/bi300557y | Johnson, Q. R., R. B. Nellas and T. Shen | Solvent-dependent gating motions of an extremophilic lipase from Pseudomonas aeruginosa | Biochemistry | 51(31) 6238–45 |
| 2012 | 10.1186/1471-2164-13-S1-S15 | Joshi, T., K. Patil, M. R. Fitzpatrick, L. D. Franklin, Q. Yao, et al. | Soybean Knowledge Base (SoyKB): a web resource for soybean translational genomics | BMC Genomics | 13(Supplement 1) S15 |
| 2012 | 10.1105/tpc.111.094581 | Horn, P. J., A. R. Korte, P. B. Neogi, E. Love, J. Fuchs, K. Strupat, L. Borisjuk, V. Shulaev, Y. J. Lee and K. D. Chapman | Spatial mapping of lipids at cellular resolution in embryos of cotton | The Plant Cell | 24(2) 622–36 |
| 2012 | 10.1002/jcc.22993 | Berezniak, T., A. Jaschke, J. C. Smith and P. Imhof | Stereoselection in the Diels-Alderase ribozyme: a molecular dynamics study | Journal of Computational Chemistry | 33(19) 1603–14 |
| 2012 | 10.1186/1754-6834-5-38 | Li, M., C. Foster, S. Kelkar, Y. Pu, D. Holmes, A. Ragauskas, C. M. Saffron and D. B. Hodge | Structural characterization of alkaline hydrogen peroxide pretreated grasses exhibiting diverse lignin phenotypes | Biotechnology for Biofuels | 5 |
| 2012 | 10.1016/j.sbi.2012.02.005 | McLaughlin, L. S., R. J. F. Haft and K. T. Forest | Structural insights into the Type II secretion nanomachine | Current Opinion in Structural Biology | 22(2) 208-216 |
| 2012 | 10.1073/pnas.1120595109 | Arbing, M. A., S. Chan, A. Shin, T. Phan, C. J. Ahn, L. Rohlin and R. P. Gunsalus | Structure of the surface layer of the methanogenic archaean Methanosarcina acetivorans | Proceedings of the National Academy of Sciences of the United States of America | 109(29) 11812–7 |
| 2012 | 10.1166/jnn.2012.5713 | Gong, Z., Y. H. Tseng, Y. He and L. Que | Studies of self-reciprocating characteristic of carbon nanotube film-based cantilevers under light and thermal radiation | Journal of Nanoscience and Nanotechnology | 12(1) 350–5 |
| 2012 | 10.1016/j.fuel.2012.03.049 | Rothamer, D. A. and J. H. Jennings | Study of the knocking propensity of 2,5-dimethylfuran-gasoline and ethanol-gasoline blends | Fuel | 98 203-212 |
| 2012 | 10.1103/PhysRevLett.108.238102 | Hong, L., X. Cheng, D. C. Glass and J. C. Smith | Surface hydration amplifies single-well protein atom diffusion propagating into the macromolecular core | Physical Review Letters | 108(23) 238102 |
| 2012 | 10.1117/12.970325 | Zivanovic, S., A. Thapa, M. Koorie, S. Animilli, A. Gunasekaran, J. Melancon and D. Genov | Surface Plasmon Enhanced P3HT: PCBM Photovoltaic Devices | Next Generation (Nano) Photonic and Cell Technologies for Solar Energy Conversion III | 8471 |
| 2012 | 10.1093/mp/sss054 | Baker, R. F., K. A. Leach and D. M. Braun | SWEET as sugar: new sucrose effluxers in plants | Molecular Plant | 5(4) 766–8 |
| 2012 | 10.1353/pbm.2012.0040 | Glass, J. I. | Synthetic genomics and the construction of a synthetic bacterial cell | Perspectives in Biology and Medicine | 55(4) 473–89 |
| 2012 | 10.1016/j.copbio.2012.01.014 | Montague, M. G., C. Lartigue and S. Vashee | Synthetic genomics: potential and limitations | Current Opinion in Biotechnology | 23(5) 659–65 |
| 2012 | 10.1016/j.ijhydene.2012.05.100 | Jiao, Y. Q., A. Navid, B. J. Stewart, J. B. McKinlay, M. P. Thelen and J. Pett-Ridge | Syntrophic metabolism of a co-culture containing Clostridium cellulolyticum and Rhodopseudomonas palustris for hydrogen production | International Journal of Hydrogen Energy | 37(16) 11719–26 |
| 2012 | 10.1074/jbc.M112.352104 | Crosby, H. A., D. A. Pelletier, G. B. Hurst and J. C. Escalante-Semerena | System-wide studies of N-lysine acetylation in Rhodopseudomonas palustris reveal substrate specificity of protein acetyltransferases | Journal of Biological Chemistry | 287(19) 15590–601 |
| 2012 | 10.1021/pr200748h | Li, Z., R. M. Adams, K. Chourey, G. B. Hurst, R. L. Hettich and C. Pan | Systematic comparison of label-free, metabolic labeling, and isobaric chemical labeling for quantitative proteomics on LTQ Orbitrap Velos | Journal of Proteome Research | 11(3) 1582–90 |
| 2012 | 10.1021/ja3097898 | Miao, Y., Z. Yi, D. C. Glass, L. Hong, M. Tyagi, J. Baudry, N. Jain and J. C. Smith | Temperature-dependent dynamical transitions of different classes of amino acid residue in a globular protein | Journal of the American Chemical Society | 134(48) 19576–9 |
| 2012 | 10.1371/journal.pcbi.1002781 | Collins, S. B., E. Reznik and D. Segre | Temporal expression-based analysis of metabolism | PLoS Computational Biology | 8(11) e1002781 |
| 2012 | 10.1007/978-3-642-33823-6_21 | Martin, F. and G. Bonito | Ten Years of Genomics for Ectomycorrhizal Fungi: What Have We Achieved and Where Are We Heading? | Edible Ectomycorrhizal Mushrooms | 34 383–401 |
| 2012 | 10.1021/jp3084293 | Guo, H. B., F. He, B. Gu, L. Liang and J. C. Smith | Time-dependent density functional theory assessment of UV absorption of benzoic acid derivatives | Journal of Physical Chemistry A | 116(48) 11870–9 |
| 2012 | 10.1002/bit.23335 | Zeng, M., E. Ximenes, M. R. Ladisch, N. S. Mosier, W. Vermerris, C. P. Huang and D. M. Sherman | Tissue-specific biomass recalcitrance in corn stover pretreated with liquid hot-water: SEM imaging (part 2) | Biotechnology and Bioengineering | 109(2) 398–404 |
| 2012 | 10.1371/journal.pone.0044467 | Frost, C. J., B. Nyamdari, C. J. Tsai and S. A. Harding | The tonoplast-localized sucrose transporter in Populus (PtaSUT4) regulates whole-plant water relations, responses to water stress, and photosynthesis | PLoS One | 7(8) e44467 |
| 2012 | 10.1128/JB.01243-12 | Brown, S. D., S. M. Utturkar, D. M. Klingeman, C. M. Johnson, S. L. Martin, M. L. Land, T. Y. Lu, C. W. Schadt, M. J. Doktycz and D. A. Pelletier | Twenty-one genome sequences from Pseudomonas species and 19 genome sequences from diverse bacteria isolated from the rhizosphere and endosphere of Populus deltoides | Journal of Bacteriology | 194(21) 5991–3 |
| 2012 | 10.1038/nchembio.941 | Xu, Y. F., D. Amador-Noguez, M. L. Reaves, X. J. Feng and J. D. Rabinowitz | Ultrasensitive regulation of anapleurosis via allosteric activation of PEP carboxylase | Nature Chemical Biology | 8(6) 562–8 |
| 2012 | 10.1021/ci200364m | Yao, J., Y. Chu, R. An and H. Guo | Understanding product specificity of protein lysine methyltransferases from QM/MM molecular dynamics and free energy simulations: the effects of mutation on SET7/9 beyond the Tyr/Phe switch | Journal of Chemical Information and Modeling | 52(2) 449–56 |
| 2012 | 10.1016/j.bpj.2011.11.4028 | Voltz, K., J. Trylska, N. Calimet, J. C. Smith and J. Langowski | Unwrapping of nucleosomal DNA ends: a multiscale molecular dynamics study | Biophysical Journal | 102(4) 849–58 |
| 2012 | 10.1371/journal.pone.0032491 | Lan, Y., Q. Wang, J. R. Cole and G. L. Rosen | Using the RDP classifier to predict taxonomic novelty and reduce the search space for finding novel organisms | PLoS One | 7(3) e32491 |
| 2012 | 10.1007/s10858-011-9576-3 | Brothers, M. C., A. E. Nesbitt, M. J. Hallock, S. G. Rupasinghe, M. Tang, J. Harris, J. Baudry, M. A. Schuler and C. M. Rienstra | VITAL NMR: using chemical shift derived secondary structure information for a limited set of amino acids to assess homology model accuracy | Journal of Biomolecular NMR | 52(1) 41–56 |
| 2012 | 10.1038/nprot.2012.064 | Mansfield, S. D., H. Kim, F. Lu and J. Ralph | Whole plant cell wall characterization using solution-state 2D NMR | Nature Protocols | 7(9) 1579-1589 |
| 2012 | 10.1186/1471-2164-13-499 | Shrestha, R. P., B. Tesson, T. Norden-Krichmar, S. Federowicz, M. Hildebrand and A. E. Allen | Whole transcriptome analysis of the silicon response of the diatom Thalassiosira pseudonana | BMC Genomics | 13 499 |
| 2012 | 10.1016/j.cell.2012.05.044 | Karr, J. R., J. C. Sanghvi, D. N. Macklin, M. V. Gutschow, J. M. Jacobs, B. Bolival, Jr., N. Assad-Garcia, J. I. Glass and M. W. Covert | A whole-cell computational model predicts phenotype from genotype | Cell | 150(2) 389–401 |
| 2011 | 10.1111/j.1744-7909.2011.01044.x | Guo, J., X. Yang, D. J. Weston and J. G. Chen | Abscisic acid receptors: past, present and future | Journal of Integrative Plant Biology | 53(6) 469–79 |
| 2011 | 10.1007/s10533-010-9525-3 | Liang, C., G. Cheng, D. L. Wixon and T. C. Balser | An Absorbing Markov Chain approach to understanding the microbial role in soil carbon stabilization | Biogeochemistry | 106(3) 303-309 |
| 2011 | 10.1007/s00203-010-0652-y | Laguna, R., F. R. Tabita and B. E. Alber | Acetate-dependent photoheterotrophic growth and the differential requirement for the Calvin-Benson-Bassham reductive pentose phosphate cycle in Rhodobacter sphaeroides and Rhodopseudomonas palustris | Archives of Microbiology | 193(2) 151-154 |
| 2011 | 10.1016/j.bpj.2011.08.020 | Miao, Y. and J. Baudry | Active-site hydration and water diffusion in cytochrome P450cam: a highly dynamic process | Biophysical Journal | 101(6) 1493–503 |
| 2011 | 10.1128/JB.01479-10 | Hirakawa, H., Y. Oda, S. Phattarasukol, C. D. Armour, J. C. Castle, C. K. Raymond, C. R. Lappala, A. L. Schaefer, C. S. Harwood and E. P. Greenberg | Activity of the Rhodopseudomonas palustris p-coumaroyl-homoserine lactone-responsive transcription factor RpaR | Journal of Bacteriology | 193(10) 2598–607 |
| 2011 | 10.1002/wsbm.136 | Brooks, A. N., S. Turkarslan, K. D. Beer, F. Y. Lo and N. S. Baliga | Adaptation of cells to new environments | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 3(5) 544–61 |
| 2011 | 10.1109/TMI.2010.2064173 | Zhou, J. and J. Qi | Adaptive imaging for lesion detection using a zoom-in PET system | IEEE Transactions on Medical Imaging | 30(1) 119–30 |
| 2011 | 10.1038/ismej.2011.40 | Levine, U. Y., T. K. Teal, G. P. Robertson and T. M. Schmidt | Agriculture's impact on microbial diversity and associated fluxes of carbon dioxide and methane | ISME Journal | 5(10) 1683-1691 |
| 2011 | 10.1186/1754-6834-4-16 | Banerjee, G., S. Car, J. S. Scott-Craig, D. B. Hodge and J. D. Walton | Alkaline peroxide pretreatment of corn stover: Effects of biomass, peroxide, and enzyme loading and composition on yields of glucose and xylose | Biotechnology for Biofuels | 4 |
| 2011 | 10.3390/life1010019 | House, C. H., E. J. Beal and V. J. Orphan | The Apparent Involvement of ANMEs in Mineral Dependent Methane Oxidation, as an Analog for Possible Martian Methanotrophy | Life | 1(1) 19–33 |
| 2011 | 10.1111/j.1365-313X.2011.04508.x | Zhao, C., A. Hanada, S. Yamaguchi, Y. Kamiya and E. P. Beers | The Arabidopsis Myb genes MYR1 and MYR2 are redundant negative regulators of flowering time under decreased light intensity | The Plant Journal | 66(3) 502–15 |
| 2011 | 10.1021/bk-2010-1052.ch003 | Petridis, L., J. Xu, M. F. Crowley, J. C. Smith and X. Cheng | Atomistic Simulation of Lignocellulosic Biomass and Associated Cellulosomal Protein Complexes | Computational Modeling in Lignocellulosic Biofuel Production | 1052 55–73 |
| 2011 | 10.1073/pnas.1101591108 | Burke, C., P. Steinberg, D. Rusch, S. Kjelleberg and T. Thomas | Bacterial community assembly based on functional genes rather than species | Proceedings of the National Academy of Sciences of the United States of America | 108(34) 14288–93 |
| 2011 | 10.3791/2880 | Allison, D. P., C. J. Sullivan, N. P. Mortensen, S. T. Retterer and M. Doktycz | Bacterial immobilization for imaging by atomic force microscopy | Journal of Visualized Experiments | (54) e2880 |
| 2011 | 10.1007/s00253-011-3344-x | Hoover, S. W., W. D. Marner, A. K. Brownson, R. M. Lennen, T. M. Wittkopp, J. Yoshitani, S. Zulkifly, L. E. Graham, S. D. Chaston, K. D. McMahon and B. F. Pfleger | Bacterial production of free fatty acids from freshwater macroalgal cellulose | Applied Microbiology and Biotechnology | 91(2) 435-446 |
| 2011 | 10.1126/science.1197258 | Wolfe-Simon, F., J. Switzer Blum, T. R. Kulp, G. W. Gordon, S. E. Hoeft, J. Pett-Ridge, J. F. Stolz, S. M. Webb, P. K. Weber, P. C. Davies, A. D. Anbar and R. S. Oremland | A bacterium that can grow by using arsenic instead of phosphorus | Science | 332(6034) 1163–6 |
| 2011 | 10.1016/j.biombioe.2011.09.010 | Egbendewe-Mondzozo, A., S. M. Swinton, C. R. Izaurralde, D. H. Manowitz and X. Zhang | Biomass supply from alternative cellulosic crops and crop residues: A spatially explicit bioeconomic modeling approach | Biomass and Bioenergy | 35(11) 4636-4647 |
| 2011 | 10.1016/j.tig.2010.10.005 | Plett, J. M. and F. Martin | Blurred boundaries: lifestyle lessons from ectomycorrhizal fungal genomes | Trends in Genetics | 27(1) 14–22 |
| 2011 | 10.1104/pp.111.179531 | Brkljacic, J., E. Grotewold, R. Scholl, T. Mockler, D. F. Garvin, et al. | Brachypodium as a model for the grasses: today and the future | Plant Physiology | 157(1) 3–13 |
| 2011 | 10.1128/EC.00016-11 | Pomraning, K. R., K. M. Smith and M. Freitag | Bulk segregant analysis followed by high-throughput sequencing reveals the Neurospora cell cycle gene, ndc-1, to be allelic with the gene for ornithine decarboxylase, spe-1 | Eukaryotic Cell | 10(6) 724–33 |
| 2011 | 10.1128/mBio.00323-10 | McKinlay, J. B. and C. S. Harwood | Calvin cycle flux, pathway constraints, and substrate oxidation state together determine the H2 biofuel yield in photoheterotrophic bacteria | mBio | 2(2) |
| 2011 | 10.1038/ismej.2011.14 | Adams, A. S., M. S. Jordan, S. M. Adams, G. Suen, L. A. Goodwin, K. W. Davenport, C. R. Currie and K. F. Raffa | Cellulose-degrading bacteria associated with the invasive woodwasp Sirex noctilio | ISME Journal | 5(8) 1323-1331 |
| 2011 | 10.1016/j.ymben.2010.10.002 | Alonso, A. P., D. L. Val and Y. Shachar-Hill | Central metabolic fluxes in the endosperm of developing maize seeds and their implications for metabolic engineering | Metabolic Engineering | 13(1) 96-107 |
| 2011 | 10.1128/JB.00325-11 | Reaves, M. L. and J. D. Rabinowitz | Characteristic phenotypes associated with ptsN-null mutants in Escherichia coli K-12 are absent in strains with functional ilvG | Journal of Bacteriology | 193(18) 4576–81 |
| 2011 | 10.1111/j.1574-6968.2010.02156.x | Edwards, A. N., P. Siuti, A. N. Bible, G. Alexandre, S. T. Retterer, M. J. Doktycz and J. L. Morrell-Falvey | Characterization of cell surface and extracellular matrix remodeling of Azospirillum brasilense chemotaxis-like 1 signal transduction pathway mutants by atomic force microscopy | FEMS Microbiology Letters | 314(2) 131–9 |
| 2011 | 10.1111/j.1365-313X.2011.04686.x | Sorensen, I., F. A. Pettolino, A. Bacic, J. Ralph, F. Lu, M. A. O'Neill, Z. Fei, J. K. Rose, D. S. Domozych and W. G. Willats | The charophycean green algae provide insights into the early origins of plant cell walls | The Plant Journal | 68(2) 201–11 |
| 2011 | 10.1021/jp1122294 | Xu, Q., J. Yao, A. Wlodawer and H. Guo | Clarification of the mechanism of acylation reaction and origin of substrate specificity of the serine-carboxyl peptidase sedolisin through QM/MM free energy simulations | Journal of Physical Chemistry B | 115(10) 2470–6 |
| 2011 | 10.1007/s00253-011-3121-x | Newcomb, M., J. Millen, C. Y. Chen and J. H. Wu | Co-transcription of the celC gene cluster in Clostridium thermocellum | Applied Microbiology and Biotechnology | 90(2) 625–34 |
