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Genomic Science Program

Systems Biology for Energy and the Environment

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Genomic Science Program

Abstracts and Summaries

Research Summary
2019 Genomic Sciences Program Annual Principal Investigator (PI) Meeting

February 24 – 27, 2019

Abstract Book

provided by Oak Ridge Associated Universities (ORAU)

Agenda (PDF)

Meeting Introduction (PDF)
Todd Anderson, Director, Biological Systems Science Division, DOE BER

Individual Abstract PDFs

Lead PIPI OrganizationPresenterPoster Abstract TitleResearch Area
Adams, Mike University of Georgia - Athens Nguyen, DiepSystems Biology-Based Optimization of Extremely Thermophilic Lignocellulose Conversion to Bioproducts Metabolic Engineering
Adams, Mike University of Georgia - Athens Zhang, YingGlobal Models for Metabolism and Transcriptional Regulation in Caldicellulosiruptor Strains Metabolic Engineering
Adams, Paul Lawrence Berkeley National Laboratory Carlson, HansENIGMA: The selective pressures on the microbial community in a metal-contaminated aquifer Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Fields, MatthewENIGMA: Novel Bio-Signatures and Activity in Fractionated Groundwater from Uncontaminated and Contaminated Sites Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Majumder, EricaENIGMA: Metabolomics and Transcriptomics for Environmental Systems Biology: Molecular Mechanisms of Reduced Sulfur Inhibition of Field-Isolated Nitrate-Reducing Bacterium Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Ge, Xiaoxuan GraceENIGMA: Characterization of Microbial Strains from Contaminated Groundwater and from Contaminated Sediments Using Environmental Concentrations of Metals at the Oak Ridge Reservation Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Ning, DaliangENIGMA: Assembly Mechanism of Subsurface Microbial Community under Stress Gradient and Adaptation of Super Phylum Patescibacteria with Genome Simplicity Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Walker, KathleenENIGMA: Long-Term Continuous Monitoring Gives Insight into Patterns Between Groundwater and Weather Events Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Wilpiszeski, ReginaENIGMA: Using in-field bioreactors to monitor microbial community dynamic shifts with geochemical perturbations Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Hunt, KristopherENIGMA: Dissecting Microbial Nitrogen Cycling In The Subsurface Using Tailored Reactor Schemes Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Lui, LaurenENIGMA: Core Values: Large-Scale Analysis of Environmental Constraints on Microbial Community Assembly, Activity, and Dispersal in Groundwater and Sediment from a Contaminated Subsurface Aquifer Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Song, FangchaoENIGMA: New technologies for the large-scale screening of microbial interactions Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Chakraborty, RomyENIGMA: Capturing the Diversity of Subsurface Microbiota – Choice of Carbon Source for Microcosm Enrichment and Isolation of Groundwater Bacteria Environmental Microbiology
Adams, Paul Lawrence Berkeley National Laboratory Chandonia, John MarcENIGMA: Management and Analysis of ENIGMA Data using KBase Computational Biology
Adams, Paul Lawrence Berkeley National Laboratory Bowen, BenjaminENIGMA: MAGI: A Method For Metabolite, Annotation, And Gene Integration Computational Biology
Adams, Paul Lawrence Berkeley National Laboratory Zhang, AnniENIGMA: Building a reference-based metagenomics workflow in KBase Computational Biology
Allen, Andrew J. Craig Ventner Institute Allen, AndrewNew advances in diatom functional genomics: Gene knockout methodology and genome-wide mapping of transcription factor binding sites Microbial Physiology
Allen, Andrew J. Craig Ventner Institute Dupont, Christopher Subcellular compartmentalization and biochemistry of lysine biosynthesis in the model diatom Biosystems Design
Allen, Andrew J. Craig Ventner Institute King, ZacharyInteractive Metabolic Pathway Visualization for Optimization of Energy Flux Biosystems Design
Allen, Andrew J. Craig Ventner Institute Kassaw, TessemaDeveloping episome-based, gene expression modulation by exogenous chemicals in the diatom Phaeodactylum tricornutum Biosystems Design
Allen, Andrew J. Craig Ventner Institute Peers, GrahamThe Plastid Terminal Oxidase does not play a photoprotective role in the marine diatom Phaeodactylum tricornutum Biosystems Design
Allen, Andrew J. Craig Ventner Institute Zuniga, CristalDynamic metabolic constraints of Phaeodactylum tricornutum reveal bases on organelle-specific carbon and nitrogen partitioning during nitrogen depletion Computational Biology
Allison, Steve University of California - Irvine Alster, CharlotteFungal Trait Tradeoffs in a Southern Californian Grassland Environmental Microbiology
Allison, Steve University of California - Irvine Sorouri, BaharehMicrobial Communities Exhibit Resilient Extracellular Enzyme Activity Along a Climate Gradient Environmental Microbiology
Allison, Steve University of California - Irvine Malik, AshishPhysiological adaptations of leaf litter microbial communities to drought reduce decomposition rates Microbial Physiology
Alonso, Ana University of North Texas Shah, AjayTechno-economic, Energy and Greenhouse Gas Emissions Analyses of Pennycress Production and Logistics for Aviation Biofuel Sustainability
Alonso, Ana University of North Texas Alonso, Ana PaulaInvestigating the Natural Variation of Pennycress Metabolome, an Emerging Crop for Aviation Biofuel Feedstock Development
Amador-Noguez, Daniel University of Wisconsin - Madison Amador-Noguez, DanielIn vivo thermodynamic analysis of metabolic networks and engineered pathways Biosystems Design
Anderson, James A University of MinnesotaChopra, RatanGenetic improvement of seed yield and oil content in field pennycress, a non-food oilseed feedstock species Feedstock Development
Arkin, Adam Lawrence Berkeley National Laboratory Chivian, DylanMicrobiome Genome Extraction, Phylogenomics, and Metabolic Modeling of Species Interactions in KBase Computational Biology
Arkin, Adam Lawrence Berkeley National Laboratory Henry, ChristopherNew pipeline for multi-omics data integration and discovery in KBase to identify the mechanism driving metabolic/OTU dynamics in a microbiome Computational Biology
Arkin, Adam Lawrence Berkeley National Laboratory Allen, BenjaminKBase: The Systems Biology Knowledgebase for Predictive Biological and Environmental Research in an Integrated Data Platform Computational Biology
Arkin, Adam Lawrence Berkeley National Laboratory Kumari, SunitaTranscriptome Profiling and Genome-Scale Metabolic Modeling in Fungal and Plant genomes using KBase Computational Biology