| 2011 | 10.1021/bi201008f | Hu, X., A. L. Norris, J. Baudry and E. H. Serpersu | Coenzyme A binding to the aminoglycoside acetyltransferase (3)-IIIb increases conformational sampling of antibiotic binding site | Biochemistry | 50(48) 10559–65 |
| 2011 | 10.1073/pnas.1106212108 | Murphy, R. L., R. R. Klein, D. T. Morishige, J. A. Brady, W. L. Rooney, F. R. Miller, D. V. Dugas, P. E. Klein and J. E. Mullet | Coincident light and clock regulation of pseudoresponse regulator protein 37 (PRR37) controls photoperiodic flowering in sorghum | Proceedings of the National Academy of Sciences of the United States of America | 108(39) 16469–74 |
| 2011 | 10.1109/Tns.2011.2163190 | Rozler, M. and W. Chang | Collimator Interchange System for Adaptive Cardiac Imaging in C-SPECT | IEEE Transactions on Nuclear Science | 58(5) 2226–33 |
| 2011 | 10.1186/1471-2105-12-20 | Yok, N. G. and G. L. Rosen | Combining gene prediction methods to improve metagenomic gene annotation | BMC Bioinformatics | 12 20 |
| 2011 | 10.1186/gb-2011-12-7-r62 | Chen, P. Y., S. Feng, J. W. J. Joo, S. E. Jacobsen and M. Pellegrini | A comparative analysis of DNA methylation across human embryonic stem cell lines | Genome Biology | 12(7) |
| 2011 | 10.1016/j.enzmictec.2011.04.009 | Kapich, A. N., T. V. Korneichik, K. E. Hammel and A. Hatakka | Comparative evaluation of manganese peroxidase- and Mn(III)-initiated peroxidation of C18 unsaturated fatty acids by different methods | Enzyme and Microbial Technology | 49(1) 25-29 |
| 2011 | 10.1186/1471-2164-12-S1-S3 | Rodionov, D. A., P. S. Novichkov, E. D. Stavrovskaya, I. A. Rodionova, X. Li, et al. | Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus | BMC Genomics | 12(SUPPL. 1) |
| 2011 | 10.1371/journal.pone.0025260 | Malone, B. M., F. Tan, S. M. Bridges and Z. Peng | Comparison of four ChIP-Seq analytical algorithms using rice endosperm H3K27 trimethylation profiling data | PLoS One | 6(9) e25260 |
| 2011 | 10.1038/ismej.2010.164 | Burke, C., T. Thomas, M. Lewis, P. Steinberg and S. Kjelleberg | Composition, uniqueness and variability of the epiphytic bacterial community of the green alga Ulva australis | The ISME Journal | 5(4) 590–600 |
| 2011 | 10.1103/PhysRevE.83.021902 | Neusius, T., I. Daidone, I. M. Sokolov and J. C. Smith | Configurational subdiffusion of peptides: a network study | Physical Review E | 83(2) 021902 |
| 2011 | 10.1128/AEM.00612-11 | Carrieri, D., G. Ananyev, O. Lenz, D. A. Bryant and G. C. Dismukes | Contribution of a sodium ion gradient to energy conservation during fermentation in the cyanobacterium Arthrospira (Spirulina) maxima CS-328 | Applied and Environmental Microbiology | 77(20) 7185–94 |
| 2011 | 10.1016/j.enzmictec.2010.09.006 | Ximenes, E., Y. Kim, N. Mosier, B. Dien and M. Ladisch | Deactivation of cellulases by phenols | Enzyme and Microbial Technology | 48(1) 54–60 |
| 2011 | 10.1515/Hf.2011.028 | Yelle, D. J., J. Ralph and C. R. Frihart | Delineating pMDI model reactions with loblolly pine via solution-state NMR spectroscopy. Part 1. Catalyzed reactions with wood models and wood polymers | Holzforschung | 65(2) 131–43 |
| 2011 | 10.1515/HF.2011.029 | Yelle, D. J., J. Ralph and C. R. Frihart | Delineating pMDI model reactions with loblolly pine via solution-state NMR spectroscopy. Part 2. Non-catalyzed reactions with the wood cell wall | Holzforschung | 65(2) 145-154 |
| 2011 | 10.1103/PhysRevA.83.013623 | Levine, G. C., B. A. Friedman and M. J. Bantegui | Detecting many-body entanglement in noninteracting ultracold atomic Fermi gases | Physical Review A | 83(1) |
| 2011 | 10.1007/s11783-011-0301-y | He, Z. L., J. D. Van Nostrand, Y. Deng and J. Z. Zhou | Development and applications of functional gene microarrays in the analysis of the functional diversity, composition, and structure of microbial communities | Frontiers of Environmental Science & Engineering in China | 5(1) 1–20 |
| 2011 | 10.1002/jssc.201100533 | Yang, S., R. E. Synovec, M. G. Kalyuzhnaya and M. E. Lidstrom | Development of a solid phase extraction protocol coupled with liquid chromatography mass spectrometry to analyze central carbon metabolites in lake sediment microcosms | Journal of Separation Science | 34(24) 3597–605 |
| 2011 | 10.1016/j.jala.2010.08.005 | Donath Ii, M. J., M. A. Dominguez and S. T. Withers Iii | Development of an automated platform for high-throughput P1-phage transduction of Escherichia coli | Journal of Laboratory Automation | 16(2) 141-147 |
| 2011 | 10.1155/2011/495849 | Rosen, G. L., R. Polikar, D. A. Caseiro, S. D. Essinger and B. A. Sokhansanj | Discovering the unknown: improving detection of novel species and genera from short reads | Journal of Biomedicine and Biotechnology | 2011 495849 |
| 2011 | 10.1101/gr.109280.110 | Yang, X., T. J. Tschaplinski, G. B. Hurst, S. Jawdy, P. E. Abraham, P. K. Lankford, R. M. Adams, M. B. Shah, R. L. Hettich, E. Lindquist, U. C. Kalluri, L. E. Gunter, C. Pennacchio and G. A. Tuskan | Discovery and annotation of small proteins using genomics, proteomics, and computational approaches | Genome Research | 21(4) 634–41 |
| 2011 | Takasuka, T. E., A. J. Brook, C. R. Currie and B. G. Fox | Discovery and characterization of cellulolytic enzymes from the wood wasp symbiont Streptomyces Sp. ActE | Catalysis and Reaction Engineering Division - Core Programming Topic at the 2011 AIChE Annual Meeting | 2 716 | |
| 2011 | 10.1128/AEM.05255-11 | Gottel, N. R., H. F. Castro, M. Kerley, Z. Yang, D. A. Pelletier, M. Podar, T. Karpinets, E. Uberbacher, G. A. Tuskan, R. Vilgalys, M. J. Doktycz and C. W. Schadt | Distinct microbial communities within the endosphere and rhizosphere of Populus deltoides roots across contrasting soil types | Applied and Environmental Microbiology | 77(17) 5934–44 |
| 2011 | 10.1073/pnas.1004646108 | Noe, F., S. Doose, I. Daidone, M. Lollmann, M. Sauer, J. D. Chodera and J. C. Smith | Dynamical fingerprints for probing individual relaxation processes in biomolecular dynamics with simulations and kinetic experiments | Proceedings of the National Academy of Sciences of the United States of America | 108(12) 4822–7 |
| 2011 | 10.1016/j.agee.2011.01.005 | Bhardwaj, A. K., P. Jasrotia, S. K. Hamilton and G. P. Robertson | Ecological management of intensively cropped agro-ecosystems improves soil quality with sustained productivity | Agriculture, Ecosystems and Environment | 140(45355) 419-429 |
| 2011 | 10.1016/j.copbio.2011.04.018 | Klitgord, N. and D. Segrè | Ecosystems biology of microbial metabolism | Current Opinion in Biotechnology | 22(4) 541-546 |
| 2011 | 10.1016/j.biortech.2010.10.042 | Burrows, E. H., F. W. Chaplen and R. L. Ely | Effects of selected electron transport chain inhibitors on 24-h hydrogen production by Synechocystis sp. PCC 6803 | Bioresource Technology | 102(3) 3062–70 |
| 2011 | 10.1137/100789191 | Prinz, J.-H., M. Held, J. C. Smith and F. Noé | Efficient Computation, Sensitivity, and Error Analysis of Committor Probabilities for Complex Dynamical Processes | Multiscale Modeling and Simulation | 9(2) 545–67 |
| 2011 | 10.1038/nbt.1775 | Zhang, F., L. Cong, S. Lodato, S. Kosuri, G. M. Church and P. Arlotta | Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription | Nature Biotechnology | 29(2) 149–53 |
| 2011 | 10.1186/gb-2011-12-5-r44 | Miller, C. S., B. J. Baker, B. C. Thomas, S. W. Singer and J. F. Banfield | EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data | Genome Biology | 12(5) R44 |
| 2011 | 10.3390/info2010017 | Lee, C. | Empirical information metrics for prediction power and experiment planning | Information (Switzerland) | 2(1) 17-40 |
| 2011 | 10.1088/1367-2630/13/5/055006 | Friedman, B. A., G. C. Levine and D. Luna | Entanglement entropy of random fractional quantum Hall systems | New Journal of Physics | 13 055006 |
| 2011 | 10.1016/j.tcb.2011.07.005 | Juhas, M., L. Eberl and J. I. Glass | Essence of life: essential genes of minimal genomes | Trends in Cell Biology | 21(10) 562–8 |
| 2011 | 10.1016/j.biortech.2010.08.058 | Bals, B., C. Wedding, V. Balan, E. Sendich and B. Dale | Evaluating the impact of ammonia fiber expansion (AFEX) pretreatment conditions on the cost of ethanol production | Bioresource Technology | 102(2) 1277-1283 |
| 2011 | 10.1007/s11295-011-0431-1 | Ye, X., S. Yuan, H. Guo, F. Chen, G. A. Tuskan and Z.-M. Cheng | Evolution and divergence in the coding and promoter regions of the Populus gene family encoding xyloglucan endotransglycosylase/hydrolases | Tree Genetics & Genomes | 8(1) 177–94 |
| 2011 | 10.1016/j.virusres.2011.05.010 | Malmstrom, C. M., U. Melcher and N. A. Bosque-Pérez | The expanding field of plant virus ecology: Historical foundations, knowledge gaps, and research directions | Virus Research | 159(2) 84-94 |
| 2011 | 10.1088/0031-9155/56/17/N01 | Qi, J., Y. Yang, J. Zhou, Y. Wu and S. R. Cherry | Experimental assessment of resolution improvement of a zoom-in PET | Physics in Medicine and Biology | 56(17) N165–74 |
| 2011 | 10.1016/j.jhydrol.2011.09.002 | Zhang, X., F. Liang, B. Yu and Z. Zong | Explicitly integrating parameter, input, and structure uncertainties into Bayesian Neural Networks for probabilistic hydrologic forecasting | Journal of Hydrology | 409(45355) 696-709 |
| 2011 | 10.1111/j.1365-313X.2011.04520.x | Chen, F., D. Tholl, J. Bohlmann and E. Pichersky | The family of terpene synthases in plants: a mid-size family of genes for specialized metabolism that is highly diversified throughout the kingdom | The Plant Journal | 66(1) 212–29 |
| 2011 | 10.1088/0031-9155/56/20/015 | Zhou, J. and J. Qi | Fast and efficient fully 3D PET image reconstruction using sparse system matrix factorization with GPU acceleration | Physics in Medicine and Biology | 56(20) 6739–57 |
| 2011 | 10.1117/12.878799 | Zhou, J. and J. Y. Qi | Fast iterative image reconstruction using sparse matrix factorization with GPU acceleration | Medical Imaging 2011: Physics of Medical Imaging | 7961 |
| 2011 | 10.1186/1471-2180-11-64 | Cruz-García, C., A. E. Murray, J. L. M. Rodrigues, J. A. Gralnick, L. A. McCue, M. F. Romine, F. E. Löffler and J. M. Tiedje | Fnr (EtrA) acts as a fine-tuning regulator of anaerobic metabolism in Shewanella oneidensis MR-1 | BMC Microbiology | 11 |
| 2011 | 10.1007/s12010-010-9070-5 | Brumm, P., D. Mead, J. Boyum, C. Drinkwater, K. Gowda, D. Stevenson and P. Weimer | Functional annotation of Fibrobacter succinogenes S85 carbohydrate active enzymes | Applied Biochemistry and Biotechnology | 163(5) 649-657 |
| 2011 | 10.1371/journal.pone.0022196 | Childs, K. L., R. M. Davidson and C. R. Buell | Gene coexpression network analysis as a source of functional annotation for rice genes | PLoS One | 6(7) e22196 |
| 2011 | 10.1104/pp.110.165654 | Jahn, C. E., J. K. McKay, R. Mauleon, J. Stephens, K. L. McNally, D. R. Bush, H. Leung and J. E. Leach | Genetic variation in biomass traits among 20 diverse rice varieties | Plant Physiology | 155(1) 157–68 |
| 2011 | 10.1128/JB.05380-11 | Svenning, M. M., A. G. Hestnes, I. Wartiainen, L. Y. Stein, M. G. Klotz, et al. | Genome sequence of the Arctic methanotroph Methylobacter tundripaludum SV96 | Journal of Bacteriology | 193(22) 6418–9 |
| 2011 | 10.1128/JB.00278-11 | Stein, L. Y., F. Bringel, A. A. DiSpirito, S. Han, M. S. Jetten, et al. | Genome sequence of the methanotrophic alphaproteobacterium Methylocystis sp. strain Rockwell (ATCC 49242) | Journal of Bacteriology | 193(10) 2668–9 |
| 2011 | 10.1186/1471-2164-12-S1-S4 | Ghamsari, L., S. Balaji, Y. Shen, X. Yang, D. Balcha, C. Fan, T. Hao, H. Yu, J. A. Papin and K. Salehi-Ashtiani | Genome-wide functional annotation and structural verification of metabolic ORFeome of Chlamydomonas reinhardtii | BMC Genomics | 12(Supplement 1) S4 |
| 2011 | 10.1016/B978-0-12-387661-4.00004-5 | Lovley, D. R., T. Ueki, T. Zhang, N. S. Malvankar, P. M. Shrestha, et al. | Geobacter: the microbe electric's physiology, ecology, and practical applications | Advances in Microbial Physiology | 59 1–100 |
| 2011 | 10.1128/JB.05999-11 | Christman, H. D., E. L. Campbell and J. C. Meeks | Global transcription profiles of the nitrogen stress response resulting in heterocyst or hormogonium development in Nostoc punctiforme | Journal of Bacteriology | 193(24) 6874–86 |
| 2011 | 10.1128/AEM.00032-11 | Gladden, J. M., M. Allgaier, C. S. Miller, T. C. Hazen, J. S. VanderGheynst, P. Hugenholtz, B. A. Simmons and S. W. Singer | Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass | Applied and Environmental Microbiology | 77(16) 5804–12 |
| 2011 | 10.1007/s00214-011-1054-1 | Bondar, A.-N., M. Knapp-Mohammady, S. Suhai, S. Fischer and J. C. Smith | Ground-state properties of the retinal molecule: from quantum mechanical to classical mechanical computations of retinal proteins | Theoretical Chemistry Accounts | 130(4–6) 1169–83 |
| 2011 | 10.1016/B978-0-12-385112-3.00006-8 | Leigh, J. A. | Growth of methanogens under defined hydrogen conditions | Methods in Enzymology | 494 111-118 |
| 2011 | 10.1186/1754-6834-4-5 | Gao, D., N. Uppugundla, S. P. S. Chundawat, X. Yu, S. Hermanson, K. Gowda, P. Brumm, D. Mead, V. Balan and B. E. Dale | Hemicellulases and auxiliary enzymes for improved conversion of lignocellulosic biomass to monosaccharides | Biotechnology for Biofuels | 4 |
| 2011 | 10.1145/1996023.1996028 | Ellingson, S. R. and J. Baudry | High-throughput virtual molecular docking: Hadoop implementation of AutoDock4 on a private cloud | Proceedings of the Second International Workshop on Emerging Computational Methods for the Life Sciences | 33–8 |
| 2011 | 10.1016/j.enpol.2011.05.039 | Swinton, S. M., B. A. Babcock, L. K. James and V. Bandaru | Higher US crop prices trigger little area expansion so marginal land for biofuel crops is limited | Energy Policy | 39(9) 5254-5258 |
| 2011 | 10.1021/bi2004476 | Li, T., W. G. Choi, I. S. Wallace, J. Baudry and D. M. Roberts | Arabidopsis thaliana NIP7;1: an anther-specific boric acid transporter of the aquaporin superfamily regulated by an unusual tyrosine in helix 2 of the transport pore | Biochemistry | 50(31) 6633–41 |
| 2011 | 10.1371/journal.pgen.1002430 | Wisniewski-Dye, F., K. Borziak, G. Khalsa-Moyers, G. Alexandre, L. O. Sukharnikov, et al. | Azospirillum genomes reveal transition of bacteria from aquatic to terrestrial environments | PLoS Genetics | 7(12) e1002430 |
| 2011 | 10.1016/B978-0-12-381294-0.00012-2 | Dekas, A. E. and V. J. Orphan | Identification of diazotrophic microorganisms in marine sediment via fluorescence in situ hybridization coupled to nanoscale secondary ion mass spectrometry (FISH-NanoSIMS) | Methods in Enzymology | 486 281–305 |
| 2011 | 10.4208/cicp.160410.200910a | Xu, Z., W. Cai and X. Cheng | Image Charge Method for Reaction Fields in a Hybrid Ion-Channel Model | Communications in Computational Physics | 9(4) 1056–70 |
| 2011 | 10.1186/1471-2164-12-S1-S6 | Bowen, B. P., C. R. Fischer, R. Baran, J. F. Banfield and T. Northen | Improved genome annotation through untargeted detection of pathway-specific metabolites | BMC Genomics | 12(Supplement 1) S6 |
| 2011 | 10.1021/ja204042f | Ulmschneider, J. P., J. C. Smith, S. H. White and M. B. Ulmschneider | In silico partitioning and transmembrane insertion of hydrophobic peptides under equilibrium conditions | Journal of the American Chemical Society | 133(39) 15487–95 |
| 2011 | 10.1103/PhysRevLett.107.267801 | Godec, A., J. C. Smith and F. Merzel | Increase of both order and disorder in the first hydration shell with increasing solute polarity | Physical Review Letters | 107(26) 267801 |
| 2011 | 10.1105/tpc.110.081547 | Weng, J. K., T. Akiyama, J. Ralph and C. Chapple | Independent recruitment of an O-methyltransferase for syringyl lignin biosynthesis in Selaginella moellendorffii | The Plant Cell | 23(7) 2708–24 |
| 2011 | 10.1016/j.biocontrol.2011.06.014 | Werling, B. P., T. D. Meehan, C. Gratton and D. A. Landis | Influence of habitat and landscape perenniality on insect natural enemies in three candidate biofuel crops | Biological Control | 59(2) 304-312 |
| 2011 | 10.1016/j.biortech.2011.04.005 | Li, C., G. Cheng, V. Balan, M. S. Kent, M. Ong, S. P. S. Chundawat, L. D. Sousa, Y. B. Melnichenko, B. E. Dale, B. A. Simmons and S. Singh | Influence of physico-chemical changes on enzymatic digestibility of ionic liquid and AFEX pretreated corn stover | Bioresource Technology | 102(13) 6928-6936 |
| 2011 | 10.1016/j.compbiolchem.2011.04.007 | Garbarine, E., J. DePasquale, V. Gadia, R. Polikar and G. Rosen | Information-theoretic approaches to SVM feature selection for metagenome read classification | Computational Biology and Chemistry | 35(3) 199–209 |
| 2011 | 10.1534/g3.111.000364 | Zhu, C., X. Li and J. Yu | Integrating Rare-Variant Testing, Function Prediction, and Gene Network in Composite Resequencing-Based Genome-Wide Association Studies (CR-GWAS) | G3 Genes|Genomes|Genetics | 1(3) 233–43 |
| 2011 | 10.2174/97816080521961110101 | Smith, J. C., M. Krishnan, L. Petridis and N. Smolin | Integration of Neutron Scattering with Computer Simulation to Study the Structure and Dynamics of Biological Systems | Dynamics of Biological Macromolecules by Neutron Scattering | 99–108 |
| 2011 | 10.1117/1.3594090 | Petrovic, J. P., P. S. Matavulj, L. R. Pinto and S. R. Zivanovic | Interplay of device structure and intrinsic polymer photophysics and its effects on the ITO/PEDOT:PSS/MEH-PPV/Al photocurrent spectra | Journal of Nanophotonics | 5(1) 051808 |
| 2011 | 10.1063/1.3518450 | Wang, S., T. Shen and P. G. Wolynes | The interplay of nonlinearity and architecture in equilibrium cytoskeletal mechanics | Journal of Chemical Physics | 134(1) 014510 |
| 2011 | 10.1016/j.mimet.2011.05.007 | Liang, C., X. Zhang, L. Wei, H. He, A. J. Higbee and T. C. Balser | Investigation of the molecular ion structure for aldononitrile acetate derivatized muramic acid | Journal of Microbiological Methods | 86(2) 224-230 |
| 2011 | 10.1016/j.bpj.2010.11.077 | Fritsch, S., I. Ivanov, H. Wang and X. Cheng | Ion selectivity mechanism in a bacterial pentameric ligand-gated ion channel | Biophysical Journal | 100(2) 390–8 |
| 2011 | 10.1186/1752-0509-5-116 | Imam, S., S. Yilmaz, U. Sohmen, A. S. Gorzalski, J. L. Reed, D. R. Noguera and T. J. Donohue | iRsp1095: a genome-scale reconstruction of the Rhodobacter sphaeroides metabolic network | BMC Systems Biology | 5 116 |
| 2011 | 10.1186/1472-6750-11-54 | Lutz, K. A., W. Wang, A. Zdepski and T. P. Michael | Isolation and analysis of high quality nuclear DNA with reduced organellar DNA for plant genome sequencing and resequencing | BMC Biotechnology | 11 |
| 2011 | 10.1039/c1ee02229f | Lovley, D. R. | Live wires: direct extracellular electron exchange for bioenergy and the bioremediation of energy-related contamination | Energy & Environmental Science | 4(12) 4896–906 |
| 2011 | 10.1128/AEM.01733-10 | Yilmaz, L. S., S. Parnerkar and D. R. Noguera | mathFISH, a web tool that uses thermodynamics-based mathematical models for in silico evaluation of oligonucleotide probes for fluorescence in situ hybridization | Applied and Environmental Microbiology | 77(3) 1118–22 |
| 2011 | 10.1371/journal.pone.0028827 | Pan, C. | Measuring dissociation rate constants of protein complexes through subunit exchange: experimental design and theoretical modeling | PLoS One | 6(12) e28827 |
| 2011 | 10.1002/9783527636402.ch20 | Guo, H.-B., J. M. Parks, A. Johs and J. C. Smith | Mercury Detoxification by Bacteria Simulations of Transcription Activation and Mercury-Carbon Bond Cleavage | Modeling of Molecular Properties | 311–24 |
| 2011 | 10.1038/msb.2011.52 | Chang, R. L., L. Ghamsari, A. Manichaikul, E. F. Hom, S. Balaji, W. Fu, Y. Shen, T. Hao, B. O. Palsson, K. Salehi-Ashtiani and J. A. Papin | Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism | Molecular Systems Biology | 7 518 |
| 2011 | 10.1128/AEM.05374-11 | Amador-Noguez, D., I. A. Brasg, X. J. Feng, N. Roquet and J. D. Rabinowitz | Metabolome remodeling during the acidogenic-solventogenic transition in Clostridium acetobutylicum | Applied and Environmental Microbiology | 77(22) 7984–97 |
| 2011 | 10.1128/AEM.01834-10 | Wang, J., J. D. Van Nostrand, L. Wu, Z. He, G. Li and J. Zhou | Microarray-based evaluation of whole-community genome DNA amplification methods | Applied and Environmental Microbiology | 77(12) 4241–5 |
| 2011 | 10.1007/s12010-010-9029-6 | Brumm, P., S. Hermanson, B. Hochstein, J. Boyum, N. Hermersmann, K. Gowda and D. Mead | Mining Dictyoglomus turgidum for enzymatically active carbohydrases | Applied Biochemistry and Biotechnology | 163(2) 205-214 |
| 2011 | 10.1093/nar/gkq1091 | Pieper, U., B. M. Webb, D. T. Barkan, D. Schneidman-Duhovny, A. Schlessinger, et al. | ModBase, a database of annotated comparative protein structure models, and associated resources | Nucleic Acids Research | 39(Suppl_1) D465–74 |
| 2011 | 10.1073/pnas.1102444108 | Brown, S. D., A. M. Guss, T. V. Karpinets, J. M. Parks, N. Smolin, et al. | Mutant alcohol dehydrogenase leads to improved ethanol tolerance in Clostridium thermocellum | Proceedings of the National Academy of Sciences of the United States of America | 108(33) 13752–7 |
| 2011 | 10.1002/9781119949138.ch12 | Plett, J. M. and F. Martin | Mutualistic Effectors: Architects of Symbiosis | Effectors in Plant-Microbe Interactions | 295–326 |
| 2011 | 10.1016/j.pbi.2011.03.022 | Veneault-Fourrey, C. and F. Martin | Mutualistic interactions on a knife-edge between saprotrophy and pathogenesis | Current Opinion in Plant Biology | 14(4) 444–50 |
| 2011 | 10.1093/bioinformatics/btq619 | Rosen, G. L., E. R. Reichenberger and A. M. Rosenfeld | NBC: the Naive Bayes Classification tool webserver for taxonomic classification of metagenomic reads | Bioinformatics | 27(1) 127–9 |
| 2011 | 10.1016/B978-0-12-386489-5.00004-X | Myrold, D. D., J. Pett-Ridge and P. J. Bottomley | Nitrogen mineralization and assimilation at millimeter scales | Methods in Enzymology | 496 91–114 |
| 2011 | 10.1093/nar/gkr692 | Fujishima, K., J. Sugahara, C. S. Miller, B. J. Baker, M. Di Giulio, K. Takesue, A. Sato, M. Tomita, J. F. Banfield and A. Kanai | A novel three-unit tRNA splicing endonuclease found in ultrasmall Archaea possesses broad substrate specificity | Nucleic Acids Research | 39(22) 9695–704 |
| 2011 | 10.1186/1471-2164-12-S1-S7 | Chen, Y., E. Apolinario, L. Brachova, Z. Kelman, Z. Li, B. J. Nikolau, L. Showman, K. Sowers and J. Orban | A nuclear magnetic resonance based approach to accurate functional annotation of putative enzymes in the methanogen Methanosarcina acetivorans | BMC Genomics | 12(SUPPL. 1) |
| 2011 | 10.1016/j.enpol.2010.10.044 | Babcock, B. A., S. Marette and D. Tréguer | Opportunity for profitable investments in cellulosic biofuels | Energy Policy | 39(2) 714-719 |
| 2011 | 10.1063/1.3592153 | Prinz, J. H., J. D. Chodera, V. S. Pande, W. C. Swope, J. C. Smith and F. Noe | Optimal use of data in parallel tempering simulations for the construction of discrete-state Markov models of biomolecular dynamics | Journal of Chemical Physics | 134(24) 244108 |
| 2011 | 10.1016/j.soilbio.2010.04.017 | Williamson, K. E., J. Kan, S. W. Polson and S. J. Williamson | Optimizing the indirect extraction of prokaryotic DNA from soils | Soil Biology and Biochemistry | 43(4) 736–48 |
| 2011 | 10.1109/IEMBS.2011.6091087 | Essinger, S., R. Polikar and G. Rosen | Ordering samples along environmental gradients using particle swarm optimization | 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society | 2011 4382–5 |
| 2011 | 10.4161/psb.6.10.17133 | Horn, P. J. and K. D. Chapman | Organellar lipidomics | Plant Signaling & Behavior | 6(10) 1594–6 |
| 2011 | 10.1093/bib/bbr036 | Sjolander, K., R. S. Datta, Y. Shen and G. M. Shoffner | Ortholog identification in the presence of domain architecture rearrangement | Briefings in Bioinformatics | 12(5) 413–22 |
| 2011 | 10.1073/pnas.1113971108 | Chuck, G. S., C. Tobias, L. Sun, F. Kraemer, C. Li, D. Dibble, R. Arora, J. N. Bragg, J. P. Vogel, S. Singh, B. A. Simmons, M. Pauly and S. Hake | Overexpression of the maize Corngrass1 microRNA prevents flowering, improves digestibility, and increases starch content of switchgrass | Proceedings of the National Academy of Sciences of the United States of America | 108(42) 17550–5 |
| 2011 | 10.1101/gr.122218.111 | Yoon, S. H., D. J. Reiss, J. C. Bare, D. Tenenbaum, M. Pan, et al. | Parallel evolution of transcriptome architecture during genome reorganization | Genome Research | 21(11) 1892–904 |
| 2011 | 10.1128/AEM.05273-11 | Kontur, W. S., E. C. Ziegelhoffer, M. A. Spero, S. Imam, D. R. Noguera and T. J. Donohue | Pathways involved in reductant distribution during photobiological H2 production by Rhodobacter sphaeroides | Applied and Environmental Microbiology | 77(20) 7425–9 |
| 2011 | 10.1128/mBio.00122-11 | Zhou, J., Y. Deng, F. Luo, Z. He and Y. Yang | Phylogenetic molecular ecological network of soil microbial communities in response to elevated CO2 | mBio | 2(4) |
| 2011 | 10.1007/s10709-011-9597-6 | Zhang, Y., J. E. Zalapa, A. R. Jakubowski, D. L. Price, A. Acharya, Y. Wei, E. C. Brummer, S. M. Kaeppler and M. D. Casler | Post-glacial evolution of Panicum virgatum: Centers of diversity and gene pools revealed by SSR markers and cpDNA sequences | Genetica | 139(7) 933-948 |
| 2011 | 10.1007/s00248-010-9797-0 | Hulcr, J., A. S. Adams, K. Raffa, R. W. Hofstetter, K. D. Klepzig and C. R. Currie | Presence and Diversity of Streptomyces in Dendroctonus and Sympatric Bark Beetle Galleries Across North America | Microbial Ecology | 61(4) 759-768 |
| 2011 | 10.1103/PhysRevB.83.125118 | Levine, G. C. and B. A. Friedman | Projective approach to the entanglement entropy of one-dimensional fermions | Physical Review B | 83(12) |
| 2011 | 10.1371/journal.pone.0017906 | Wang, Z., X. C. Zhang, M. H. Le, D. Xu, G. Stacey and J. Cheng | A protein domain co-occurrence network approach for predicting protein function and inferring species phylogeny | PLoS One | 6(3) e17906 |
| 2011 | 10.1111/j.1462-2920.2011.02486.x | Mueller, R. S., B. D. Dill, C. Pan, C. P. Belnap, B. C. Thomas, N. C. VerBerkmoes, R. L. Hettich and J. F. Banfield | Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community | Environmental Microbiology | 13(8) 2279–92 |
| 2011 | 10.1021/jp1086812 | Yao, J., Q. Xu, F. Chen and H. Guo | QM/MM free energy simulations of salicylic acid methyltransferase: effects of stabilization of TS-like structures on substrate specificity | Journal of Physical Chemistry B | 115(2) 389–96 |
| 2011 | 10.1038/ismej.2010.200 | Belnap, C. P., C. Pan, V. J. Denef, N. F. Samatova, R. L. Hettich and J. F. Banfield | Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions | The ISME Journal | 5(7) 1152–61 |
| 2011 | 10.1074/mcp.M110.006049 | Pan, C., C. R. Fischer, D. Hyatt, B. P. Bowen, R. L. Hettich and J. F. Banfield | Quantitative tracking of isotope flows in proteomes of microbial communities | Molecular & Cellular Proteomics | 10(4) M110.006049 |
| 2011 | 10.1016/j.jchromb.2011.02.049 | Humpula, J. F., S. P. S. Chundawat, R. Vismeh, A. D. Jones, V. Balan and B. E. Dale | Rapid quantification of major reaction products formed during thermochemical pretreatment of lignocellulosic biomass using GC-MS | Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences | 879(13-14) 1018-1022 |
| 2011 | 10.1371/journal.ppat.1002209 | Gnanakaran, S., T. Bhattacharya, M. Daniels, B. F. Keele, P. T. Hraber, et al. | Recurrent signature patterns in HIV-1 B clade envelope glycoproteins associated with either early or chronic infections | PLoS Pathogens | 7(9) e1002209 |
| 2011 | 10.1002/btpr.506 | Rizk, M. L., R. Laguna, K. M. Smith, F. R. Tabita and J. C. Liao | Redox homeostasis phenotypes in RubisCO-deficient Rhodobacter sphaeroides via ensemble modeling | Biotechnology Progress | 27(1) 15–22 |
| 2011 | 10.1063/1.3660745 | Cantrell, S. A. and J. H. Cantrell | Renormalization, resonance bifurcation, and phase contrast in dynamic atomic force microscopy | Journal of Applied Physics | 110(9) |
| 2011 | 10.1038/ismej.2011.11 | Zhou, J., L. Wu, Y. Deng, X. Zhi, Y. H. Jiang, Q. Tu, J. Xie, J. D. Van Nostrand, Z. He and Y. Yang | Reproducibility and quantitation of amplicon sequencing-based detection | The ISME Journal | 5(8) 1303–13 |
| 2011 | 10.1063/1.3643077 | Hu, X., N. Elghobashi-Meinhardt, D. Gembris and J. C. Smith | Response of water to electric fields at temperatures below the glass transition: a molecular dynamics analysis | Journal of Chemical Physics | 135(13) 134507 |
| 2011 | 10.1186/1746-4811-7-24 | Gonzalez-Ballester, D., W. Pootakham, F. Mus, W. Yang, C. Catalanotti, L. Magneschi, A. De Montaigu, J. J. Higuera, M. Prior, A. Galván, E. Fernandez and A. R. Grossman | Reverse genetics in Chlamydomonas: A platform for isolating insertional mutants | Plant Methods | 7(1) |
| 2011 | 10.1093/bioinformatics/btr421 | Wei, D., L. V. Alpert and C. E. Lawrence | RNAG: A new gibbs sampler for predicting RNA secondary structure for unaligned sequences | Bioinformatics | 27(18) 2486-2493 |
| 2011 | 10.1371/journal.pcbi.1002279 | Biswas, M., K. Voltz, J. C. Smith and J. Langowski | Role of histone tails in structural stability of the nucleosome | PLoS Computational Biology | 7(12) e1002279 |
| 2011 | 10.1016/j.febslet.2011.07.036 | Zahran, M., T. Berezniak, P. Imhof and J. C. Smith | Role of magnesium ions in DNA recognition by the EcoRV restriction endonuclease | FEBS Letters | 585(17) 2739–43 |
| 2011 | 10.1016/j.cub.2011.05.033 | Plett, J. M., M. Kemppainen, S. D. Kale, A. Kohler, V. Legue, A. Brun, B. M. Tyler, A. G. Pardo and F. Martin | A secreted effector protein of Laccaria bicolor is required for symbiosis development | Current Biology | 21(14) 1197–203 |
| 2011 | 10.1103/PhysRevE.83.061911 | Petridis, L., S. V. Pingali, V. Urban, W. T. Heller, H. M. O'Neill, M. Foston, A. Ragauskas and J. C. Smith | Self-similar multiscale structure of lignin revealed by neutron scattering and molecular dynamics simulation | Physical Review E | 83(6) 061911 |
| 2011 | 10.1371/journal.pcbi.1002230 | Yelton, A. P., B. C. Thomas, S. L. Simmons, P. Wilmes, A. Zemla, M. P. Thelen, N. Justice and J. F. Banfield | A semi-quantitative, synteny-based method to improve functional predictions for hypothetical and poorly annotated bacterial and archaeal genes | PLoS Computational Biology | 7(10) e1002230 |