Arkin, Adam Lawrence Berkeley National Laboratory Wood-Charlson, ElishaKBase User Engagement: Leveraging Outreach and In-Reach Strategies to Build a Collaborative Community Computational Biology
Avalos, Jose Princeton University Avalos, JoseBiosensor and Optogenetics for Systems Biology of Yeast Branched-Chain Higher Alcohol Production and Tolerance Microbial Physiology
Bart, Rebecca Donald Danforth Plant Science Center Bart, RebeccaOptimizing Tradeoffs Implicit During Bioenergy Crop Improvement: Understanding the Effect of Altered Cell Wall and Sugar Content on Sorghum-Associated Pathogenic Bacteria Plant-Microbe Interactions
Baxter, Ivan Donald Danforth Plant Science Center Baxter, Ivan Phenotyping for water use efficiency in C4 grasses Setaria and Sorghum Feedstock Development
Baxter, Ivan Donald Danforth Plant Science Center Zhao, ChengComputer-aided Engineering of Biomass Production under Drought in Sorghum and Setaria Metabolic Engineering
Baxter, Ivan Donald Danforth Plant Science Center Leakey, AndrewPhenomics of stomata and water use efficiency in C4 species Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Kausch, AlbertDevelopment of Transgenic Sorghum Lines to Enhance Water Use and Photosynthetic Efficiencies Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Arp, JenniferManipulating Carbon Flux between Mesophyll and Bundle Sheath Cells to Optimize Photosynthetic Performance Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Lee, ScottLeveraging Setaria viridis and Sorghum bicolor pan-genomic variation for gene mining and crop improvement Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Pignon, CharlesImproving water-use efficiency under fluctuating light Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Brophy, JenniferTissue and environment-specific synthetic gene circuits to regulate crown root growth Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Cousins, AsaphModification of PEPC kinetics to enhance the efficiency of C4 photosynthesis Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Rosnow, JoshInvestigation of Carbonic Anhydrase to Improve Sorghum C4 Photosynthetic Efficiency Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Liu, Yang Targeted Mutagenesis and Programmed Transcriptional Regulation in Setaria and Sorghum Biosystems Design
Baxter, Ivan Donald Danforth Plant Science Center Lin, Fan QTG-Finder: A Machine-Learning Algorithm to Prioritize Causal Genes of Quantitative Trait Loci in Plants Computational Biology
Baxter, Ivan Donald Danforth Plant Science Center Hubbard, AllenMetabolome and transcriptome responses to a water deficit time course in the model C4 grass Setaria Viridis Computational Biology
Betenbaugh, Michael Johns Hopkins University Jenkins, JacksonCreating Synthetic Lichen Platforms for Sustainable Biosynthesis of Biofuel and Biochemical Precursors Metabolic Engineering
Betenbaugh, Michael Johns Hopkins University Zuniga, CristalSynthetic lichens as a sustainable platform for biosynthesis Computational Biology
Blaby, Crysten Brookhaven National Laboratory Blaby, Crysten QPSI: Quantitative Plant Science Initiative Biosystems Design
Blaby, Crysten Brookhaven National Laboratory Pasquini, MiriamPhylogenomics-guided Approaches for Predicting and Characterizing Functions Across a Multi-functional Protein Family Biosystems Design
Blumwald, Eduardo University of California - Davis Ahkami, Amir H. Integration of Physiological Phenotyping and Cell-Type-Specific Omics Approaches to Study Individual and Abiotic Stress Combinations in Poplar Biosystems Design
Blumwald, Eduardo University of California - Davis Lee, JunHyungDiscovery of Novel Cis-Regulatory Elements Responsive to Salt-Stress in Hybrid Poplar for Designing Inducible Synthetic Promoters Biosystems Design
Bouskill, Nicholas Lawrence Berkeley National Laboratory Bouskill, NicholasMicrobial environmental feedbacks and the evolution of soil organic matter Environmental Microbiology
Boyle, Nanette Colorado School of Mines Boyle, NanetteEnabling Predictive Metabolic Modeling of Diurnal Growth Using a Multi-Scale Multi-Paradigm Approach Computational Biology
Bruns, Tom University of California - Berkeley Calhoun, SaraFunctional genomics of pyrophilous fungi – determining the fate of pyrolyzed carbon in post-fire soils Environmental Microbiology
Bruns, Tom University of California - Berkeley Fischer, Monika Rising From the Ashes: Succession and Metabolism of Post-Fire Fungi Environmental Microbiology
Bruns, Tom University of California - Berkeley Berry, TimothyMicrobial Responses to Pyrogenic Organic Matter: Cultivating Isolates, Ageing PyOM, Tracing Gas Fluxes, and Meta-analysis Environmental Microbiology
Bruns, Tom University of California - Berkeley Patel, NeemMicrobial Community Succession and Metabolism in Post-Fire Environments Environmental Microbiology
Buckley, Daniel Cornell University Wilhelm, RolandThe Ecophysiological Determinants of Mineral-Associated Carbon in Agricultural Soil Environmental Microbiology
Cannon, William Pacific Northwest National Laboratory Cannon, WilliamSimulation and Experiment Uncover Complementary Regulation in the Circadian System Neurospora crassa Microbial Physiology
Chain, Patrick Los Alamos National Laboratory Palmieri, FabioBacterial Oxalotrophy as a Biocontrol Mechanism against Fungal Pathogens Environmental Microbiology
Chain, Patrick Los Alamos National Laboratory Rodrigues, Debora Diversity of endo- and exo-bacteria associated with soil fungi Environmental Microbiology
Chain, Patrick Los Alamos National Laboratory Junier, PilarDemocratization of fungal highway columns as a tool to investigate bacteria associated with soil fungi Environmental Microbiology
Chain, Patrick Los Alamos National Laboratory Kelliher, JuliaUsing Gel Microdroplets to Investigate Bacterial Influence on Fungal Spore Germination Microbiome
Chain, Patrick Los Alamos National Laboratory Morales, DemostheensTaking a Closer Look at Bacterial & Fungal Interactions in Soil Using Imaging Microbiome
Chain, Patrick Los Alamos National Laboratory House, GeoffreyScreening Fungal Genome Sequencing Data and Culture Collections to Better Understand Bacterial:Fungal Interactions Microbiome
Church, George Harvard University Pawlowski, Andrew Deciphering Microbial Structures in situ Using Subcellular RNA Sequencing Technology Development
Church, George Harvard University Filsinger, Gabriel Establishing and optimizing RecT-mediated homologous recombination in bacteria beyond E. coli Technology Development
Church, George Harvard University Baas-Thomas, Maximilien Parallelized in vivo Construction of a Synthetic 57-Codon E. coli Genome Technology Development
Comai, Luca University of California - Davis Bastiaanse, Heloise Discovery and characterization of disease resistance loci using a unique gene copy number variant population Plant-Microbe Interactions