| 2011 | 10.3791/3146 | Fadrosh, D. W., C. Andrews-Pfannkoch and S. J. Williamson | Separation of single-stranded DNA, double-stranded DNA and RNA from an environmental viral community using hydroxyapatite chromatography | Journal of Visualized Experiments | (55) e3146 |
| 2011 | 10.1111/j.1469-8137.2011.03688.x | Martin, F., D. Cullen, D. Hibbett, A. Pisabarro, J. W. Spatafora, S. E. Baker and I. V. Grigoriev | Sequencing the fungal tree of life | New Phytologist | 190(4) 818–21 |
| 2011 | 10.1016/j.biortech.2010.10.033 | Rosenbaum, M. A., H. Y. Bar, Q. K. Beg, D. Segrè, J. Booth, M. A. Cotta and L. T. Angenent | Shewanella oneidensis in a lactate-fed pure-culture and a glucose-fed co-culture with Lactococcus lactis with an electrode as electron acceptor | Bioresource Technology | 102(3) 2623-2628 |
| 2011 | 10.1021/ja206839u | Petridis, L., R. Schulz and J. C. Smith | Simulation analysis of the temperature dependence of lignin structure and dynamics | Journal of the American Chemical Society | 133(50) 20277–87 |
| 2011 | 10.1371/journal.pone.0017722 | Allen, L. Z., T. Ishoey, M. A. Novotny, J. S. McLean, R. S. Lasken and S. J. Williamson | Single virus genomics: a new tool for virus discovery | PLoS One | 6(3) e17722 |
| 2011 | 10.1074/jbc.M111.263004 | Pingali, S. V., H. M. O'Neill, J. McGaughey, V. S. Urban, C. S. Rempe, L. Petridis, J. C. Smith, B. R. Evans and W. T. Heller | Small angle neutron scattering reveals pH-dependent conformational changes in Trichoderma reesei cellobiohydrolase I: implications for enzymatic activity | Journal of Biological Chemistry | 286(37) 32801–9 |
| 2011 | 10.1016/j.geoderma.2011.07.017 | Muñoz, J. D. and A. Kravchenko | Soil carbon mapping using on-the-go near infrared spectroscopy, topography and aerial photographs | Geoderma | 166(1) 102-110 |
| 2011 | 10.1016/j.enzmictec.2011.01.007 | Kim, Y., E. Ximenes, N. S. Mosier and M. R. Ladisch | Soluble inhibitors/deactivators of cellulase enzymes from lignocellulosic biomass | Enzyme and Microbial Technology | 48(4–5) 408–15 |
| 2011 | 10.1166/jbmb.2011.1131 | Lu, F. C. and J. Ralph | Solution-State NMR of Lignocellulosic Biomass | Journal of Biobased Materials and Bioenergy | 5(2) 169–80 |
| 2011 | 10.1007/s12539-011-0111-8 | Mostofian, B., J. C. Smith and X. Cheng | The solvation structures of cellulose microfibrils in ionic liquids | Interdisciplinary Sciences: Computational Life Sciences | 3(4) 308–20 |
| 2011 | 10.1021/ct200181t | Srinivas, G., X. Cheng and J. C. Smith | A Solvent-Free Coarse Grain Model for Crystalline and Amorphous Cellulose Fibrils | Journal of Chemical Theory and Computation | 7(8) 2539–48 |
| 2011 | 10.1021/bi102021p | Yao, J., R. B. Nellas, M. M. Glover and T. Shen | Stability and sugar recognition ability of ricin-like carbohydrate binding domains | Biochemistry | 50(19) 4097–104 |
| 2011 | 10.1016/j.tetlet.2011.05.038 | Zhu, Y. and J. Ralph | Stereoselective synthesis of 1-O-β-feruloyl and 1-O-β-sinapoyl glucopyranoses | Tetrahedron Letters | 52(29) 3729-3731 |
| 2011 | 10.1016/j.jmb.2011.08.042 | Johs, A., I. M. Harwood, J. M. Parks, R. E. Nauss, J. C. Smith, L. Liang and S. M. Miller | Structural characterization of intramolecular Hg2+ transfer between flexibly linked domains of mercuric ion reductase | Journal of Molecular Biology | 413(3) 639–56 |
| 2011 | 10.1002/prot.23017 | Splettstoesser, T., K. C. Holmes, F. Noe and J. C. Smith | Structural modeling and molecular dynamics simulation of the actin filament | Proteins | 79(7) 2033–43 |
| 2011 | 10.1371/journal.pcbi.1002137 | Thukral, L., I. Daidone and J. C. Smith | Structured pathway across the transition state for peptide folding revealed by molecular dynamics simulations | PLoS Computational Biology | 7(9) e1002137 |
| 2011 | 10.1007/s00294-010-0328-9 | Labbe, J., C. Murat, E. Morin, F. Le Tacon and F. Martin | Survey and analysis of simple sequence repeats in the Laccaria bicolor genome, with development of microsatellite markers | Current Genetics | 57(2) 75–88 |
| 2011 | 10.1021/bi200066k | Philip, V., J. Harris, R. Adams, D. Nguyen, J. Spiers, J. Baudry, E. E. Howell and R. J. Hinde | A survey of aspartate-phenylalanine and glutamate-phenylalanine interactions in the protein data bank: searching for anion-π pairs | Biochemistry | 50(14) 2939–50 |
| 2011 | 10.1111/j.1744-7909.2010.01020.x | Vermerris, W. | Survey of genomics approaches to improve bioenergy traits in maize, sorghum and sugarcane | Journal of Integrative Plant Biology | 53(2) 105–19 |
| 2011 | 10.1093/ajae/aar018 | Song, F., J. Zhao and S. M. Swinton | Switching to perennial energy crops under uncertainty and costly reversibility | American Journal of Agricultural Economics | 93(3) 764-779 |
| 2011 | 10.1007/978-1-61779-040-9_19 | Plett, J. M., B. Montanini, A. Kohler, S. Ottonello and F. Martin | Tapping genomics to unravel ectomycorrhizal symbiosis | Fungal Genomics | 722 249–81 |
| 2011 | 10.1002/jcc.21696 | Collignon, B., R. Schulz, J. C. Smith and J. Baudry | Task-parallel message passing interface implementation of Autodock4 for docking of very large databases of compounds using high-performance super-computers | Journal of Computational Chemistry | 32(6) 1202–9 |
| 2011 | 10.1007/s12010-010-9136-4 | Li, L., X. Jiang, H. Guan, P. Wang and H. Guo | Three alginate lyases from marine bacterium Pseudomonas fluorescens HZJ216: purification and characterization | Applied Biochemistry and Biotechnology | 164(3) 305–17 |
| 2011 | 10.1103/PhysRevLett.107.148102 | Hong, L., N. Smolin, B. Lindner, A. P. Sokolov and J. C. Smith | Three classes of motion in the dynamic neutron-scattering susceptibility of a globular protein | Physical Review Letters | 107(14) 148102 |
| 2011 | 10.1021/jp201887v | Hembree, W. I. and J. Baudry | Three-dimensional mapping of microenvironmental control of methyl rotational barriers | Journal of Physical Chemistry B | 115(26) 8575–80 |
| 2011 | 10.1063/1.3626274 | Klein, H. C., X. Cheng, J. C. Smith and T. Shen | Transfer matrix approach to the hydrogen-bonding in cellulose Iα fibrils describes the recalcitrance to thermal deconstruction | Journal of Chemical Physics | 135(8) 085106 |
| 2011 | 10.1063/1.3552945 | Xu, Z., X. Cheng and H. Yang | Treecode-based generalized Born method | Journal of Chemical Physics | 134(6) 064107 |
| 2011 | 10.1134/S0021364011120083 | Kagan, M. Y., D. V. Efremov, M. S. Marienko and V. V. Val'kov | Triplet p-Wave Superconductivity in the Low-Density Extended Hubbard Model with Coulomb Repulsion | JETP Letters | 93(12) 725–30 |
| 2011 | 10.1093/nar/gkq1211 | Schmid, A. K., M. Pan, K. Sharma and N. S. Baliga | Two transcription factors are necessary for iron homeostasis in a salt-dwelling archaeon | Nucleic Acids Research | 39(7) 2519–33 |
| 2011 | 10.1007/s10858-011-9494-4 | Hu, K., W. M. Westler and J. L. Markley | Two-dimensional concurrent HMQC-COSY as an approach for small molecule chemical shift assignment and compound identification | Journal of Biomolecular NMR | 49(45355) 291-296 |
| 2011 | 10.1021/jp108493g | Balog, E., D. Perahia, J. C. Smith and F. Merzel | Vibrational softening of a protein on ligand binding | Journal of Physical Chemistry B | 115(21) 6811–7 |
| 2011 | 10.4056/sigs.1694706 | Lorenzi, H. A., J. Hoover, J. Inman, T. Safford, S. Murphy, L. Kagan and S. J. Williamson | The Viral MetaGenome Annotation Pipeline(VMGAP): an automated tool for the functional annotation of viral Metagenomic shotgun sequencing data | Standards in Genomic Sciences | 4(3) 418–29 |
| 2011 | 10.1074/jbc.M110.186353 | Horn, P. J., N. R. Ledbetter, C. N. James, W. D. Hoffman, C. R. Case, G. F. Verbeck and K. D. Chapman | Visualization of lipid droplet composition by direct organelle mass spectrometry | Journal of Biological Chemistry | 286(5) 3298–306 |
| 2011 | 10.1007/s00232-010-9329-3 | Bondar, A. N., S. Fischer and J. C. Smith | Water pathways in the bacteriorhodopsin proton pump | Journal of Membrane Biology | 239(1–2) 73–84 |
| 2011 | 10.1083/jcb.201010111 | Adeyo, O., P. J. Horn, S. Lee, D. D. Binns, A. Chandrahas, K. D. Chapman and J. M. Goodman | The yeast lipin orthologue Pah1p is important for biogenesis of lipid droplets | Journal of Cell Biology | 192(6) 1043–55 |
| 2011 | 10.1038/nchembio.685 | Doucette, C. D., D. J. Schwab, N. S. Wingreen and J. D. Rabinowitz | α-Ketoglutarate coordinates carbon and nitrogen utilization via enzyme I inhibition | Nature Chemical Biology | 7(12) 894–901 |
| 2010 | 10.1186/1754-6834-3-1 | Arantes, V. and J. N. Saddler | Access to cellulose limits the efficiency of enzymatic hydrolysis: The role of amorphogenesis | Biotechnology for Biofuels | 3(1) 45302 |
| 2010 | 10.1016/j.bpj.2010.07.066 | Lopez, M., V. Kurkal-Siebert, R. V. Dunn, M. Tehei, J. L. Finney, J. C. Smith and R. M. Daniel | Activity and dynamics of an enzyme, pig liver esterase, in near-anhydrous conditions | Biophysical Journal | 99(8) L62–4 |
| 2010 | 10.1016/j.pbi.2010.03.001 | Simmons, B. A., D. Loqué and J. Ralph | Advances in modifying lignin for enhanced biofuel production | Current Opinion in Plant Biology | 13(3) 312-319 |
| 2010 | 10.1007/s12010-010-8962-8 | Lau, M. J., M. W. Lau, C. Gunawan and B. E. Dale | Ammonia fiber expansion (AFEX) pretreatment, enzymatic hydrolysis, and fermentation on empty palm fruit bunch fiber (EPFBF) for cellulosic ethanol production | Applied Biochemistry and Biotechnology | 162(7) 1847-1857 |
| 2010 | 10.1186/1471-2164-11-600 | Tyler, L., J. N. Bragg, J. Wu, X. Yang, G. A. Tuskan and J. P. Vogel | Annotation and comparative analysis of the glycoside hydrolase genes in Brachypodium distachyon | BMC Genomics | 11 600 |
| 2010 | 10.1107/S1744309109055158 | Chan, S., I. Giuroiu, I. Chernishof, M. R. Sawaya, J. Chiang, R. P. Gunsalus, M. A. Arbing and L. J. Perry | Apo and ligand-bound structures of ModA from the archaeon Methanosarcina acetivorans | Acta Crystallographica Section F Structural Biology Communications | 66(Part 3) 242–50 |
| 2010 | 10.1186/1471-2164-11-674 | Pechanova, O., C. Y. Hsu, J. P. Adams, T. Pechan, L. Vandervelde, J. Drnevich, S. Jawdy, A. Adeli, J. C. Suttle, A. M. Lawrence, T. J. Tschaplinski, A. Seguin and C. Yuceer | Apoplast proteome reveals that extracellular matrix contributes to multistress response in poplar | BMC Genomics | 11 674 |
| 2010 | 10.1007/s12155-009-9073-7 | da Jesus, E. C., E. Susilawati, S. L. Smith, Q. Wang, B. Chai, R. Farris, J. L. M. Rodrigues, K. D. Thelen and J. M. Tiedje | Bacterial communities in the rhizosphere of biofuel crops grown on marginal lands as evaluated by 16S rRNA gene pyrosequences | Bioenergy Research | 3(1) 20-27 |
| 2010 | 10.1016/j.biortech.2009.10.096 | Chu, L. Q., R. Masyuko, J. V. Sweedler and P. W. Bohn | Base-induced delignification of Miscanthus x giganteus studied by three-dimensional confocal Raman imaging | Bioresource Technology | 101(13) 4919–25 |
| 2010 | 10.1016/j.plaphy.2010.01.023 | Zhao, N., J. Guan, J. L. Ferrer, N. Engle, M. Chern, P. Ronald, T. J. Tschaplinski and F. Chen | Biosynthesis and emission of insect-induced methyl salicylate and methyl benzoate from rice | Plant Physiology and Biochemistry | 48(4) 279–87 |
| 2010 | 10.1073/pnas.1006175107 | McKinlay, J. B. and C. S. Harwood | Carbon dioxide fixation as a central redox cofactor recycling mechanism in bacteria | Proceedings of the National Academy of Sciences of the United States of America | 107(26) 11669–75 |
| 2010 | 10.1371/journal.pone.0012947 | Saharay, M., H. Guo and J. C. Smith | Catalytic mechanism of cellulose degradation by a cellobiohydrolase, CelS | PLoS One | 5(10) e12947 |
| 2010 | 10.1007/s12155-009-9068-4 | Hansey, C. N., A. J. Lorenz and N. de Leon | Cell wall composition and ruminant digestibility of various maize tissues across development | Bioenergy Research | 3(1) 28-37 |
| 2010 | 10.1007/s12155-009-9071-9 | Casler, M. D. | Changes in mean and genetic variance during two cycles of within-family selection in switchgrass | Bioenergy Research | 3(1) 47-54 |
| 2010 | 10.1073/pnas.1009513107 | Rusch, D. B., A. C. Martiny, C. L. Dupont, A. L. Halpern and J. C. Venter | Characterization of Prochlorococcus clades from iron-depleted oceanic regions | Proceedings of the National Academy of Sciences of the United States of America | 107(37) 16184–9 |
| 2010 | 10.1007/s00425-010-1181-2 | Grant, E. H., T. Fujino, E. P. Beers and A. M. Brunner | Characterization of NAC domain transcription factors implicated in control of vascular cell differentiation in Arabidopsis and Populus | Planta | 232(2) 337–52 |
| 2010 | 10.1186/1754-6834-3-11 | Lau, M. W., C. Gunawan, V. Balan and B. E. Dale | Comparing the fermentation performance of Escherichia coli KO11, Saccharomyces cerevisiae 424A(LNH-ST) and Zymomonas mobilis AX101 for cellulosic ethanol production | Biotechnology for Biofuels | 3 |
| 2010 | 10.1016/j.biortech.2010.01.136 | Li, Z., P. W. Bohn and J. V. Sweedler | Comparison of sample pre-treatments for laser desorption ionization and secondary ion mass spectrometry imaging of Miscanthus x giganteus | Bioresource Technology | 101(14) 5578–85 |
| 2010 | 10.1109/TNB.2010.2081375 | Rosen, G. L. and S. D. Essinger | Comparison of statistical methods to classify environmental genomic fragments | IEEE Transactions on Nanobioscience | 9(4) 310–6 |
| 2010 | 10.1534/genetics.110.113910 | Okada, M., C. Lanzatella, M. C. Saha, J. Bouton, R. Wu and C. M. Tobias | Complete switchgrass genetic maps reveal subgenome collinearity, preferential pairing and multilocus interactions | Genetics | 185(3) 745–60 |
| 2010 | 10.1073/pnas.1002720107 | Feng, S., S. J. Cokus, X. Zhang, P. Y. Chen, M. Bostick, et al. | Conservation and divergence of methylation patterning in plants and animals | Proceedings of the National Academy of Sciences of the United States of America | 107(19) 8689–94 |
| 2010 | 10.1105/tpc.109.073528 | Weng, J. K., T. Akiyama, N. D. Bonawitz, X. Li, J. Ralph and C. Chapple | Convergent evolution of syringyl lignin biosynthesis via distinct pathways in the lycophyte Selaginella and flowering plants | The Plant Cell | 22(4) 1033–45 |
| 2010 | 10.1038/msb.2010.50 | Kaur, A., P. T. Van, C. R. Busch, C. K. Robinson, M. Pan, W. L. Pang, D. J. Reiss, J. DiRuggiero and N. S. Baliga | Coordination of frontline defense mechanisms under severe oxidative stress | Molecular Systems Biology | 6 393 |
| 2010 | 10.1016/j.fcr.2010.03.014 | Zeid, M., J. K. Yu, I. Goldowitz, M. E. Denton, D. E. Costich, C. T. Jayasuriya, M. Saha, R. Elshire, D. Benscher, F. Breseghello, J. Munkvold, R. K. Varshney, G. Belay and M. E. Sorrells | Cross-amplification of EST-derived markers among 16 grass species | Field Crops Research | 118(1) 28–35 |
| 2010 | 10.1109/NSSMIC.2010.5874246 | Sabet, H., H. N. Liang, Y. S. Li and W. Chang | Development of a Modular Detector System for C-SPECT | IEEE Nuclear Science Symposuim & Medical Imaging Conference | 2545–8 |
| 2010 | 10.1186/1532-429x-12-s1-p121 | Kim, H.-W., K. Souibri, D. Lee and G. Pohost | Development of control system for optimal stress during cardiac MR spectroscopy | Journal of Cardiovascular Magnetic Resonance | 12(Supplement 1) P121 |