Coruzzi, Gloria New York University Eshel, Gil EvoNet: A Phylogenomic and Systems Biology approach to identify genes underlying plant survival in marginal, low-Nitrogen soils Computational Biology
Cuevas, Hugo USDA-ARS Tropical Agriculture Res Station Cuevas, Hugo Anthracnose resistant response of the USDA-NPGS sweet sorghum [Sorghum bicolor (L.)] germplasm collection Feedstock Development
Dantas, Gautam Washington University of Saint Louis Roell, Garrett A Concerted Systems Biology Analysis of Aromatic Metabolism in Rhodococcus opacus PD630 Lignin Valorization
Dantas, Gautam Washington University of Saint Louis Anthony, Winston Characterizing the transcriptomes of Rhodoccocus opacus strains adapted to model lignin breakdown products Lignin Valorization
Dantas, Gautam Washington University of Saint Louis Campbell, Tayte Multi-omic analysis of adapted Rhodococcus opacus strains for the characterization of aromatic metabolism Lignin Valorization
Dantas, Gautam Washington University of Saint Louis Shang, Zeyu Exploring the Aging of Lignin Breakdown Products for Biological Conversion Lignin Valorization
Davison, Brian Oak Ridge National Laboratory Davison, Brian Solvent-induced Membrane Disruption Revealed by Neutron Scattering and Molecular Simulation Microbial Physiology
Davison, Brian Oak Ridge National Laboratory O'Neill, Hugh Structural Characterization of Poplar Variants Provides New Insights into Plant Cell Wall Recalcitrance Feedstock Development
Davison, Brian Oak Ridge National Laboratory Petridis, Loukas Dynamics of the Lignin Glass Transition Lignin Valorization
DeAngelis, Kristen University of Massachusetts - Amherst Domeignoz-Horta, Luiz Influence of microbial diversity on carbon use efficiency in soils Environmental Microbiology
DeAngelis, Kristen University of Massachusetts - Amherst Pold, Grace Heavy, Wet, and Stuck in the Mud: Quantifying the Effect of Violating Common Assumptions of the 18OH2 Method of Measuring Carbon Use Efficiency Microbial Physiology
DeLucia, Evan University of Illinois - Urbana-Champaign Chen, Luoye Economic Incentives for Achieving Conservation and Renewable Energy Goals with the Conservation Reserve Program Sustainability
DeLucia, Evan University of Illinois - Urbana-Champaign Ma, Lanying Improved High-Throughput Quantification of Nitrogen Cycling Genes in Bioenergy Crop Soils Sustainability
DeLucia, Evan University of Illinois - Urbana-Champaign Ferin, KelsieEvaluating the Impact of Economic Policies on Water Quality within the Mississippi River Basin Sustainability
DeLucia, Evan University of Illinois - Urbana-Champaign Acquah, Sarah Using Marginal Lands for Bioenergy Crop Production in the Rainfed Regions of Continental U.S.: Economic Potential and Environmental Benefits Sustainability
DeLucia, Evan University of Illinois - Urbana-Champaign Hudiburg, Tara Modeling Energy Sorghum Emissions for the Rainfed United States Biogeochemistry
DeLucia, Evan University of Illinois - Urbana-Champaign Burnham, Mark The Nitrogen Biogeochemical Impacts of Energy Sorghum, a Potential Bioenergy Crop Biogeochemistry
DeLucia, Evan University of Illinois - Urbana-Champaign Brzostek, Edward Developing a Novel Plant-Microbial Interactions Model to Predict the Impacts of Bioenergy Crops on Soil Carbon and Nitrogen Cycling Plant-Microbe Interactions
DeLucia, Evan University of Illinois - Urbana-Champaign Belaffif, Mohammad Miscanthus sinensis Genome: Updates on the Genome Assembly and Analysis of the Transcriptome and Small RNA Feedstock Development
DeLucia, Evan University of Illinois - Urbana-Champaign Altpeter, Fredy Oilcane: Metabolic Engineering and Genome Editing to Improve Energy Density, Agronomic and Conversion Performance of Sugarcane Feedstock Development
DeLucia, Evan University of Illinois - Urbana-Champaign Sacks, Erik Genomics-Assisted Improvement of Abiotic Stress Tolerance and Yield in the Biomass Feedstock Crops Miscanthus and Saccharum Feedstock Development
DeLucia, Evan University of Illinois - Urbana-Champaign Kim, Sang Yeol A Role for Differential Rca Isoform Expression in C4 Bioenergy Grass Thermotolerance? Feedstock Development
DeLucia, Evan Agricultural Research Service Dien, Bruce Pelletization and Bioconversion of Big Bluestem, Switchgrass, and Low-Diversity Grass Mixtures into Sugars and Bioethanol Deconstruction
DeLucia, Evan University of Illinois - Urbana-Champaign Jagtap, Sujit Integrating transcriptomics and metabolomics in the oleaginous yeast Lipomyces starkeyi for the production of biofuels and bioproducts Conversion
DeLucia, Evan University of Illinois - Urbana-Champaign Cheng, Ming-Hsun Economics of Plant Oil Recovery: A Review Conversion
DeLucia, Evan University of Illinois - Urbana-Champaign WANG, YAJIE Cooperative Asymmetric Reactions Combining Photocatalysis and Enzymatic Catalysis Conversion
DeLucia, Evan University of Illinois - Urbana-Champaign Yoshikuni, Yasuo Population Genomics of Issatchenkia orientalis Reveals the Genetic Mechanisms of its Multi-Stress Tolerance Biosystems Design
DeLucia, Evan University of Illinois - Urbana-Champaign Hetti-Arachchilage, Madara Identification of Sorghum stem-preferred genes and their cis-regulatory elements through de novo promoter analysis Computational Biology
DeLucia, Evan University of Illinois - Urbana-Champaign Gupta, Meera Towards Quantifying The Central Dogma Of Molecular Biology On A Genome-Wide Scale Computational Biology
DeLucia, Evan University of Illinois - Urbana-Champaign Wang, Yu Toward a Dynamic Photosynthesis Model to Guide the Yield Improvement for C4 Energy Crop Computational Biology
DeLucia, Evan University of Illinois - Urbana-Champaign Müller Paul, Hans CROPSR: An Automated Platform for Complex-Genome Wide CRISPR gRNA Design and Validation Technology Development
Doktycz, Mitch Oak Ridge National Laboratory Schaefer, Amy Plant-Microbe Interfaces: Systematic discovery and prediction of novel LuxI-type quorum sensing signals in members of the Populus microbiome Microbial Physiology
Doktycz, Mitch Oak Ridge National Laboratory Michener, Joshua Plant-Microbe Interfaces: Measuring rates and consequences of horizontal gene transfer in the Populus rhizosphere Microbiome
Doktycz, Mitch Oak Ridge National Laboratory Pelletier, Dale Plant-Microbe Interfaces: Cultivating a representative Populus microbiome? Microbiome
Doktycz, Mitch Oak Ridge National Laboratory Podar, Mircea Plant-Microbe Interfaces: Accessing the hidden diversity of the poplar microbiota through targeted metagenomics and cultivation Microbiome
Doktycz, Mitch Oak Ridge National Laboratory Schadt, Christopher Plant-Microbe Interfaces: Effects of variation in host secondary chemistry across Populus genotypes on the composition of the rhizosphere microbiome Microbiome