| 2010 | 10.1073/pnas.0911359107 | James, C. N., P. J. Horn, C. R. Case, S. K. Gidda, D. Zhang, R. T. Mullen, J. M. Dyer, R. G. Anderson and K. D. Chapman | Disruption of the Arabidopsis CGI-58 homologue produces Chanarin-Dorfman-like lipid droplet accumulation in plants | Proceedings of the National Academy of Sciences of the United States of America | 107(41) 17833–8 |
| 2010 | 10.1073/pnas.1012900107 | Zhou, R., L. Jackson, G. Shadle, J. Nakashima, S. Temple, F. Chen and R. A. Dixon | Distinct cinnamoyl CoA reductases involved in parallel routes to lignin in Medicago truncatula | Proceedings of the National Academy of Sciences of the United States of America | 107(41) 17803–8 |
| 2010 | 10.1016/j.biortech.2010.04.076 | Lau, M. W. and B. E. Dale | Effect of primary degradation-reaction products from Ammonia Fiber Expansion (AFEX)-treated corn stover on the growth and fermentation of Escherichia coli KO11 | Bioresource Technology | 101(20) 7849-7855 |
| 2010 | 10.1007/s12155-009-9072-8 | Yilmaz, L. S., W. S. Kontur, A. P. Sanders, U. Sohmen, T. J. Donohue and D. R. Noguera | Electron Partitioning During Light-and Nutrient-Powered Hydrogen Production by Rhodobacter sphaeroides | BioEnergy Research | 3(1) 55–66 |
| 2010 | 10.1128/AEM.00056-10 | Allam, A. B., L. Reyes, N. Assad-Garcia, J. I. Glass and M. B. Brown | Enhancement of targeted homologous recombination in Mycoplasma mycoides subsp. capri by inclusion of heterologous recA | Applied and Environmental Microbiology | 76(20) 6951–4 |
| 2010 | 10.1186/1754-6834-3-1 | Bals, B., C. Rogers, M. Jin, V. Balan and B. Dale | Evaluation of ammonia fibre expansion (AFEX) pretreatment for enzymatic hydrolysis of switchgrass harvested in different seasons and locations | Biotechnology for Biofuels | 3 |
| 2010 | Xu, J., G. R. Bao, H. Wang, P. Zhu, F. S. Li, Y. Z. Li, S. Luo and S. Y. Li | Experimental study on hydrolysis of rubber seed oil in sub-critical water | Huaxue Gongcheng/Chemical Engineering (China) | 38(1) 46-49 | |
| 2010 | 10.1128/mBio.00169-10 | Zhou, J., Y. Deng, F. Luo, Z. He, Q. Tu and X. Zhi | Functional molecular ecological networks | mBio | 1(4) |
| 2010 | 10.1111/j.1462-2920.2010.02237.x | Sieber, J. R., D. R. Sims, C. Han, E. Kim, A. Lykidis, A. L. Lapidus, E. McDonnald, L. Rohlin, D. E. Culley, R. Gunsalus and M. J. McInerney | The genome of Syntrophomonas wolfei: new insights into syntrophic metabolism and biohydrogen production | Environmental Microbiology | 12(8) 2289–301 |
| 2010 | 10.3835/plantgenome2010.04.0010 | Costich, D. E., B. Friebe, M. J. Sheehan, M. D. Casler and E. S. Buckler | Genome-size Variation in Switchgrass (Panicum virgatum): Flow Cytometry and Cytology Reveal Rampant Aneuploidy | Plant Genome | 3(3) 130–41 |
| 2010 | 10.1038/nature09530 | Yooseph, S., K. H. Nealson, D. B. Rusch, J. P. McCrow, C. L. Dupont, et al. | Genomic and functional adaptation in surface ocean planktonic prokaryotes | Nature | 468(7320) 60–6 |
| 2010 | 10.1007/s11240-010-9826-1 | Yang, X., C.-Y. Ye, Z.-M. Cheng, T. J. Tschaplinski, S. D. Wullschleger, W. Yin, X. Xia and G. A. Tuskan | Genomic aspects of research involving polyploid plants | Plant Cell, Tissue and Organ Culture | 104(3) 387–97 |
| 2010 | 10.1016/j.envsoft.2010.05.012 | Zhang, X. and R. Srinivasan | GIS-based spatial precipitation estimation using next generation radar and raingauge data | Environmental Modelling and Software | 25(12) 1781-1788 |
| 2010 | 10.1105/tpc.110.074161 | Li, X., N. D. Bonawitz, J. K. Weng and C. Chapple | The growth reduction associated with repressed lignin biosynthesis in Arabidopsis thaliana is independent of flavonoids | The Plant Cell | 22(5) 1620–32 |
| 2010 | 10.1186/1751-0473-5-7 | Tenenbaum, D., J. C. Bare and N. S. Baliga | GTC: A web server for integrating systems biology data with web tools and desktop applications | Source Code for Biology and Medicine | 5 7 |
| 2010 | 10.1007/s12155-009-9074-6 | Santoro, N., S. L. Cantu, C. E. Tornqvist, T. G. Falbel, J. L. Bolivar, S. E. Patterson, M. Pauly and J. D. Walton | A high-throughput platform for screening milligram quantities of plant biomass for lignocellulose digestibility | Bioenergy Research | 3(1) 93-102 |
| 2010 | 10.4049/jimmunol.0901888 | Guan, Y., D. R. Ranoa, S. Jiang, S. K. Mutha, X. Li, J. Baudry and R. I. Tapping | Human TLRs 10 and 1 share common mechanisms of innate immune sensing but not signaling | Journal of Immunology | 184(9) 5094–103 |
| 2010 | 10.1371/journal.pcbi.1000645 | Daidone, I., H. Neuweiler, S. Doose, M. Sauer and J. C. Smith | Hydrogen-bond driven loop-closure kinetics in unfolded polypeptide chains | PLoS Computational Biology | 6(1) e1000645 |
| 2010 | 10.1128/AEM.00204-10 | Andrews-Pfannkoch, C., D. W. Fadrosh, J. Thorpe and S. J. Williamson | Hydroxyapatite-mediated separation of double-stranded DNA, single-stranded DNA, and RNA genomes from natural viral assemblages | Applied and Environmental Microbiology | 76(15) 5039–45 |
| 2010 | 10.1007/s11101-009-9141-9 | Ralph, J. | Hydroxycinnamates in lignification | Phytochemistry Reviews | 9(1) 65-83 |
| 2010 | 10.1016/j.copbio.2010.03.006 | Bevan, M. W., D. F. Garvin and J. P. Vogel | Brachypodium distachyon genomics for sustainable food and fuel production | Current Opinion in Biotechnology | 21(2) 211–7 |
| 2010 | 10.1107/S0907444910029483 | Bellesia, G., A. Asztalos, T. Shen, P. Langan, A. Redondo and S. Gnanakaran | In silico studies of crystalline cellulose and its degradation by enzymes | Acta Crystallographica Section D Biological Crystallography | 66(Part 11) 1184–8 |
| 2010 | 10.1093/database/baq012 | Karpinets, T. V., M. F. Romine, D. D. Schmoyer, G. H. Kora, M. H. Syed, M. R. Leuze, M. H. Serres, B. H. Park, N. F. Samatova and E. C. Uberbacher | Shewanella knowledgebase: integration of the experimental data and computational predictions suggests a biological role for transcription of intergenic regions | Database | 2010 baq012 |
| 2010 | 10.1104/pp.110.155242 | Lacayo, C. I., A. J. Malkin, H. Y. Holman, L. Chen, S. Y. Ding, M. S. Hwang and M. P. Thelen | Imaging cell wall architecture in single Zinnia elegans tracheary elements | Plant Physiology | 154(1) 121–33 |
| 2010 | 10.1007/s12155-010-9079-1 | Zeng, Y. N., B. G. Saar, M. G. Friedrich, F. Chen, Y. S. Liu, R. A. Dixon, M. E. Himmel, X. S. Xie and S. Y. Ding | Imaging Lignin-Downregulated Alfalfa Using Coherent Anti-Stokes Raman Scattering Microscopy | BioEnergy Research | 3(3) 272–7 |
| 2010 | 10.2134/jeq2008.0506 | Beltran, B. J., D. M. Amatya, M. Youssef, M. Jones, T. J. Callahan, R. Wayne Skaggs and J. E. Nettles | Impacts of fertilization on water quality of a drained pine plantation: A worst case scenario | Journal of Environmental Quality | 39(1) 293-303 |
| 2010 | 10.1007/s12155-009-9065-7 | Gardiner, M. A., J. K. Tuell, R. Isaacs, J. Gibbs, J. S. Ascher and D. A. Landis | Implications of three biofuel crops for beneficial arthropods in agricultural landscapes | Bioenergy Research | 3(1) 45462 |
| 2010 | 10.1007/s12155-009-9067-5 | Banerjee, G., J. S. Scott-Craig and J. D. Walton | Improving enzymes for biomass conversion: A basic research perspective | Bioenergy Research | 3(1) 82-92 |
| 2010 | 10.1016/j.enzmictec.2009.11.001 | Ximenes, E., Y. Kim, N. Mosier, B. Dien and M. Ladisch | Inhibition of cellulases by phenols | Enzyme and Microbial Technology | 46(3–4) 170–6 |
| 2010 | 10.1186/1471-2105-11-382 | Bare, J. C., T. Koide, D. J. Reiss, D. Tenenbaum and N. S. Baliga | Integration and visualization of systems biology data in context of the genome | BMC Bioinformatics | 11 382 |
| 2010 | 10.1016/j.apcatb.2009.11.001 | Gürbüz, E. I., E. L. Kunkes and J. A. Dumesic | Integration of C-C coupling reactions of biomass-derived oxygenates to fuel-grade compounds | Applied Catalysis B: Environmental | 94(45293) 134-141 |
| 2010 | 10.1007/978-1-4419-1528-3_15 | Laguna, R., G. S. Joshi, A. W. Dangel, A. K. Luther and F. R. Tabita | Integrative control of carbon, nitrogen, hydrogen, and sulfur metabolism: the central role of the Calvin-Benson-Bassham cycle | Advances in experimental medicine and biology | 675 265-271 |
| 2010 | 10.4056/sigs.651139 | Tanenbaum, D. M., J. Goll, S. Murphy, P. Kumar, N. Zafar, M. Thiagarajan, R. Madupu, T. Davidsen, L. Kagan, S. Kravitz, D. B. Rusch and S. Yooseph | The JCVI standard operating procedure for annotating prokaryotic metagenomic shotgun sequencing data | Standards in Genomic Sciences | 2(2) 229–37 |
| 2010 | 10.1002/anie.201000900 | Saar, B. G., Y. Zeng, C. W. Freudiger, Y. S. Liu, M. E. Himmel, X. S. Xie and S. Y. Ding | Label-free, real-time monitoring of biomass processing with stimulated Raman scattering microscopy | Angewandte Chemie International Edition | 49(32) 5476–9 |
| 2010 | 10.1186/1752-0509-4-64 | Facciotti, M. T., W. L. Pang, F. Y. Lo, K. Whitehead, T. Koide, et al. | Large scale physiological readjustment during growth enables rapid, comprehensive and inexpensive systems analysis | BMC Systems Biology | 4 64 |
| 2010 | 10.1104/pp.110.155119 | Vanholme, R., B. Demedts, K. Morreel, J. Ralph and W. Boerjan | Lignin biosynthesis and structure | Plant Physiology | 153(3) 895–905 |
| 2010 | 10.1186/1754-6834-3-27 | Li, X., E. Ximenes, Y. Kim, M. Slininger, R. Meilan, M. Ladisch and C. Chapple | Lignin monomer composition affects Arabidopsis cell-wall degradability after liquid hot water pretreatment | Biotechnology for Biofuels | 3 27 |
| 2010 | 10.1021/ja101370e | Berezniak, T., M. Zahran, P. Imhof, A. Jaschke and J. C. Smith | Magnesium-dependent active-site conformational selection in the Diels-Alderase ribozyme | Journal of the American Chemical Society | 132(36) 12587–96 |
| 2010 | 10.1104/pp.110.156158 | Carpita, N. C. and M. C. McCann | The maize mixed-linkage (1→3),(1→4)-β-D-glucan polysaccharide is synthesized at the golgi membrane | Plant Physiology | 153(3) 1362–71 |
| 2010 | 10.1016/j.soilbio.2010.02.006 | Liang, C. and T. C. Balser | Mass spectrometric characterization of amino sugar aldononitrile acetate derivatives used for isotope enrichment assessment of microbial residues | Soil Biology and Biochemistry | 42(6) 904-909 |
| 2010 | 10.1016/j.jmb.2010.06.026 | Zahran, M., I. Daidone, J. C. Smith and P. Imhof | Mechanism of DNA recognition by the restriction enzyme EcoRV | Journal of Molecular Biology | 401(3) 415–32 |
| 2010 | 10.1002/biot.201000129 | Schmidt, B. J., X. Lin-Schmidt, A. Chamberlin, K. Salehi-Ashtiani and J. A. Papin | Metabolic systems analysis to advance algal biotechnology | Biotechnology Journal | 5(7) 660–70 |
| 2010 | 10.1128/mBio.00246-10 | Wilmes, P., B. P. Bowen, B. C. Thomas, R. S. Mueller, V. J. Denef, N. C. VerBerkmoes, R. L. Hettich, T. R. Northen and J. F. Banfield | Metabolome-proteome differentiation coupled to microbial divergence | mBio | 1(5) |
| 2010 | 10.1016/j.biortech.2010.06.027 | Chundawat, S. P. S., R. Vismeh, L. N. Sharma, J. F. Humpula, L. da Costa Sousa, C. K. Chambliss, A. D. Jones, V. Balan and B. E. Dale | Multifaceted characterization of cell wall decomposition products formed during ammonia fiber expansion (AFEX) and dilute acid based pretreatments | Bioresource Technology | 101(21) 8429-8438 |
| 2010 | 10.1111/j.1365-313X.2010.04223.x | Zhao, Q., L. Gallego-Giraldo, H. Wang, Y. Zeng, S. Y. Ding, F. Chen and R. A. Dixon | An NAC transcription factor orchestrates multiple features of cell wall development in Medicago truncatula | The Plant Journal | 63(1) 100–14 |
| 2010 | 10.1016/j.jtbi.2010.07.023 | Reznik, E. and D. Segrè | On the stability of metabolic cycles | Journal of Theoretical Biology | 266(4) 536-549 |
| 2010 | 10.1186/1752-0509-4-53 | Kim, J. and J. L. Reed | OptORF: Optimal metabolic and regulatory perturbations for metabolic engineering of microbial strains | BMC Systems Biology | 4 |
| 2010 | 10.1111/j.1365-313X.2010.04391.x | Weng, J. K., H. Mo and C. Chapple | Over-expression of F5H in COMT-deficient Arabidopsis leads to enrichment of an unusual lignin and disruption of pollen wall formation | The Plant Journal | 64(6) 898–911 |
| 2010 | 10.1073/pnas.0914506107 | Yang, S., M. L. Land, D. M. Klingeman, D. A. Pelletier, T. Y. Lu, S. L. Martin, H. B. Guo, J. C. Smith and S. D. Brown | Paradigm for industrial strain improvement identifies sodium acetate tolerance loci in Zymomonas mobilis and Saccharomyces cerevisiae | Proceedings of the National Academy of Sciences of the United States of America | 107(23) 10395–400 |
| 2010 | 10.1016/j.bpj.2010.03.043 | Ulmschneider, M. B., J. C. Smith and J. P. Ulmschneider | Peptide partitioning properties from direct insertion studies | Biophysical Journal | 98(12) L60–2 |
| 2010 | 10.1016/j.copbio.2010.02.012 | McKinlay, J. B. and C. S. Harwood | Photobiological production of hydrogen gas as a biofuel | Current Opinion in Biotechnology | 21(3) 244–51 |
| 2010 | 10.1007/s11120-010-9555-7 | Grossman, A. R., S. J. Karpowicz, M. Heinnickel, D. Dewez, B. Hamel, R. Dent, K. K. Niyogi, X. Johnson, J. Alric, F. A. Wollman, H. Li and S. S. Merchant | Phylogenomic analysis of the Chlamydomonas genome unmasks proteins potentially involved in photosynthetic function and regulation | Photosynthesis Research | 106(45293) 45368 |
| 2010 | 10.1016/j.pbi.2009.12.009 | Pauly, M. and K. Keegstra | Plant cell wall polymers as precursors for biofuels | Current Opinion in Plant Biology | 13(3) 304-311 |
| 2010 | 10.1109/BIBM.2010.5706554 | Chen, X., X. H. Hu, X. J. Shen and G. Rosen | Probabilistic Topic Modeling for Genomic Data Interpretation | 2010 IEEE International Conference on Bioinformatics and Biomedicine | 149–52 |
| 2010 | 10.1093/protein/gzq049 | Xu, J. and J. C. Smith | Probing the mechanism of cellulosome attachment to the Clostridium thermocellum cell surface: computer simulation of the Type II cohesin-dockerin complex and its variants | Protein Engineering, Design and Selection | 23(10) 759–68 |
| 2010 | 10.1016/j.biortech.2009.09.044 | Li, B. Z., V. Balan, Y. J. Yuan and B. E. Dale | Process optimization to convert forage and sweet sorghum bagasse to ethanol based on ammonia fiber expansion (AFEX) pretreatment | Bioresource Technology | 101(4) 1285-1292 |
| 2010 | 10.1128/AEM.01143-10 | Huang, J. J., E. K. Heiniger, J. B. McKinlay and C. S. Harwood | Production of hydrogen gas from light and the inorganic electron donor thiosulfate by Rhodopseudomonas palustris | Applied and Environmental Microbiology | 76(23) 7717–22 |
| 2010 | 10.1021/bk-2010-1052.ch007 | Saharay, M., H.-B. Guo, J. C. Smith and H. Guo | QM/MM Analysis of Cellulase Active Sites and Actions of the Enzymes on Substrates | Computational Modeling in Lignocellulosic Biofuel Production | 1052 135–54 |
| 2010 | 10.1186/1754-6834-3-22 | Banerjee, G., S. Car, J. S. Scott-Craig, M. S. Borrusch and J. D. Walton | Rapid optimization of enzyme mixtures for deconstruction of diverse pretreatment/biomass feedstock combinations | Biotechnology for Biofuels | 3 |
| 2010 | 10.1038/nbt.1716 | Kosuri, S., N. Eroshenko, E. M. Leproust, M. Super, J. Way, J. B. Li and G. M. Church | Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips | Nature Biotechnology | 28(12) 1295–9 |
| 2010 | 10.1088/0031-9155/55/2/N04 | St James, S., Y. Yang, S. L. Bowen, J. Qi and S. R. Cherry | Simulation study of spatial resolution and sensitivity for the tapered depth of interaction PET detectors for small animal imaging | Physics in Medicine and Biology | 55(2) N63–74 |