Doktycz, Mitch Oak Ridge National Laboratory Morrell-Falvey, Jennifer Plant-Microbes Interfaces: Investigating microbial recruitment and colonization dynamics in the poplar microbiome Microbiome
Doktycz, Mitch Oak Ridge National Laboratory Yang, Xiaohan Plant-Microbe Interfaces: Functional characterization of small secreted proteins in poplar in relation to Populus-Laccaria symbiosis Plant-Microbe Interactions
Doktycz, Mitch Oak Ridge National Laboratory Muchero, Wellington Plant-Microbe Interfaces: Transcriptional co-regulation of MYB46 and WRKY33 by ANGUSTIFOLIA modulates Arabidopsis resistance towards biotrophic and necrotrophic pathogens Plant-Microbe Interactions
Doktycz, Mitch Oak Ridge National Laboratory Tschaplinski, Timothy Plant-Microbe Interfaces: The nature of the progression of drought stress drives differential metabolomic responses in Populus deltoides Plant-Microbe Interactions
Doktycz, Mitch Oak Ridge National Laboratory Chen, Jay Plant-Microbe Interfaces: From gene discoveries to molecular, genetic and biochemical validations in Populus Plant-Microbe Interactions
Doktycz, Mitch Oak Ridge National Laboratory Looney, Brian Plant-Microbe Interfaces: Assembly and function of the ectomycorrhizaome of Populus trichocarpa Plant-Microbe Interactions
Doktycz, Mitch Oak Ridge National Laboratory Hettich, Robert Plant-Microbe Interfaces: Detection and characterization of signaling polypeptides in plant-microbial systems using high-performance tandem mass spectrometry Plant-Microbe Interactions
Doktycz, Mitch Oak Ridge National Laboratory Jacobson, Daniel Plant-Microbe Interfaces: Integrated omics and phytobiome analysis of the adaptation of Populus deltoides to acute progressive drought and cyclic drought Computational Biology
Donohue, Tim University of Wisconsin - Madison Reid, Matthew Investigating Mechanisms of Soil Carbon Accrual and Protection in Bioenergy Cropping Systems Biogeochemistry
Donohue, Tim University of Wisconsin - Madison Askenasy, Isabel Approaches to Increasing Terpenoid Production in Zymomonas mobilis by Improving Activity of IspG and IspH of the MEP Pathway Microbial Physiology
Donohue, Tim Michigan State University Beschoren da Costa, Pedro Vertical niche analysis of rhizosphere and soil fungal and bacterial communities: A deep look into sustainable biofuel cropping systems Microbiome
Donohue, Tim University of Wisconsin - Madison Bell-Dereske, Lukas The Response of Bacterial Communities to Nitrogen Fertilization Depends on Temporal and Spatial Scale Microbiome
Donohue, Tim University of Wisconsin - Madison Scarborough, Matthew The Other Lignocellulosic Leftover: Conversion Residue Valorization with a Microbial Community Microbiome
Donohue, Tim Michigan State University Kim, Sang-Jin Modulating hemicellulose to improve bioenergy crops Feedstock Development
Donohue, Tim University of Wisconsin - Madison Meger, Anthony Development of Biosensors for High-throughput Enzyme Screens Deconstruction
Donohue, Tim University of Wisconsin - Madison Vander Meulen, Kirk The Structure and Specificity Landscape of a Glycoside Hydrolase Family Deconstruction
Donohue, Tim University of Wisconsin - Madison Zhang, Yaoping Comparative Studies of Diverse Lignocellulosic Feedstocks for Microbial Biofuel Synthesis and the Impact on the Biorefinery Conversion
Donohue, Tim Michigan State University Klinger, Grace Biomimetic Lignin Cleavage Using Small Thiols Lignin Valorization
Donohue, Tim University of Wisconsin - Madison Li, Yanding Kinetic and mechanistic insights into hydrogenolytic production of lignin monomers in a continuous flow-through system Lignin Valorization
Donohue, Tim University of Wisconsin - Madison Perez, Jose Microbial Conversion of Chemically Depolymerized Lignin Into Valuable Compounds Lignin Valorization
Donohue, Tim University of Wisconsin - Madison Wolters, John Producing Valuable Bioproducts from the Waste Residue of Biofuel Production Metabolic Engineering
Donohue, Tim University of Wisconsin - Madison Throckmorton, Kurt Using Engineered Streptomyces for Production of Fatty Acids and Isoprenoids from Lignocellulosic Biofuel Conversion Residue Metabolic Engineering
Donohue, Tim University of Wisconsin - Madison Tatli, Mehmet Overexpression and Metabolic Regulation of Z. mobilis MEP Pathway Enzymes Metabolic Engineering
Donohue, Tim University of Wisconsin - Madison Lal, Piyush Genetics in Zymomonas mobilis ZM4 Metabolic Engineering
Donohue, Tim University of Wisconsin - Madison Krause, David Engineering Alternative Model Yeast Species for Biofuel Production Metabolic Engineering
Donohue, Tim University of Wisconsin - Madison McKinley, Brian Regulation of biomass yield and composition of energy sorghum stems Biosystems Design
Donohue, Tim University of Wisconsin - Madison Fasahati, Peyman Advanced Biofuels of the Future: Atom-Economical or Energy–Economical? Technology Development
Dunbar, John Los Alamos National Laboratory Johansen, Renee Microbial lineages linked to decomposition outcomes across multiple litter types Environmental Microbiology
Dunbar, John Los Alamos National Laboratory Ulrich, Danielle Dissolved organic carbon (DOC) abundance links to microbial and DOC composition in soil Environmental Microbiology
Dunbar, John Los Alamos National Laboratory Dunbar, John Role Of Geographic Scale In Likelihood Of Microbial Driven Variation In Litter Decomposition Environmental Microbiology
Dunbar, John Los Alamos National Laboratory Albright, Michaeline Principles for Successfully Engineering Microbial Community Functioning Microbiome
Dunlop, Mary Boston University Dunlop, Mary High-throughput Chemical Imaging for Optimizing Biofuel Synthesis Using Synthetic Biology Biosystems Design
Dyer, John USDA-ARS Dyer, John Genomics and Phenomics to Identify Yield and Drought Tolerance Alleles for Improvement of Camelina as a Biofuel Crop Feedstock Development
Eisenstein, Edward Institute for Bioscience and Biotechnology Research Eisenstein, Ed Identification and Characterization of Rust Effectors that Affect Host Immunity Feedstock Development
Firestone, Mary University of California - Berkeley Yuan, Mengting Exploring Potential Interactions of Bacteria and Arbuscular Mycorrhizal Fungi Using Network Analyses of an Annual Grassland Soils Microbiome
Firestone, Mary University of California - Berkeley Nicolas, Alexa Diversity of Viruses in Soil: Do Interactions with Soil Organisms Impact Carbon Flow? Microbiome
Firestone, Mary University of California - Berkeley Ceja-Navarro, Javier Characterizing the Multitrophic Interactions that Mediate Carbon Flow in Soil and their Responses to Drought Microbiome
Firestone, Mary University of California - Berkeley Zhalnina, Kateryna Molecular basis of plant-microbe-soil interactions shaping microbial communities and ecosystem function in a Mediterranean grassland Microbiome