| 2010 | 10.1039/b916070a | Kim, H. and J. Ralph | Solution-state 2D NMR of ball-milled plant cell wall gels in DMSO-d6/pyridine-d5 | Organic & Biomolecular Chemistry | 8(3) 576–91 |
| 2010 | 10.1021/ac100026r | Li, Z., L. Q. Chu, J. V. Sweedler and P. W. Bohn | Spatial correlation of confocal Raman scattering and secondary ion mass spectrometric molecular images of lignocellulosic materials | Analytical Chemistry | 82(7) 2608–11 |
| 2010 | 10.1007/s12155-009-9066-6 | Gao, D., S. P. S. Chundawat, T. Liu, S. Hermanson, K. Gowda, P. Brumm, B. E. Dale and V. Balan | Strategy for identification of novel fungal and bacterial glycosyl hydrolase hybrid mixtures that can efficiently saccharify pretreated lignocellulosic biomass | Bioenergy Research | 3(1) 67-81 |
| 2010 | 10.1007/s12539-010-0070-5 | Xu, Q., X. Ye, L. Y. Li, Z. M. Cheng and H. Guo | Structural basis for the action of xyloglucan endotransglycosylases/hydrolases: insights from homology modeling | Interdisciplinary Sciences: Computational Life Sciences | 2(2) 133–9 |
| 2010 | 10.1016/j.jmb.2010.03.020 | Guo, H. B., A. Johs, J. M. Parks, L. Olliff, S. M. Miller, A. O. Summers, L. Liang and J. C. Smith | Structure and conformational dynamics of the metalloregulator MerR upon binding of Hg(II) | Journal of Molecular Biology | 398(4) 555–68 |
| 2010 | 10.1016/j.virol.2010.04.010 | Lynch, R. M., R. Rong, B. Li, T. Shen, W. Honnen, J. Mulenga, S. Allen, A. Pinter, S. Gnanakaran and C. A. Derdeyn | Subtype-specific conservation of isoleucine 309 in the envelope V3 domain is linked to immune evasion in subtype C HIV-1 infection | Virology | 404(1) 59–70 |
| 2010 | 10.1093/bioinformatics/btq206 | Bryant Jr, D. W., R. Shen, H. D. Priest, W. K. Wong and T. C. Mockler | Supersplat-spliced RNA-seq alignment | Bioinformatics | 26(12) 1500-1505 |
| 2010 | 10.1016/j.biortech.2010.07.028 | Banerjee, G., S. Car, J. S. Scott-Craig, M. S. Borrusch, M. Bongers and J. D. Walton | Synthetic multi-component enzyme mixtures for deconstruction of lignocellulosic biomass | Bioresource Technology | 101(23) 9097-9105 |
| 2010 | 10.1073/pnas.1009170107 | Zhao, Q., H. Wang, Y. Yin, Y. Xu, F. Chen and R. A. Dixon | Syringyl lignin biosynthesis is directly regulated by a secondary cell wall master switch | Proceedings of the National Academy of Sciences of the United States of America | 107(32) 14496–501 |
| 2010 | 10.1073/pnas.1001665107 | Cuvelier, M. L., A. E. Allen, A. Monier, J. P. McCrow, M. Messie, et al. | Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton | Proceedings of the National Academy of Sciences of the United States of America | 107(33) 14679–84 |
| 2010 | 10.1021/jp909677p | Moritsugu, K., B. M. Njunda and J. C. Smith | Theory and normal-mode analysis of change in protein vibrational dynamics on ligand binding | Journal of Physical Chemistry B | 114(3) 1479–85 |
| 2010 | 10.1533/9781845699611.1.24 | Chundawat, S. P. S., V. Balan, L. D. C. Sousa and B. E. Dale | Thermochemical pretreatment of lignocellulosic biomass | Bioalcohol Production: Biochemical Conversion of Lignocellulosic Biomass | 24-72 |
| 2010 | 10.1142/S0217979210056864 | Friedman, B. A. and G. C. Levine | Topological Entanglement Entropy in the Second Landau Level | International Journal of Modern Physics B | 24(24) 4707–15 |
| 2010 | 10.1016/j.biortech.2010.06.026 | Jin, M., M. W. Lau, V. Balan and B. E. Dale | Two-step SSCF to convert AFEX-treated switchgrass to ethanol using commercial enzymes and Saccharomyces cerevisiae 424A(LNH-ST) | Bioresource Technology | 101(21) 8171-8178 |
| 2010 | 10.1073/pnas.1011987107 | Hong, S., H. R. Song, K. Lutz, R. A. Kerstetter, T. P. Michael and C. R. McClung | Type II protein arginine methyltransferase 5 (PRMT5) is required for circadian period determination in Arabidopsis thaliana | Proceedings of the National Academy of Sciences of the United States of America | 107(49) 21211–6 |
| 2010 | 10.1021/ct9006458 | Chu, Y., Q. Xu and H. Guo | Understanding Energetic Origins of Product Specificity of SET8 from QM/MM Free Energy Simulations: What Causes the Stop of Methyl Addition during Histone Lysine Methylation? | Journal of Chemical Theory and Computation | 6(4) 1380–9 |
| 2010 | 10.1002/0471227617.eoc217 | Parks, J. M., P. Imhof and J. C. Smith | Understanding Enzyme Catalysis Using Computer Simulation | Encyclopedia of Catalysis | |
| 2010 | 10.1016/j.ymben.2010.04.002 | Paula Alonso, A., V. L. Dale and Y. Shachar-Hill | Understanding fatty acid synthesis in developing maize embryos using metabolic flux analysis | Metabolic Engineering | 12(5) 488-497 |
| 2010 | 10.4155/bfs.09.5 | Çetinkol, Ö. P., D. C. Dibble, G. Cheng, M. S. Kent, B. Knierim, M. Auer, D. E. Wemmer, J. G. Pelton, Y. B. Melnichenko, J. Ralph, B. A. Simmons and B. M. Holmes | Understanding the impact of ionic liquid pretreatment on eucalyptus | Biofuels | 1(1) 33-46 |
| 2010 | 10.1021/jp102785s | Xu, Q., L. Li and H. Guo | Understanding the mechanism of deacylation reaction catalyzed by the serine carboxyl peptidase kumamolisin-As: insights from QM/MM free energy simulations | Journal of Physical Chemistry B | 114(32) 10594–600 |
| 2010 | 10.1007/s12155-009-9075-5 | Slater, S., K. Keegstra and T. J. Donohue | The US department of energy great lakes bioenergy research center: Midwestern Biomass as a resource for renewable fuels | Bioenergy Research | 3(1) 45356 |
| 2010 | 10.1186/1471-2164-11-430 | Roske, K., M. F. Foecking, S. Yooseph, J. I. Glass, M. J. Calcutt and K. S. Wise | A versatile palindromic amphipathic repeat coding sequence horizontally distributed among diverse bacterial and eucaryotic microbes | BMC Genomics | 11 430 |
| 2010 | 10.1109/NSSMIC.2010.5874190 | Li, Y. S., M. Rozler and W. Chang | View Sampling Requirements for Cardiac SPECT | IEEE Nuclear Science Symposuim & Medical Imaging Conference | 2282–7 |
| 2009 | 10.1126/science.1178534 | Schnable, P. S., D. Ware, R. S. Fulton, J. C. Stein, F. Wei, et al. | The B73 maize genome: complexity, diversity, and dynamics | Science | 326(5956) 1112–5 |
| 2009 | 10.1002/pro.105 | Xu, J., M. F. Crowley and J. C. Smith | Building a foundation for structure-based cellulosome design for cellulosic ethanol: Insight into cohesin-dockerin complexation from computer simulation | Protein Science | 18(5) 949–59 |
| 2009 | 10.1021/bi900585m | Imhof, P., S. Fischer and J. C. Smith | Catalytic mechanism of DNA backbone cleavage by the restriction enzyme EcoRV: a quantum mechanical/molecular mechanical analysis | Biochemistry | 48(38) 9061–75 |
| 2009 | 10.1021/ja9064365 | Thukral, L., J. C. Smith and I. Daidone | Common folding mechanism of a β-hairpin peptide via non-native turn formation revealed by unbiased molecular dynamics simulations | Journal of the American Chemical Society | 131(50) 18147–52 |
| 2009 | 10.1021/ja9034158 | Shen, T., P. Langan, A. D. French, G. P. Johnson and S. Gnanakaran | Conformational flexibility of soluble cellulose oligomers: chain length and temperature dependence | Journal of the American Chemical Society | 131(41) 14786–94 |
| 2009 | 10.1016/j.copbio.2009.05.003 | da Costa Sousa, L., S. P. Chundawat, V. Balan and B. E. Dale | 'Cradle-to-grave' assessment of existing lignocellulose pretreatment technologies | Current Opinion in Biotechnology | 20(3) 339-347 |
| 2009 | 10.1021/ja809660g | Spies, M. A., J. G. Reese, D. Dodd, K. L. Pankow, S. R. Blanke and J. Baudry | Determinants of catalytic power and ligand binding in glutamate racemase | Journal of the American Chemical Society | 131(14) 5274–84 |
| 2009 | 10.1186/1471-2229-9-88 | Vogel, J. P., M. Tuna, H. Budak, N. Huo, Y. Q. Gu and M. A. Steinwand | Development of SSR markers and analysis of diversity in Turkish populations of Brachypodium distachyon | BMC Plant Biology | 9 88 |
| 2009 | 10.1038/nbt.1586 | Atsumi, S., W. Higashide and J. C. Liao | Direct photosynthetic recycling of carbon dioxide to isobutyraldehyde | Nature Biotechnology | 27(12) 1177–80 |
| 2009 | 10.1038/ismej.2008.116 | Pearson, A. and D. B. Rusch | Distribution of microbial terpenoid lipid cyclases in the global ocean metagenome | The ISME Journal | 3(3) 352–63 |
| 2009 | 10.1371/journal.pone.0005485 | Whitehead, K., M. Pan, K. Masumura, R. Bonneau and N. S. Baliga | Diurnally entrained anticipatory behavior in archaea | PLoS One | 4(5) e5485 |
| 2009 | 10.1104/pp.109.137059 | Stewart, J. J., T. Akiyama, C. Chapple, J. Ralph and S. D. Mansfield | The effects on lignin structure of overexpression of ferulate 5-hydroxylase in hybrid poplar | Plant Physiology | 150(2) 621–35 |
| 2009 | 10.1002/chem.200902297 | Xu, Q., Y. Z. Chu, H. B. Guo, J. C. Smith and H. Guo | Energy triplets for writing epigenetic marks: insights from QM/MM free-energy simulations of protein lysine methyltransferases | Chemistry | 15(46) 12596–9 |
| 2009 | 10.1016/j.jtice.2009.05.003 | Rizk, M. L. and J. C. Liao | Ensemble modeling and related mathematical modeling of metabolic networks | Journal of the Taiwan Institute of Chemical Engineers | 40(6) 595-601 |
| 2009 | 10.1016/j.ymben.2009.04.002 | Contador, C. A., M. L. Rizk, J. A. Asenjo and J. C. Liao | Ensemble modeling for strain development of L-lysine-producing Escherichia coli | Metabolic Engineering | 11(4–5) 221–33 |
| 2009 | 10.1007/s10933-008-9266-7 | Swindles, G. T., D. J. Charman, H. M. Roe and P. A. Sansum | Environmental controls on peatland testate amoebae (Protozoa: Rhizopoda) in the North of Ireland: Implications for Holocene palaeoclimate studies | Journal of Paleolimnology | 42(1) 123-140 |
| 2009 | 10.1038/nmeth.1318 | Gibson, D. G., L. Young, R. Y. Chuang, J. C. Venter, C. A. Hutchison, 3rd and H. O. Smith | Enzymatic assembly of DNA molecules up to several hundred kilobases | Nature Methods | 6(5) 343–5 |
| 2009 | 10.1007/s00239-009-9290-x | Montague, M., C. Barnes, H. O. Smith, R. Y. Chuang and S. Vashee | The evolution of RecD outside of the RecBCD complex | Journal of Molecular Evolution | 69(4) 360–71 |
| 2009 | 10.1088/0031-9155/54/14/015 | James, S. S., Y. Yang, Y. Wu, R. Farrell, P. Dokhale, K. S. Shah and S. R. Cherry | Experimental characterization and system simulations of depth of interaction PET detectors using 0.5 mm and 0.7 mm LSO arrays | Physics in Medicine and Biology | 54(14) 4605–19 |
| 2009 | 10.1104/pp.109.136804 | Penning, B. W., C. T. Hunter, 3rd, R. Tayengwa, A. L. Eveland, C. K. Dugard, A. T. Olek, W. Vermerris, K. E. Koch, D. R. McCarty, M. F. Davis, S. R. Thomas, M. C. McCann and N. C. Carpita | Genetic resources for maize cell wall biology | Plant Physiology | 151(4) 1703–28 |
| 2009 | 10.1038/ismej.2009.45 | Allen, M. A., F. M. Lauro, T. J. Williams, D. Burg, K. S. Siddiqui, et al. | The genome sequence of the psychrophilic archaeon, Methanococcoides burtonii: The role of genome evolution in cold adaptation | ISME Journal | 3(9) 1012-1035 |
| 2009 | 10.1534/genetics.108.098996 | Saballos, A., G. Ejeta, E. Sanchez, C. Kang and W. Vermerris | A genomewide analysis of the cinnamyl alcohol dehydrogenase family in sorghum [Sorghum bicolor (L.) Moench] identifies SbCAD2 as the brown midrib6 gene | Genetics | 181(2) 783–95 |
| 2009 | 10.1364/ol.34.002051 | Kieu, K., B. G. Saar, G. R. Holtom, X. S. Xie and F. W. Wise | High-power picosecond fiber source for coherent Raman microscopy | Optics Letters | 34(13) 2051–3 |
| 2009 | 10.1007/978-3-642-02498-6_3 | Zhou, J. and J. Qi | High-resolution adaptive PET imaging | International Conference on Information Processing in Medical Imaging | 21 26–37 |
| 2009 | 10.1093/mp/ssp047 | Hedenstrom, M., S. Wiklund-Lindstrom, T. Oman, F. Lu, L. Gerber, P. Schatz, B. Sundberg and J. Ralph | Identification of lignin and polysaccharide modifications in Populus wood by chemometric analysis of 2D NMR spectra from dissolved cell walls | Molecular Plant | 2(5) 933–42 |
| 2009 | 10.1186/1754-6834-2-30 | Lau, M. W., C. Gunawan and B. E. Dale | The impacts of pretreatment on the fermentability of pretreated lignocellulosic biomass: A comparative evaluation between ammonia fiber expansion and dilute acid pretreatment | Biotechnology for Biofuels | 2(1) 45302 |
| 2009 | 10.1016/j.bpj.2008.10.007 | Schulz, R., M. Krishnan, I. Daidone and J. C. Smith | Instantaneous normal modes and the protein glass transition | Biophysical Journal | 96(2) 476–84 |
| 2009 | 10.1038/msb.2009.34 | Brynildsen, M. P. and J. C. Liao | An integrated network approach identifies the isobutanol response network of Escherichia coli | Molecular Systems Biology | 5 277 |
| 2009 | 10.1364/oe.17.012532 | Saar, B. G., G. R. Holtom, C. W. Freudiger, C. Ackermann, W. Hill and X. S. Xie | Intracavity wavelength modulation of an optical parametric oscillator for coherent Raman microscopy | Optics Express | 17(15) 12532–9 |
| 2009 | 10.1038/hdy.2009.26 | Zakharov, E. V., N. F. Lobo, C. Nowak and J. J. Hellmann | Introgression as a likely cause of mtDNA paraphyly in two allopatric skippers (Lepidoptera: Hesperiidae) | Heredity | 102(6) 590–9 |
| 2009 | 10.1080/08927010902995564 | Pérez-Roa, R. E., M. A. Anderson, D. Rittschof, C. G. Hunt and D. R. Noguera | Involvement of reactive oxygen species in the electrochemical inhibition of barnacle (Amphibalanus amphitrite) settlement | Biofouling | 25(6) 563-571 |
| 2009 | 10.1021/ja809767v | Phatak, P., J. S. Frahmcke, M. Wanko, M. Hoffmann, P. Strodel, J. C. Smith, S. Suhai, A. N. Bondar and M. Elstner | Long-distance proton transfer with a break in the bacteriorhodopsin active site | Journal of the American Chemical Society | 131(20) 7064–78 |
| 2009 | 10.1080/13504500903336405 | Jiang, Y. and S. M. Swinton | Market interactions, farmers' choices, and the sustainability of growing advanced biofuels: A missing perspective? | International Journal of Sustainable Development and World Ecology | 16(6) 438-450 |
| 2009 | 10.1007/s00214-009-0565-5 | Bondar, A.-N., J. C. Smith and M. Elstner | Mechanism of a proton pump analyzed with computer simulations | Theoretical Chemistry Accounts | 125(3–6) 353–63 |
| 2009 | 10.1021/ja9016123 | Parks, J. M., H. Guo, C. Momany, L. Liang, S. M. Miller, A. O. Summers and J. C. Smith | Mechanism of Hg-C protonolysis in the organomercurial lyase MerB | Journal of the American Chemical Society | 131(37) 13278–85 |
| 2009 | 10.1038/nmeth.1348 | Manichaikul, A., L. Ghamsari, E. F. Hom, C. Lin, R. R. Murray, et al. | Metabolic network analysis integrated with transcript verification for sequenced genomes | Nature Methods | 6(8) 589–92 |
| 2009 | 10.1073/pnas.0812874106 | Wikoff, W. R., A. T. Anfora, J. Liu, P. G. Schultz, S. A. Lesley, E. C. Peters and G. Siuzdak | Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites | Proceedings of the National Academy of Sciences of the United States of America | 106(10) 3698–703 |
| 2009 | 10.1016/j.ymben.2009.08.004 | Wong, W. W. and J. C. Liao | Microbial maximal specific growth rate as a square-root function of biomass yield and two kinetic parameters | Metabolic Engineering | 11(6) 409–14 |