Firestone, Mary University of California - Berkeley Estera-Molina, Katerina Following Soil Carbon Cycling under Reduced Precipitation in a California Annual Grassland Microbiome
Firestone, Mary University of California - Berkeley Kuang, Jialiang Effects of Switchgrass (Panicum virgatum L.) on Deep Carbon Pools in Marginal Lands Plant-Microbe Interactions
Firestone, Mary University of California - Berkeley Nuccio, Erin Plant-microbe and microbe-microbe interactions mediate switchgrass sustainability: Following rhizosphere microbial communities during switchgrass establishment Plant-Microbe Interactions
Firestone, Mary University of California - Berkeley Ding, Na Unravelling Rhizosphere-microbial Interactions in the Rhizosphere of Alamo Switchgrass (Panicum virgatum) under Abiotic Stresses Plant-Microbe Interactions
Firestone, Mary University of California - Berkeley Bates, Colin Conversion of Natural Grassland into Biofuel Crops (Switchgrass, Panicum virgatum L.) is Associated with Reduction in Methane Consumption Plant-Microbe Interactions
Firestone, Mary University of California - Berkeley Firestone, Mary Performance of Switchgrass 'Alamo' Population and Selections for Sustainable Production on Marginal Soils under Low-Input Management Plant-Microbe Interactions
Funnell-Harris, Deanna Agricultural Research Service Funnell-Harris, Deanna Resistance to Stalk Pathogens for Bioenergy Sorghum Feedstock Development
Gardner, Jeffrey University of Maryland - Baltimore County Gardner, Jeffrey Saprophytic Bacterium Cellvibrio japonicus Has Selective CAZyme Requirements During Physiologically Relevant Hemicellulose Degradation Microbial Physiology
Gill, Ryan University of Colorado - Boulder Habib, Margaret Design and engineering of native regulatory networks in non-model microbes Metabolic Engineering
Gill, Ryan University of Colorado - Boulder Freed, Emily Design and Engineering of Synthetic Control Architectures for Complex Phenotypes in E. coli and Yeast Metabolic Engineering
Gill, Ryan University of Colorado - Boulder Chen, Ye Automated Circuit Design in Saccharomyces cerevisiae Biosystems Design
Gill, Ryan University of Colorado - Boulder Oh, Eun Joong CRISPR-based trackable protein engineering Biosystems Design
Glass, Louise Lawrence Berkeley National Laboratory Jabusch, Lauren m-CAFEs: EcoFABs: Investigating Soil Microbe-Plant Interactions in Regulated Ecosystems Technology Development
Glass, Louise Lawrence Berkeley National Laboratory Nethery, Matthew m-CAFEs Applications of Targeted Killing and Editing Methods in Microbial Networks Technology Development
Glass, Louise Lawrence Berkeley National Laboratory Heller, Jens m-CAFEs: The use of EcoFABs to study beneficial plant-fungus interactions Technology Development
Hofmockel, Kirsten Pacific Northwest National Laboratory Hofmockel, KIrsten Molecular Composition of Field Derived Microbial Necromass Microbiome
Hungate, Bruce Northern Arizona University Koch, Ben Genomic traits predict microbial growth in culture but fail in soils, except during resource pulses Biogeochemistry
Hungate, Bruce Northern Arizona University Hungate, Bruce Can we measure taxon-specific biochemical efficiency in natural microbial communities? Biogeochemistry
Hungate, Bruce Northern Arizona University Morrissey, Ember Evolutionary history constrains microbial traits across environmental variation Environmental Microbiology
Jamann, Tiffany University of Illinois - Urbana-Champaign Jamann, Tiffany Conserved Genetic Mechanisms for Biotic Stress in Sorghum Plant-Microbe Interactions
Jansson, Janet Pacific Northwest National Laboratory McDermott, Jason Untapped Viral Diversity in Global Soil Metagenomes Microbiome
Jansson, Janet Pacific Northwest National Laboratory Anderton, Christopher Soil Moisture Modulates Inter-kingdom Interactions as Visualized Using a Simulated Soil Core Microbiome
Jansson, Janet Pacific Northwest National Laboratory Lipton, Mary Probing the Relationship Between Osmolytes and Respiration in Soils - in Real Time Microbiome
Jansson, Janet Pacific Northwest National Laboratory Jansson, Janet Determining the Soil Microbiome Community Phenotype "Metaphenome" in Response to Changing Soil Moisture and Carbon Content Microbiome
Jansson, Janet Pacific Northwest National Laboratory Song, Hyun-Seob Integrative Network Modeling for Predicting Biochemical Signatures in Complex Soil Systems Microbiome
Jansson, Janet Pacific Northwest National Laboratory McClure, Ryan Development and Analysis of Reduced Complexity Microbial Consortia Emerging from Native Grassland Soil Systems Microbiome
Jardine, Kolby Lawrence Berkeley National Laboratory Jardine, Kolby Poplar Esterified Cell Wall Transformations and Metabolic Integration (PECTIN) Study Metabolic Engineering
Jewett, Michael Northwestern University Rasor, Blake Enhancing Control of Cell-free Metabolism Through pH Modulation Metabolic Engineering
Jewett, Michael Northwestern University Koepke, Michael Mining the largest collection industrially-deployed Clostridium strains for highly-evolved gene variants related to improved productivity and industrial robustness Biosystems Design
Jewett, Michael Northwestern University Kruger, Antje Development of a Clostridia Cell-free Platform Facilitating Accelerated Engineering of Clostridia Strains Biosystems Design
Jewett, Michael Northwestern University Tyo, Keith Computational tools to predict novel chemical reactions and metabolic network behavior Computational Biology
Joeh, Tina and Holman, Hoi-Ying University of California - Davis; Lawrence Livermore National Laboratory Montazeri, Arthur Plasmonic graded gratings for super resolution mid-IR imaging and spectromicroscopy Bioimaging
Juenger, Thomas University of Texas - Austin Singer, Esthr Microbial successions in switchgrass roots Microbiome
Juenger, Thomas University of Texas - Austin Juenger, Thomas Climate adaptation and sustainability in switchgrass: exploring plant-microbe-soil interactions across continental scale environmental gradients Sustainability
Keasling, Jay Lawrence Berkeley National Laboratory Baral, Nawa Biomass Sorghum Supply Systems for Advanced Biofuel Production Sustainability
Keasling, Jay Lawrence Berkeley National Laboratory Mishra, Umakant Machine Learning for Bioenergy Sorghum Yield Prediction under Future Climate Scenarios Sustainability
Keasling, Jay Lawrence Berkeley National Laboratory Mukhopadhyay, Aindrila Importance of metabolic state for efficiency of bioproduction using nonribosomal peptide synthetase Microbial Physiology
Keasling, Jay Lawrence Berkeley National Laboratory Scheller, Henrik Drought and Bioenergy Grasses: Effects of Drought on Biomass Composition and Effect of Biomass Composition on Drought Tolerance Feedstock Development