| 2009 | 10.1111/j.1755-0998.2008.02203.x | Nowak, C., C. M. Brown and J. J. Hellmann | Microsatellite markers for the hybridizing tiger swallowtails, Papilio glaucus and P. canadensis, and their applicability to historic specimens and congeneric species | Molecular Ecology Resources | 9(3) 800–3 |
| 2009 | 10.1111/j.1469-8137.2008.02663.x | Yin, T. M., X. Y. Zhang, L. E. Gunter, S. X. Li, S. D. Wullschleger, M. R. Huang and G. A. Tuskan | Microsatellite primer resource for Populus developed from the mapped sequence scaffolds of the Nisqually-1 genome | New Phytologist | 181(2) 498–503 |
| 2009 | 10.1002/jcc.21075 | Petridis, L. and J. C. Smith | A molecular mechanics force field for lignin | Journal of Computational Chemistry | 30(3) 457–67 |
| 2009 | 10.1016/j.bpj.2009.03.018 | Cheng, X., I. Ivanov, H. Wang, S. M. Sine and J. A. McCammon | Molecular-dynamics simulations of ELIC-a prokaryotic homologue of the nicotinic acetylcholine receptor | Biophysical Journal | 96(11) 4502–13 |
| 2009 | 10.1104/pp.109.136408 | Sattler, S. E., A. J. Saathoff, E. J. Haas, N. A. Palmer, D. L. Funnell-Harris, G. Sarath and J. F. Pedersen | A nonsense mutation in a cinnamyl alcohol dehydrogenase gene is responsible for the Sorghum brown midrib6 phenotype | Plant Physiology | 150(2) 584–95 |
| 2009 | 10.1002/prot.22350 | Splettstoesser, T., F. Noe, T. Oda and J. C. Smith | Nucleotide-dependence of G-actin conformation from multiple molecular dynamics simulations and observation of a putatively polymerization-competent superclosed state | Proteins | 76(2) 353–64 |
| 2009 | 10.1002/btpr.213 | Burrows, E. H., W. K. Wong, X. Fern, F. W. Chaplen and R. L. Ely | Optimization of pH and nitrogen for enhanced hydrogen production by Synechocystis sp. PCC 6803 via statistical and machine learning methods | Biotechnology Progress | 25(4) 1009–17 |
| 2009 | Smith, J. C. | Overcoming Plant Recalcitrance: Supercomputers Tackle Biofuel Production Problems | SciDAC Review | (15) 34–45 | |
| 2009 | 10.1021/ct900256k | Ulmschneider, J. P., J. P. Doux, J. A. Killian, J. C. Smith and M. B. Ulmschneider | Peptide Partitioning and Folding into Lipid Bilayers | Journal of Chemical Theory and Computation | 5(9) 2202–5 |
| 2009 | 10.1007/s12539-008-0011-8 | Guo, H., A. Gorin and H. Guo | A peptide-linkage deletion procedure for estimate of energetic contributions of individual peptide groups in a complex environment: Application to parallel β-sheets | Interdisciplinary Sciences: Computational Life Sciences | 1(1) 12–20 |
| 2009 | 10.1038/msb.2009.42 | Koide, T., D. J. Reiss, J. C. Bare, W. L. Pang, M. T. Facciotti, et al. | Prevalence of transcription promoters within archaeal operons and coding sequences | Molecular Systems Biology | 5 285 |
| 2009 | Su, X., H. Hou, G. Li, R. Lin and S. Cai | Product distribution of thermal cracking of exo-tetrahydrodicyclopentadiene | Acta Chimica Sinica | 67(7) 587-592 | |
| 2009 | 10.1063/1.3108363 | Krishnan, M., R. Schulz and J. C. Smith | Protein Dynamical Transition Role of Methyl Dynamics and Local Diffusion | AIP Conference Proceedings | 1102(1) |
| 2009 | 10.1186/1471-2180-9-149 | Xia, Q., T. Wang, E. L. Hendrickson, T. J. Lie, M. Hackett and J. A. Leigh | Quantitative proteomics of nutrient limitation in the hydrogenotrophic methanogen Methanococcus maripaludis | BMC Microbiology | 9 |
| 2009 | 10.1016/j.bpj.2009.05.015 | Moritsugu, K., V. Kurkal-Siebert and J. C. Smith | REACH coarse-grained normal mode analysis of protein dimer interaction dynamics | Biophysical Journal | 97(4) 1158–67 |
| 2009 | 10.1016/j.cpc.2009.01.007 | Moritsugu, K. and J. C. Smith | REACH: A program for coarse-grained biomolecular simulation | Computer Physics Communications | 180(7) 1188–95 |
| 2009 | 10.1007/s11367-009-0106-4 | Kim, S. and B. E. Dale | Regional variations in greenhouse gas emissions of biobased products in the United States-corn-based ethanol and soybean oil | International Journal of Life Cycle Assessment | 14(6) 540-546 |
| 2009 | 10.1021/ja901276n | Krishnan, M. and J. C. Smith | Response of small-scale, methyl rotors to protein-ligand association: a simulation analysis of calmodulin-peptide binding | Journal of the American Chemical Society | 131(29) 10083–91 |
| 2009 | 10.1093/nar/gkn879 | Cole, J. R., Q. Wang, E. Cardenas, J. Fish, B. Chai, R. J. Farris, A. S. Kulam-Syed-Mohideen, D. M. McGarrell, T. Marsh, G. M. Garrity and J. M. Tiedje | The Ribosomal Database Project: improved alignments and new tools for rRNA analysis | Nucleic Acids Research | 37(Suppl_1) D141–5 |
| 2009 | 10.1038/nrmicro2107 | Koide, T., W. L. Pang and N. S. Baliga | The role of predictive modelling in rationally re-engineering biological systems | Nature Reviews Microbiology | 7(4) 297–305 |
| 2009 | 10.1021/ct900292r | Schulz, R., B. Lindner, L. Petridis and J. C. Smith | Scaling of Multimillion-Atom Biological Molecular Dynamics Simulation on a Petascale Supercomputer | Journal of Chemical Theory and Computation | 5(10) 2798–808 |
| 2009 | Widya, I., R. G. A. Bults, M. H. A. Huis In't Veld and M. M. R. Vollenbroek-Hutten | Scenario-based requirements elicitation in a pain-teletreatment application | ICSOFT 2009 - 4th International Conference on Software and Data Technologies, Proceedings | 2 406-413 | |
| 2009 | 10.1109/NSSMIC.2009.5401623 | Komarov, S., Y. Yin, H. Wu and Y.-C. Tai | Simulation study of charge collection in highly pixilated CdZnTe detector for PET imaging | 2009 IEEE Nuclear Science Symposium Conference Record (NSS/MIC) | 2892–5 |
| 2009 | 10.1038/msb.2009.40 | Schmid, A. K., D. J. Reiss, M. Pan, T. Koide and N. S. Baliga | A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability | Molecular Systems Biology | 5 282 |
| 2009 | 10.1155/2009/350424 | Sobel, S. G., H. M. Hastings and M. Testa | Spatial Heterogeneity and Imperfect Mixing in Chemical Reactions: Visualization of Density-Driven Pattern Formation | Research Letters in Physical Chemistry | 2009 1–4 |
| 2009 | 10.1117/12.809802 | Min, W., C. W. Freudiger, S. J. Lu, C. W. He, J. X. Kang and X. S. Xie | Stimulated Raman scattering microscopy for biomedical imaging | Multiphoton Microscopy in the Biomedical Sciences IX | 7183 718320 |
| 2009 | 10.1103/PhysRevE.80.011109 | Neusius, T., I. M. Sokolov and J. C. Smith | Subdiffusion in time-averaged, confined random walks | Physical Review E | 80(1) 011109 |
| 2009 | 10.1016/j.copbio.2009.10.001 | McInerney, M. J., J. R. Sieber and R. P. Gunsalus | Syntrophy in anaerobic global carbon cycles | Current Opinion in Biotechnology | 20(6) 623–32 |
| 2009 | 10.1088/0031-9155/54/17/008 | Zhou, J. and J. Qi | Theoretical analysis and simulation study of a high-resolution zoom-in PET system | Physics in Medicine and Biology | 54(17) 5193–208 |
| 2009 | 10.1002/cphc.200800502 | Min, W., S. Lu, G. R. Holtom and X. S. Xie | Triple-resonance coherent anti-stokes Raman scattering microspectroscopy | ChemPhysChem | 10(2) 344–7 |
| 2009 | 10.1560/ijc.49.2.155 | Bondar, A.-N. and J. C. Smith | Water Molecules in Short- and Long-Distance Proton Transfer Steps of Bacteriorhodopsin Proton Pumping | Israel Journal of Chemistry | 49(2) 155–61 |
| 2008 | 10.1007/s12155-008-9025-7 | Saballos, A., W. Vermerris, L. Rivera and G. Ejeta | Allelic Association, Chemical Characterization and Saccharification Properties of brown midrib Mutants of Sorghum (Sorghum bicolor (L.) Moench) | BioEnergy Research | 1(3–4) 193–204 |
| 2008 | Shealy, P., R. Mukhopadhyay, S. Smith and H. Valafar | Automated assignment of backbone resonances using residual dipolar couplings acquired from a protein with known structure | Proceedings of the 2008 International Conference on Bioinformatics and Computational Biology, BIOCOMP 2008 | 646-652 | |
| 2008 | 10.1088/1742-6596/125/1/012055 | Petridis, L. and J. C. Smith | Cellulosic ethanol: progress towards a simulation model of lignocellulosic biomass | Journal of Physics: Conference Series | 125 |
| 2008 | 10.1002/mrc.2201 | Yelle, D. J., J. Ralph and C. R. Frihart | Characterization of nonderivatized plant cell walls using high-resolution solution-state NMR spectroscopy | Magnetic Resonance in Chemistry | 46(6) 508–17 |
| 2008 | 10.1002/anie.200802679 | McLain, S. E., A. K. Soper, I. Daidone, J. C. Smith and A. Watts | Charge-based interactions between peptides observed as the dominant force for association in aqueous solution | Angewandte Chemie International Edition | 47(47) 9059–62 |
| 2008 | 10.1002/jcc.20902 | Voltz, K., J. Trylska, V. Tozzini, V. Kurkal-Siebert, J. Langowski and J. Smith | Coarse-grained force field for the nucleosome from self-consistent multiscaling | Journal of Computational Chemistry | 29(9) 1429–39 |
| 2008 | 10.1021/ja8034027 | Nutt, D. R. and J. C. Smith | Dual function of the hydration layer around an antifreeze protein revealed by atomistic molecular dynamics simulations | Journal of the American Chemical Society | 130(39) 13066–73 |
| 2008 | 10.1016/j.copbio.2008.02.014 | Weng, J. K., X. Li, N. D. Bonawitz and C. Chapple | Emerging strategies of lignin engineering and degradation for cellulosic biofuel production | Current Opinion in Biotechnology | 19(2) 166–72 |
| 2008 | 10.1529/biophysj.108.135442 | Tran, L. M., M. L. Rizk and J. C. Liao | Ensemble modeling of metabolic networks | Biophysical Journal | 95(12) 5606–17 |
| 2008 | 10.2993/0278-0771(2008)28[110:HEOMSF]2.0.CO;2 | Sepez, J. | Historical ecology of Makah subsistence foraging patterns | Journal of Ethnobiology | 28(1) 110-133 |
| 2008 | 10.1103/PhysRevLett.100.138102 | Kurkal-Siebert, V., R. Agarwal and J. C. Smith | Hydration-dependent dynamical transition in protein: protein interactions at ≈ 240 K | Physical Review Letters | 100(13) 138102 |
| 2008 | 10.1021/pr800031f | Van, P. T., A. K. Schmid, N. L. King, A. Kaur, M. Pan, K. Whitehead, T. Koide, M. T. Facciotti, Y. A. Goo, E. W. Deutsch, D. J. Reiss, P. Mallick and N. S. Baliga | Halobacterium salinarum NRC-1 PeptideAtlas: toward strategies for targeted proteomics and improved proteome coverage | Journal of Proteome Research | 7(9) 3755–64 |
| 2008 | 10.1111/j.1365-313X.2008.03457.x | Li, X., J. K. Weng and C. Chapple | Improvement of biomass through lignin modification | The Plant Journal | 54(4) 569–81 |
| 2008 | 10.1007/s12155-008-9020-z | Jackson, L. A., G. L. Shadle, R. Zhou, J. Nakashima, F. Chen and R. A. Dixon | Improving Saccharification Efficiency of Alfalfa Stems Through Modification of the Terminal Stages of Monolignol Biosynthesis | BioEnergy Research | 1(3–4) 180–92 |
| 2008 | 10.1111/j.1462-2920.2008.01626.x | Shaw, A. K., A. L. Halpern, K. Beeson, B. Tran, J. C. Venter and J. B. Martiny | It's all relative: ranking the diversity of aquatic bacterial communities | Environmental Microbiology | 10(9) 2200–10 |
| 2008 | 10.1021/jp801916f | Bondar, A. N., J. Baudry, S. Suhai, S. Fischer and J. C. Smith | Key role of active-site water molecules in bacteriorhodopsin proton-transfer reactions | Journal of Physical Chemistry B | 112(47) 14729–41 |
| 2008 | 10.1093/nar/gkm815 | Faith, J. J., M. E. Driscoll, V. A. Fusaro, E. J. Cosgrove, B. Hayete, F. S. Juhn, S. J. Schneider and T. S. Gardner | Many Microbe Microarrays Database: Uniformly normalized Affymetrix compendia with structured experimental metadata | Nucleic Acids Research | 36(SUPPL. 1) D866-D870 |
| 2008 | 10.1016/j.jmb.2007.12.073 | Grintsevich, E. E., S. A. Benchaar, D. Warshaviak, P. Boontheung, F. Halgand, J. P. Whitelegge, K. F. Faull, R. R. Ogorzalek Loo, D. Sept, J. A. Loo and E. Reisler | Mapping the Cofilin Binding Site on Yeast G-Actin by Chemical Cross-Linking | Journal of Molecular Biology | 377(2) 395-409 |
| 2008 | 10.1021/bi801685f | Imker, H. J., J. Singh, B. P. Warlick, F. R. Tabita and J. A. Gerlt | Mechanistic diversity in the RuBisCO superfamily: a novel isomerization reaction catalyzed by the RuBisCO-like protein from Rhodospirillum rubrum | Biochemistry | 47(43) 11171–3 |
| 2008 | 10.1021/jp076641z | Krishnan, M., V. Kurkal-Siebert and J. C. Smith | Methyl group dynamics and the onset of anharmonicity in myoglobin | Journal of Physical Chemistry B | 112(17) 5522–33 |
| 2008 | 10.1093/bioinformatics/btm592 | Reiss, D. J., M. T. Facciotti and N. S. Baliga | Model-based deconvolution of genome-wide DNA binding | Bioinformatics | 24(3) 396–403 |
| 2008 | 10.1073/pnas.0809160105 | Oda, Y., F. W. Larimer, P. S. Chain, S. Malfatti, M. V. Shin, L. M. Vergez, L. Hauser, M. L. Land, S. Braatsch, J. T. Beatty, D. A. Pelletier, A. L. Schaefer and C. S. Harwood | Multiple genome sequences reveal adaptations of a phototrophic bacterium to sediment microenvironments | Proceedings of the National Academy of Sciences of the United States of America | 105(47) 18543–8 |
| 2008 | 10.1016/j.copbio.2008.10.010 | Cardenas, E. and J. M. Tiedje | New tools for discovering and characterizing microbial diversity | Current Opinion in Biotechnology | 19(6) 544–9 |
| 2008 | 10.1016/j.ijhydene.2008.07.102 | Burrows, E., F. Chaplen and R. Ely | Optimization of media nutrient composition for increased photofermentative hydrogen production by Synechocystis sp. PCC 6803 | International Journal of Hydrogen Energy | 33(21) 6092–9 |
| 2008 | 10.1021/bi801425e | Becker, V., D. Sengupta, R. Ketteler, G. M. Ullmann, J. C. Smith and U. Klingmuller | Packing density of the erythropoietin receptor transmembrane domain correlates with amplification of biological responses | Biochemistry | 47(45) 11771–82 |
| 2008 | Mahrooz, A., M. Nouri, M. R. Rashidi, N. Aslanabadi, D. Qujeq and A. Azari | Paraoxonase and Arylesterase activities of human serum paraoxonase in coronary artery disease | Koomesh | 10(1) 1-6+1 | |
| 2008 | 10.1016/j.bbamem.2008.06.014 | Sengupta, D., J. C. Smith and G. M. Ullmann | Partitioning of amino-acid analogues in a five-slab membrane model | Biochimica et Biophysica Acta (BBA) - Biomembranes | 1778(10) 2234–43 |
| 2008 | 10.1529/biophysj.107.121418 | Meinhold, L., D. Clement, M. Tehei, R. Daniel, J. L. Finney and J. C. Smith | Protein dynamics and stability: the distribution of atomic fluctuations in thermophilic and mesophilic dihydrofolate reductase derived using elastic incoherent neutron scattering | Biophysical Journal | 94(12) 4812–8 |
| 2008 | 10.1529/biophysj.108.131714 | Moritsugu, K. and J. C. Smith | REACH coarse-grained biomolecular simulation: transferability between different protein structural classes | Biophysical Journal | 95(4) 1639–48 |
| 2008 | 10.1007/s12155-008-9004-z | Kim, H., J. Ralph and T. Akiyama | Solution-state 2D NMR of Ball-milled Plant Cell Wall Gels in DMSO-d6 | BioEnergy Research | 1(1) 56–66 |
| 2008 | 10.1371/journal.pone.0001456 | Williamson, S. J., D. B. Rusch, S. Yooseph, A. L. Halpern, K. B. Heidelberg, J. I. Glass, C. Andrews-Pfannkoch, D. Fadrosh, C. S. Miller, G. Sutton, M. Frazier and J. C. Venter | The Sorcerer II Global Ocean Sampling Expedition: metagenomic characterization of viruses within aquatic microbial samples | PLoS One | 3(1) e1456 |
| 2008 | 10.1103/PhysRevLett.100.188103 | Neusius, T., I. Daidone, I. M. Sokolov and J. C. Smith | Subdiffusion in peptides originates from the fractal-like structure of configuration space | Physical Review Letters | 100(18) 188103 |
| 2008 | 10.1016/j.ymben.2008.02.001 | Bernstein, J. R., T. Bulter and J. C. Liao | Transfer of the high-GC cyclohexane carboxylate degradation pathway from Rhodopseudomonas palustris to Escherichia coli for production of biotin | Metabolic Engineering | 10(45355) 131-140 |
| 2008 | 10.1080/10635150802434394 | Alekseyenko, A. V., C. J. Lee and M. A. Suchard | Wagner and Dollo: A stochastic duet by composing two parsimonious solos | Systematic Biology | 57(5) 772-784 |
| 2008 | 10.1021/ac800795f | Benton, H. P., D. M. Wong, S. A. Trauger and G. Siuzdak | XCMS2: processing tandem mass spectrometry data for metabolite identification and structural characterization | Analytical Chemistry | 80(16) 6382–9 |
| 2007 | 10.1093/nar/gkl884 | Kim, N., A. V. Alekseyenko, M. Roy and C. Lee | The ASAP II database: Analysis and comparative genomics of alternative splicing in 15 animal species | Nucleic Acids Research | 35(SUPPL. 1) D93-D98 |
| 2007 | 10.1039/9781847557773-00099 | Nutt, D. R. and J. C. Smith | Choosing an Appropriate Water Model for Use in Biomolecular Simulations | Physics and Chemistry of Ice | 451–8 |
| 2007 | 10.1529/biophysj.107.111898 | Moritsugu, K. and J. C. Smith | Coarse-grained biomolecular simulation with REACH: realistic extension algorithm via covariance Hessian | Biophysical Journal | 93(10) 3460–9 |
| 2007 | Smith, J. C., A. N. Bondar, S. Suhai and P. T. Frangopol | Computer Simulations of Local Anesthetic Mechanisms Quantum Chemical Investigation of Procaine | Romanian Reports in Physics | 59(2) 289–99 | |
| 2007 | 10.1073/pnas.0701401104 | Daidone, I., M. B. Ulmschneider, A. Di Nola, A. Amadei and J. C. Smith | Dehydration-driven solvent exposure of hydrophobic surfaces as a driving force in peptide folding | Proceedings of the National Academy of Sciences of the United States of America | 104(39) 15230–5 |
| 2007 | 10.1021/jp065172i | Cournia, Z., G. M. Ullmann and J. C. Smith | Differential effects of cholesterol, ergosterol and lanosterol on a dipalmitoyl phosphatidylcholine membrane: a molecular dynamics simulation study | Journal of Physical Chemistry B | 111(7) 1786–801 |
| 2007 | 10.1186/gb-2007-8-12-r264 | Kannan, N., J. Wu, G. S. Anand, S. Yooseph, A. F. Neuwald, J. C. Venter and S. S. Taylor | Evolution of allostery in the cyclic nucleotide binding module | Genome Biology | 8(12) R264 |
| 2007 | 10.1186/1471-2105-8-456 | Bare, J. C., P. T. Shannon, A. K. Schmid and N. S. Baliga | The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications | BMC Bioinformatics | 8 456 |
| 2007 | 10.1002/chem.200700358 | de Hatten, X., Z. Cournia, I. Huc, J. C. Smith and N. Metzler-Nolte | Force-field development and molecular dynamics simulations of ferrocene-peptide conjugates as a scaffold for hydrogenase mimics | Chemistry | 13(29) 8139–52 |
| 2007 | 10.1128/JB.01343-06 | Earl, A. M., R. Losick and R. Kolter | Bacillus subtilis genome diversity | Journal of Bacteriology | 189(3) 1163–70 |
| 2007 | 10.1080/02770900701595568 | Cicutto, L. and M. Ashby | The importance of a community-based asthma helpline | Journal of Asthma | 44(9) 705-710 |
| 2007 | 10.1103/PhysRevLett.99.138101 | Meinhold, L., F. Merzel and J. C. Smith | Lattice dynamics of a protein crystal | Physical Review Letters | 99(13) 138101 |
| 2007 | 10.1038/nbt1316 | Chen, F. and R. A. Dixon | Lignin modification improves fermentable sugar yields for biofuel production | Nature Biotechnology | 25(7) 759–61 |
| 2007 | 10.1073/pnas.0702981104 | Guo, H. B. and H. Guo | Mechanism of histone methylation catalyzed by protein lysine methyltransferase SET7/9 and origin of product specificity | Proceedings of the National Academy of Sciences of the United States of America | 104(21) 8797–802 |
| 2007 | 10.1021/ct700053u | Nutt, D. R. and J. C. Smith | Molecular Dynamics Simulations of Proteins: Can the Explicit Water Model Be Varied? | Journal of Chemical Theory and Computation | 3(4) 1550–60 |
| 2007 | 10.1093/bioinformatics/btl647 | Alekseyenko, A. V. and C. J. Lee | Nested Containment List (NCList): A new algorithm for accelerating interval query of genome alignment and interval databases | Bioinformatics | 23(11) 1386-1393 |
| 2007 | 10.1016/j.inffus.2005.04.003 | Zheng, Y., E. A. Essock, B. C. Hansen and A. M. Haun | A new metric based on extended spatial frequency and its application to DWT based fusion algorithms | Information Fusion | 8(2 SPEC. ISS.) 177-192 |
| 2007 | 10.1016/B978-012374212-4.50049-3 | Fantini, S. and P. Taroni | Optical Mammography | Cancer Imaging | 445-453 |
| 2007 | 10.1529/biophysj.105.079723 | Topham, C. M. and J. C. Smith | Orientation preferences of backbone secondary amide functional groups in peptide nucleic acid complexes: quantum chemical calculations reveal an intrinsic preference of cationic D-amino acid-based chiral PNA analogues for the P-form | Biophysical Journal | 92(3) 769–86 |
| 2007 | 10.1093/bioinformatics/btm241 | Newberg, L. A., W. A. Thompson, S. Conlan, T. M. Smith, L. A. McCue and C. E. Lawrence | A phylogenetic Gibbs sampler that yields centroid solutions for cis-regulatory site prediction | Bioinformatics | 23(14) 1718-1727 |
| 2007 | 10.1073/pnas.0708199104 | Meinhold, L., J. C. Smith, A. Kitao and A. H. Zewail | Picosecond fluctuating protein energy landscape mapped by pressure temperature molecular dynamics simulation | Proceedings of the National Academy of Sciences of the United States of America | 104(44) 17261–5 |
| 2007 | 10.1016/j.cell.2007.10.053 | Bonneau, R., M. T. Facciotti, D. J. Reiss, A. K. Schmid, M. Pan, et al. | A predictive model for transcriptional control of physiology in a free living cell | Cell | 131(7) 1354–65 |
| 2007 | 10.1016/j.jmb.2006.12.058 | Mesentean, S., S. Koppole, J. C. Smith and S. Fischer | The principal motions involved in the coupling mechanism of the recovery stroke of the myosin motor | Journal of Molecular Biology | 367(2) 591–602 |
| 2007 | 10.1002/prot.21246 | Meinhold, L. and J. C. Smith | Protein dynamics from X-ray crystallography: anisotropic, global motion in diffuse scattering patterns | Proteins | 66(4) 941–53 |
| 2007 | 10.1021/bi061737p | Xu, Q., H. B. Guo, A. Wlodawer, T. Nakayama and H. Guo | The QM/MM molecular dynamics and free energy simulations of the acylation reaction catalyzed by the serine-carboxyl peptidase kumamolisin-As | Biochemistry | 46(12) 3784–92 |
| 2007 | 10.1093/bioinformatics/btm343 | Kim, N. and C. Lee | QPRIMER: A quick web-based application for designing conserved PCR primers from multigenome alignments | Bioinformatics | 23(17) 2331-2333 |
| 2007 | Mazzotti, A., E. Stucchi, G. L. Fradelizio, L. Zanzi and P. Scandone | Re-processing of the CROP-04 seismic data | Bollettino della Societa Geologica Italiana, Supplemento | 7 141-153 | |
| 2007 | 10.1093/nar/gkl889 | Cole, J. R., B. Chai, R. J. Farris, Q. Wang, A. S. Kulam-Syed-Mohideen, D. M. McGarrell, A. M. Bandela, E. Cardenas, G. M. Garrity and J. M. Tiedje | The ribosomal database project (RDP-II): Introducing myRDP space and quality controlled public data | Nucleic Acids Research | 35(SUPPL. 1) D169-D172 |
| 2007 | 10.1117/12.727781 | Privitera, G., S. Tudisco, L. Lanzanò, F. Musumeci, S. Privitera, A. Scordino, D. Tudisco, M. Mazzillo and G. Condorelli | Single photon spectrometer for biomedical application: New developments | Progress in Biomedical Optics and Imaging - Proceedings of SPIE | 6628 |
| 2007 | 10.1021/jp0670743 | Xu, Q., H. Guo, A. Gorin and H. Guo | Stabilization of a transition-state analogue at the active site of yeast cytosine deaminase: importance of proton transfers | Journal of Physical Chemistry B | 111(23) 6501–6 |
| 2007 | 10.1371/journal.pbio.0050017 | Kannan, N., S. S. Taylor, Y. Zhai, J. C. Venter and G. Manning | Structural and functional diversity of the microbial kinome | PLoS Biology | 5(3) e17 |
| 2007 | 10.1016/j.str.2007.06.008 | Koppole, S., J. C. Smith and S. Fischer | The structural coupling between ATPase activation and recovery stroke in the myosin II motor | Structure | 15(7) 825–37 |
| 2007 | 10.1016/j.jsb.2006.10.007 | Bondar, A. N., S. Suhai, S. Fischer, J. C. Smith and M. Elstner | Suppression of the back proton-transfer from Asp85 to the retinal Schiff base in bacteriorhodopsin: a theoretical analysis of structural elements | Journal of Structural Biology | 157(3) 454–69 |
| 2006 | 10.1021/ct600092c | Imhof, P., F. Noe, S. Fischer and J. C. Smith | AM1/d Parameters for Magnesium in Metalloenzymes | Journal of Chemical Theory and Computation | 2(4) 1050–6 |
| 2006 | 10.1002/prot.20981 | Mesentean, S., S. Fischer and J. C. Smith | Analyzing large-scale structural change in proteins: comparison of principal component projection and Sammon mapping | Proteins | 64(1) 210–8 |
| 2006 | 10.1021/bi060461i | Guo, H., A. Wlodawer, T. Nakayama, Q. Xu and H. Guo | Catalytic role of proton transfers in the formation of a tetrahedral adduct in a serine carboxyl peptidase | Biochemistry | 45(30) 9129–37 |
| 2006 | 10.1039/b610075a | Balog, E., J. C. Smith and D. Perahia | Conformational heterogeneity and low-frequency vibrational modes of proteins | Physical Chemistry Chemical Physics | 8(47) 5543–8 |
| 2006 | 10.1016/j.jnoncrysol.2006.01.115 | Kurkal-Siebert, V., R. M. Daniel, J. L. Finney, M. Tehei, R. V. Dunn and J. C. Smith | Enzyme hydration, activity and flexibility: A neutron scattering approach | Journal of Non-Crystalline Solids | 352(42–49) 4387–93 |
| 2006 | 10.1073/pnas.0510013103 | Glass, J. I., N. Assad-Garcia, N. Alperovich, S. Yooseph, M. R. Lewis, M. Maruf, C. A. Hutchison, 3rd, H. O. Smith and J. C. Venter | Essential genes of a minimal bacterium | Proceedings of the National Academy of Sciences of the United States of America | 103(2) 425–30 |
| 2006 | 10.1093/nar/gkl396 | Xing, Y., T. Yu, Y. N. Wu, M. Roy, J. Kim and C. Lee | An expectation-maximization algorithm for probabilistic reconstructions of full-length isoforms from splice graphs | Nucleic Acids Research | 34(10) 3150-3160 |
| 2006 | 10.1021/ja058831y | Xu, Q., H. Guo, A. Wlodawer and H. Guo | The importance of dynamics in substrate-assisted catalysis and specificity | Journal of the American Chemical Society | 128(18) 5994–5 |
| 2006 | 10.1021/bi052433q | Schwarzl, S. M., J. C. Smith and S. Fischer | Insights into the chemomechanical coupling of the myosin motor from simulation of its ATP hydrolysis mechanism | Biochemistry | 45(18) 5830–47 |
| 2006 | 10.1021/ja055962q | Kurkal-Siebert, V. and J. C. Smith | Low-temperature protein dynamics: a simulation analysis of interprotein vibrations and the boson peak at 150 k | Journal of the American Chemical Society | 128(7) 2356–64 |
| 2006 | 10.1155/JAMDS/2006/16018 | Moffat, J. | Mathematical modelling of information age conflict | Journal of Applied Mathematics and Decision Sciences | 2006 |
| 2006 | 10.1371/journal.pbio.0040234 | Sullivan, M. B., D. Lindell, J. A. Lee, L. R. Thompson, J. P. Bielawski and S. W. Chisholm | Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts | PLoS Biology | 4(8) e234 |
| 2006 | 10.1038/sj.cdd.4401807 | Efferth, T., S. M. Schwarzl, J. Smith and R. Osieka | Role of glucose-6-phosphate dehydrogenase for oxidative stress and apoptosis | Cell Death and Differentiation | 13(3) 527–8 |
| 2006 | 10.1002/qua.20810 | Walewski, Ł., D. Krachtus, S. Fischer, J. C. Smith, P. Bała and B. Lesyng | SCC-DFTB energy barriers for single and double proton transfer processes in the model molecular systems malonaldehyde and porphycene | International Journal of Quantum Chemistry | 106(3) 636–40 |
| 2006 | 10.1016/j.jmb.2006.06.022 | Koppole, S., J. C. Smith and S. Fischer | Simulations of the myosin II motor reveal a nucleotide-state sensing element that controls the recovery stroke | Journal of Molecular Biology | 361(3) 604–16 |
| 2006 | 10.1039/b516451f | Bondar, A. N., J. C. Smith and S. Fischer | Structural and energetic determinants of primary proton transfer in bacteriorhodopsin | Photochemical and Photobiological Sciences | 5(6) 547–52 |
| 2006 | 10.1021/jp055314t | Moritsugu, K. and J. C. Smith | Temperature-dependent protein dynamics: a simulation-based probabilistic diffusion-vibration Langevin description | Journal of Physical Chemistry B | 110(11) 5807–16 |
| 2006 | 10.1016/j.str.2006.02.001 | Smith, J. C. | Tight in titin | Structure | 14(3) 389–90 |
| 2006 | 10.1021/ja060731k | Baudry, J. | Van der waals interactions and decrease of the rotational barrier of methyl-sized rotators: a theoretical study | Journal of the American Chemical Society | 128(34) 11088–93 |
| 2005 | 10.1093/bioinformatics/bti613 | Xing, Y. and C. Lee | Assessing the application of Ka/Ks ratio test to alternatively spliced exons | Bioinformatics | 21(19) 3701-3703 |
| 2005 | 10.1016/j.str.2005.01.019 | Johnson, E., D. Cascio, M. R. Sawaya, M. Gingery and I. Schröder | Crystal structures of a tetrahedral open pore ferritin from the hyperthermophilic Archaeon Archaeoglobus fulgidus | Structure | 13(4) 637-648 |
| 2005 | 10.1128/JB.187.3.940-948.2005 | Romano, J. D. and R. Kolter | Pseudomonas-Saccharomyces interactions: influence of fungal metabolism on bacterial physiology and survival | Journal of Bacteriology | 187(3) 940–8 |
| 2005 | 10.1093/nar/gki038 | Cole, J. R., B. Chai, R. J. Farris, Q. Wang, S. A. Kulam, D. M. McGarrell, G. M. Garrity and J. M. Tiedje | The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis | Nucleic Acids Research | 33(Suppl_1) D294–6 |
| 2005 | 10.1093/bioinformatics/bti346 | Garrity, G. M. and T. G. Lilburn | Self-organizing and self-correcting classifications of biological data | Bioinformatics | 21(10) 2309-2314 |
| 2005 | 10.1371/journal.pbio.0030144 | Sullivan, M. B., M. L. Coleman, P. Weigele, F. Rohwer and S. W. Chisholm | Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations | PLoS Biology | 3(5) e144 |
| 2005 | 10.1128/JB.187.10.3551-3555.2005 | Reguera, G. and R. Kolter | Virulence and the environment: a novel role for Vibrio cholerae toxin-coregulated pili in biofilm formation on chitin | Journal of Bacteriology | 187(10) 3551–5 |
| 2004 | 10.1126/science.1093857 | Venter, J. C., K. Remington, J. F. Heidelberg, A. L. Halpern, D. Rusch, et al. | Environmental genome shotgun sequencing of the Sargasso Sea | Science | 304(5667) 66–74 |
| 2004 | 10.1046/j.1365-2958.2003.03877.x | Friedman, L. and R. Kolter | Genes involved in matrix formation in Pseudomonas aeruginosa PA14 biofilms | Molecular Microbiology | 51(3) 675–90 |
| 2004 | 10.1073/pnas.0401526101 | Lindell, D., M. B. Sullivan, Z. I. Johnson, A. C. Tolonen, F. Rohwer and S. W. Chisholm | Transfer of photosynthesis genes to and from Prochlorococcus viruses | Proceedings of the National Academy of Sciences of the United States of America | 101(30) 11013–8 |
| 2004 | 10.1128/JB.186.14.4457-4465.2004 | Friedman, L. and R. Kolter | Two genetic loci produce distinct carbohydrate-rich structural components of the Pseudomonas aeruginosa biofilm matrix | Journal of Bacteriology | 186(14) 4457–65 |
| 2000 | 10.1128/AEM.66.8.3616-3620.2000 | Marsh, T. L., P. Saxman, J. Cole and J. Tiedje | Terminal restriction fragment length polymorphism analysis program, a web-based research tool for microbial community analysis | Applied and Environmental Microbiology | 66(8) 3616–20 |