Keasling, Jay Lawrence Berkeley National Laboratory Satish Kumar, Kavitha Field testing of a low lignin engineering strategy in switchgrass Feedstock Development
Keasling, Jay Lawrence Berkeley National Laboratory Mortimer, Jenny Applying Multi-dimensional Solid-state NMR to Explore the Nanoarchitecture of Native and Engineered Plant Cell Walls Feedstock Development
Keasling, Jay Lawrence Berkeley National Laboratory Achinivu, Ezinne Direct Biomass Conversion through the One-Pot Ionic Liquid Technology Deconstruction
Keasling, Jay Lawrence Berkeley National Laboratory Simmons, Blake Development and demonstration of CRISPR/Cas9 platform for Aspergillus niger Deconstruction
Keasling, Jay Lawrence Berkeley National Laboratory Singer, Steven The response of Pseudomonas putida to a sorghum lignolysate Deconstruction
Keasling, Jay Lawrence Berkeley National Laboratory Wolski, Paul Investigating Lignin Modifying Enzymes and their Synergistic Effect with Ionic Liquid Pretreatment Deconstruction
Keasling, Jay Lawrence Berkeley National Laboratory Comyn, S.A. Heterologous Production of Lignin Modifying Enzymes in Aspergillus niger Deconstruction
Keasling, Jay Lawrence Berkeley National Laboratory Eudes, Aymerick Lignin Manipulation in Feedstocks Towards Lignin Valorization and Bioproducts Lignin Valorization
Keasling, Jay Lawrence Berkeley National Laboratory Blake-Hedges, Jacquelyn Structural and Biochemical Investigation of Terminal Alkene Formation in Allylmalonyl-CoA Biosynthesis Metabolic Engineering
Keasling, Jay Lawrence Berkeley National Laboratory Lee, Taek Isopentenol Production Using the IPP-Bypass Mevalonate Pathway Metabolic Engineering
Keasling, Jay Lawrence Berkeley National Laboratory Hillson, Nathan Collaboration with the Experiment Data Depot Biosystems Design
Keasling, Jay Lawrence Berkeley National Laboratory Garcia Martin, Hector Quantitative metabolic modeling at the Joint BioEnergy Institute Computational Biology
Keasling, Jay Lawrence Berkeley National Laboratory Chen, Yan Development Of An Automated "Cells-To-Peptides" Sample Preparation Workflow For High-Throughput Quantitative Proteomic Applications Technology Development
Keasling, Jay Lawrence Berkeley National Laboratory Ing, Nicole Developing a Targeted Mass-Spectrometry Platform for High-Throughput Characterization of Lignocellulosic Biomass Deconstruction Technology Development
Keasling, Jay Lawrence Berkeley National Laboratory Gaillard, William An Automated Microfluidic System for On-Chip Genetic Engineering Processes Technology Development
Kirst, Matias University of Florida Folk, Ryan NitFix: Global-Scale Phylogenomics of the Nitrogen-fixing Clade Feedstock Development
Kirst, Matias University of Florida Conde, Daniel NitFix: Phylogenomic Discovery and Engineering of Nitrogen Fixation into the Bioenergy Woody Crop Poplar Feedstock Development
Kirst, Matias University of Florida Maia, Lucas NitFix: Engineering Root Nodule Symbiosis in Populus sp. Feedstock Development
Kirst, Matias University of Florida Kirst, Matias NitFix: Identification of Conserved Non-Coding Sequences in Nitrogen Fixing Plants Feedstock Development
Lea, Scott Pacific Northwest National Laboratory O'Callahan, Brian Ultrasensitive vibrational nano-spectroscopy of protein complexes and biological crystals Bioimaging
LeBoldus, Jared Oregon State University LeBoldus, Jared Towards durable resistance to Septoria stem canker and leaf spot: a molecular understanding of resistance. Plant-Microbe Interactions
Lee, Sang-Hyuk Rutgers University Chundawat, Shishir In planta multimodal single-molecule imaging to study real-time turnover dynamics of polysaccharides and associated carbohydrate metabolites Bioimaging
Lemaux, Peggy University of California - Berkeley Lemaux, Peggy EPICON: From Leaves to Roots to Microbes – How Sorghum and Its Microbiome Respond to Drought Feedstock Development
Lidstrom, Mary University of Washington Chistoserdova, Ludmila Novel Insights into Rare Earth-Mediated Metabolisms, Aerobic Methanotrophy under Hypoxia, and the Role of Nitrogen Species in Methane Oxidation Microbial Physiology
Long, Stephen University of Illinois - Urbana-Champaign Kannan, Baskaran Overcoming Recalcitrance of Genetic Transformation in Energycane for Improving Cold Tolerance and Biomass Yield Biosystems Design
Long, Stephen University of Illinois - Urbana-Champaign Chan, Kher Xing Improving Photosynthesis in C4 Bioenergy Crops Biosystems Design
Long, Stephen University of Illinois - Urbana-Champaign Cerazy-Waliszewska, Joanna Biolistic Transformation of Miscanthus Species. Preliminary Studies. Biosystems Design
Long, Stephen University of Illinois - Urbana-Champaign Kumar, Deepak Techno-economic Feasibility Analysis of Biodiesel and Ethanol Co-production from Lipid-producing Energycane Biosystems Design
Long, Stephen University of Illinois - Urbana-Champaign Lee, Moonsub Characterizing photosynthetic capacity of sugarcane under fluctuating lights Biosystems Design
Long, Stephen University of Illinois - Urbana-Champaign Luo, Guanbin Modular Assembly of Gene Constructs for Engineering Lipid Accumulation into Energycane Biosystems Design
Long, Stephen University of Illinois - Urbana-Champaign Wang, Jiang Optimizing RNA in situ Hybridization for Stem Parenchyma Cell-specific Promoter Characterization in Energycane Biosystems Design
Lowry, David Michigan State University Bohrer, Anne-Sophie Identifying Physiological and Metabolic Response Mechanisms Associated with Divergence in Chilling and Freezing Tolerance Between Upland and Lowland Switchgrass Cultivars Sustainability
Lowry, David Michigan State University VanWallendal, Acer Genetics and Environmental Contributions to Switchgrass Biofuel Traits Feedstock Development
Lowry, David Michigan State University Lowry, David Identification of Adaptive Fungal Pathogen Resistance Loci in Switchgrass Feedstock Development
Lu, Chaofu Montana State University Lu, Chaofu Systems Biology to Improve Camelina Seed and Oil Quality Traits Feedstock Development
Lu, Ting University of Illinois - Urbana-Champaign Lu, Ting Designing Microbial Consortia with Defined Social Interactions Biosystems Design
Martienssen, Robert Cold Spring Harbor Laboratory Martienssen, Robert Biological Design of Lemnaceae Aquatic Plants for Biodiesel Production Biosystems Design
Mitchell, Julie Oak Ridge National Laboratory Sedova, Ada Genome to Structure: From Multiple Sequence Alignment to Virtual Ligand Screening Using Co-Evolutionary Protein-Residue Contact-Prediction in KBase Computational Biology
Moran, James Pacific Northwest National Laboratory Moran, James Evaluating Biogeochemical Processes Within Microenvironments Along the Root-rhizosphere-soil Continuum Plant-Microbe Interactions
Mouser, Paula University of New Hampshire Mouser, Paula Influence of Biogeochemistry and Engineering Controls on Microbial Growth, Membrane Features, and Interactions with Shale Matrices in Engineered Energy Systems Environmental Microbiology
Muchero, Wellington Oak Ridge National Laboratory Muchero, Wellington Immune-suppressing pattern recognition receptors mediate host-driven recruitment of microbes Plant-Microbe Interactions
Niyogi, Krishna University of California - Los Angeles Gallaher, Sean Single-Molecule, Whole-Transcript Sequencing of the Transcriptome of the Green Microalga Chromochloris zofingiensis to Accurately Annotate Gene Models and Identify Splice Variants Microbial Physiology
Niyogi, Krishna University of California - Berkeley Hu, Yuntao Lipidomics analysis of the emerging model green alga Chromochloris zofingiensis Biosystems Design
Niyogi, Krishna University of California - Berkeley Foflonker, Fatima Comparative Genomic and Transcriptomic Analyses for Pathway Discovery in Chromochloris zofingiensis Biosystems Design
Niyogi, Krishna University of California - Berkeley Jeffers, Tim Iron and Nitrogen Regulate Trophic Transitions and Metabolism in the Green Alga Chromochloris zofingiensis Biosystems Design
Niyogi, Krishna University of California - Berkeley Metcalf, Alexander Genome-scale Metabolic Model of Chromochloris zofingiensis, an Emerging Model Organism for Sustainable Fuel Production Biosystems Design
Niyogi, Krishna University of California - Berkeley Roth, Melissa A Molecular Switch for Oxygenic Photosynthesis and Metabolism in the Emerging Oleaginous Model Green Alga Chromochloris zofingiensis Biosystems Design
Niyogi, Krishna University of California - Berkeley Westcott, Daniel Advancing the Chromochloris zofingiensis molecular toolkit Biosystems Design
Northen, Trent Lawrence Berkeley National Laboratory Van Goethem, Marc The dynamic responses of biological soil crust communities revealed by wetting experiments coupled with metagenomics Environmental Microbiology
Orphan, Victoria University of Georgia - Athens He, Xiaojia Reactive Transport Modeling of Microbial Processes: Cell Aggregate-scale Models and Upscaling Using Pore-scale Simulations Biogeochemistry
Orphan, Victoria California Institute of Technology Chadwick, Grayson Comparative genomic and activity-based analyses reveal widespread potential for direct extracellular electron transfer among diverse methane-oxidizing ANME archaea Environmental Microbiology
Pakrasi, Himadri Washington University of Saint Louis Czajka, Jeffrey Metabolic Analysis of Cyanobacteria Carboxysome Mutant Indicates a More Flexible lux Network for Bio-manufacturing Microbial Physiology
Pakrasi, Himadri Washington University of Saint Louis Hendry, John Irudaya Raj Genome-scale fluxome of the fast-growing cyanobacterium Synechococcus elongatus UTEX 2973 Metabolic Engineering
Pakrasi, Himadri Washington University of Saint Louis Banerjee, Anindita Systems analysis of a fast growing N2-fixing cyanobacterium for production of advanced biofuels and nitrogen-containing petrochemical replacement compounds Metabolic Engineering
Papoutsakis, Terry University of Delaware Charubin, Kamil Syntrophic co-cultures of Clostridium organisms to produce higher alcohols and other C6-C8 metabolites Metabolic Engineering
Peay, Kabir Stanford University Van Nuland, Michael Environmental Drivers of the North American Populus Microbiome Plant-Microbe Interactions
Peter, Gary University of Florida Peter, Gary Enhanced Resistance Pines for Improved Renewable Biofuel and Chemical Production Feedstock Development
Pett-Ridge, Jennifer Lawrence Livermore National Laboratory Pett-Ridge, Jennifer The Impacts of Redox Periodicity on Microbial Community Structure and Carbon Transformations in a Wet Tropical Forest Soil Environmental Microbiology
Pett-Ridge, Jennifer Lawrence Livermore National Laboratory Greenlon, Alex Linking Microbial Growth to Edaphic Variation Across a Mediterranean-Grassland Precipitation Gradient Using Shotgun-Metagenomic qSIP Microbiome
Pett-Ridge, Jennifer Lawrence Livermore National Laboratory Kimbrel, Jeffrey Microbes Persist: Building a KBase Foundation for Viral Ecogenomics In Soil Microbiome
Pett-Ridge, Jennifer Lawrence Livermore National Laboratory Foley, Megan Quantitative Stable Isotope Probing to Measure Microbial Growth and Activity Microbiome
Pett-Ridge, Jennifer Lawrence Livermore National Laboratory Blazewicz, Steve Taxon-Specific Growth and Mortality Rates of Bacteria in Soil Following the Rewetting of a Seasonally Dried Grassland Microbiome
Pett-Ridge, Jennifer Lawrence Livermore National Laboratory Sieradzki, Ella Sensitivity Analysis and Methodological Improvements for Quantitative Stable Isotope Probing Microbiome
Rich, Virginia Ohio State University Wilson, Rachel Integrating Metabolomics and Proteomics Reveals Biotic and Abiotic Controls on CO2 and CH4 Production in Peatlands Biogeochemistry
Rich, Virginia Ohio State University Rich, Virginia Genome-resolved Insights Into Permafrost Thaw Processes Environmental Microbiology
Rich, Virginia Ohio State University Sullivan, Matthew Role of Viruses in Carbon Processing Along a Permafrost Thaw Gradient Environmental Microbiology
Rich, Virginia Ohio State University Hodgkins, Suzanne Solving Multi-disciplinary, Multi-Scale, Interactive Data Management for Heterogeneous Users: The IsoGenieDB Technology Development
Sacks, Erik University of Illinois - Urbana-Champaign Sacks, Erik Introgression of Novel Disease Resistance Genes from Miscanthus into Energycane Feedstock Development
Salis, Howard Pennsylvania State Univeristy Salis, Howard Next-generation Synthetic Biology Technologies for Controlling Metabolism in Clostridia Metabolic Engineering
Schachtman, Daniel University of Nebraska - Lincoln Schachtman, Daniel Traits for Development of Sustainable Energy Sorghum Biofuel Feedstock Production in Marginal Environments Sustainability
Schachtman, Daniel University of Nebraska - Lincoln Ozersky, Phlip Storage, Integration and Dissemination of data for a multi-disciplinary project. Sustainability
Schachtman, Daniel University of Nebraska - Lincoln Cousins, Asaph Leaf Carbon and Nitrogen Isotope Composition in Diverse Sorghum Lines Under Differential Water and Nitrogen Treatments Sustainability
Schachtman, Daniel University of Nebraska - Lincoln Tringe, Susannah Sorghum root microbiome dynamics under nutrient-limited and drought conditions Microbiome
Schachtman, Daniel University of Nebraska - Lincoln Eveland, Andrea Defining the Functional Genome Associated with Enhanced Water and Nitrogen Use Efficiency in Bioenergy Sorghum Biosystems Design
Schachtman, Daniel University of Nebraska - Lincoln Prenni, Jessica The Metabolome of Early Season Sorghum Plant Tissue is Predictive of End of Season Biomass Computational Biology
Schilling, Jonathan University of Minnesota Castano, Jesus Gene Regulatory Networks Enabling Fungi to Selectively Extract Sugars from Lignocellulose Microbial Physiology
Schnell, Danny Michigan State University Carey, Lisa The Metabolic Basis of Low Biosynthetic Efficiency in an Oilseed Metabolic Engineering
Schnell, Danny Michigan State University Sederoff, Heike Strategies to Increase Photosynthetic Efficiency, CO2 Fixation and Resource Allocation in Crops. Metabolic Engineering
Schnell, Danny Michigan State University Grotewold, Erich Transcriptional Regulatory Network Analysis to Increase Yields in Camelina Metabolic Engineering
Schnell, Danny Michigan State University Schnell, Danny Enhancing chloroplast-mitochondrial metabolic networks to improve photosynthesis and crop yields Biosystems Design
Sedbrook, John Other Sedbrook, John Advancing Field Pennycress as a New Oilseed Biofuels Feedstock that does not Require New Land Commitments Feedstock Development
Stuart, Rhona Lawrence Livermore National Laboratory Hui, Colleen Changes to the elemental composition of the green alga Chlamydomonas reinhardtii based on variations in cultivation conditions Microbial Physiology
Stuart, Rhona Lawrence Livermore National Laboratory Lane, Todd Chemical and Proteomic Profiling of Organic Compounds for Detecting Algal Interactions with Grazers and Commensalistic Bacteria Microbiome
Stuart, Rhona Lawrence Livermore National Laboratory Samo, Ty Characterization of microalgal-bacterial symbioses at the microscale to examine association-dependent remineralization processes at the single-cell level Microbiome
Stuart, Rhona Lawrence Livermore National Laboratory Cheng, Yiwei Model exploration of carbon feedbacks between microalgae and heterotrophic bacteria Microbiome
Stuart, Rhona Lawrence Livermore National Laboratory Ward, Christopher Multitrophic considerations critical to understanding algal pond ecosystems Microbiome
Stuart, Rhona Lawrence Livermore National Laboratory D'haeseleer, Patrik Improving Draft Metabolic Models in KBase: Tools for Importing, Comparing and Merging Metabolic Annotations Computational Biology
Tabita, Bob Ohio State University Tabita, Bob Novel Microbial Routes to Synthesize Industrially Significant Precursor Compounds Microbial Physiology
Tas Baas, Neslihan Lawrence Berkeley National Laboratory Tas Baas, Neslihan Understanding the microbial controls on biogeochemical cycles in permafrost ecosystems Microbiome
Trinh, Cong University of Tennessee Walker, Caleb Understanding Exceptional Ionic Liquid Tolerance in Yarrowia lipolytica Metabolic Engineering
Trinh, Cong University of Tennessee Ryu, Seunghyun Harnessing robustness of Yarrowia lipolytica for effective utilization of undetoxified biomass hydrolysates Metabolic Engineering
Tullman-Ercek, Danielle Northwestern University Tullman-Ercek, Danielle Employing Bacterial Microcompartments To Create Privileged Redox Pools for Biofuel Production Metabolic Engineering
Tuskan, Gerald Oak Ridge National Laboratory Guss, Adam Isolation and Rapid Domestication of Non-Model Microbial Hosts for Biofuels Production Plant-Microbe Interactions
Tuskan, Gerald Oak Ridge National Laboratory Labbe, Jessy Investigating the Role of Beneficial Microbes Reducing the Rust Infection Severity in Populus Plant-Microbe Interactions
Tuskan, Gerald Oak Ridge National Laboratory Ray, Prasun Development of Consortia of Beneficial Microbes for Switchgrass and Consequences of Their Deployment on Native Soil Microbiome Plant-Microbe Interactions
Tuskan, Gerald Oak Ridge National Laboratory Kalluri, Udaya Aboveground Effects of Beneficial Microbe Co-Culture with Populus Cell Wall Chemistry Variants Plant-Microbe Interactions
Tuskan, Gerald Oak Ridge National Laboratory Missaoui, Ali Manipulation of Seasonal Dormancy as a Strategy to Improve Switchgrass Biomass Yield Feedstock Development
Tuskan, Gerald Oak Ridge National Laboratory Millwood, Reginald Development and Optimization of Unmanned Aerial Vehicle High-Throughput Phenotyping of Field-Grown Switchgrass Feedstock Development
Tuskan, Gerald Oak Ridge National Laboratory Macaya-Sanz, David Recombination and Segregation Genomic Patterns in Populus to Facilitate Genomic Selection Feedstock Development
Tuskan, Gerald Oak Ridge National Laboratory Chen, Jay Expression Quantitative Trait Nucleotide (eQTN) Mapping Reveals Transcriptional Regulatory Networks in Populus trichocarpa Feedstock Development
Tuskan, Gerald Oak Ridge National Laboratory Amos, Robert Mechanisms of Plant Cell Wall Polysaccharide Biosynthesis: A Two-Phase Model for the Non-Processive Biosynthesis of Homogalacturonan Polysaccharides by the GAUT1:GAUT7 Complex Deconstruction
Tuskan, Gerald Oak Ridge National Laboratory Knott, Brandon Glycosylation is Vital for Industrial Performance of Hyper-Active Cellulases Deconstruction
Tuskan, Gerald Oak Ridge National Laboratory Alcaraz, Christian Lignin Removal Controls Kinetics of Biomass Deconstruction by Consolidated Bioprocessing Deconstruction
Tuskan, Gerald Oak Ridge National Laboratory Korosh, Travis Quantitative Network Analysis in Clostridium thermocellum using 13C and 2H-tracers Conversion
Tuskan, Gerald Oak Ridge National Laboratory Ghosh, Sanchari Effectiveness of Cotreatment during Fermentation on Various Feedstocks, Impact on Different Microbes, and Changes in Biomass Physical Properties Conversion
Tuskan, Gerald Oak Ridge National Laboratory Eckert, Carrie Engineering CRISPR/Cas Systems for Genome Editing in Clostridium thermocellum Conversion
Tuskan, Gerald National Renewable Energy Laboratory Salvachua, Davinia Unraveling New Mechanisms for Lignin Catabolism in Nature Lignin Valorization
Tuskan, Gerald University of North Texas Chen, Fang Lignin Valorization: Biosynthesis and Bioengineering of an Ideal Lignin Lignin Valorization
Tuskan, Gerald Oak Ridge National Laboratory Fenster, Jacob CRISPR-Tool Development in Pseudomonas putida KT2440 for High-Titer Strain Engineering and Multiplexed Approaches Metabolic Engineering
Tuskan, Gerald Oak Ridge National Laboratory Streich, Jared The GWAS Times: A Time-Series Aware GWAS to Detect Natural Climate Adaptations in Arabidopsis and Populus Computational Biology
Tuskan, Gerald Oak Ridge National Laboratory Kainer, David Exploiting Nature’s Knockouts: How the Pangenome Reveals New Insights into Poplar Phenotypic Variation Computational Biology
Tuskan, Gerald Oak Ridge National Laboratory Tsai, Chung-Jui CRISPR Genome Editing in Populus Technology Development
Tyo, Keith Northwestern University Biggs, Bradley Prospecting thiamine diphosphate-dependent carboligases and characterizing their promiscuity to create novel metabolic pathways from primary metabolites Metabolic Engineering
Vasdekis, Andreas University of Idaho Vasdekis, Andreas Single-Cell Imaging of Enzyme, Production and Growth Dynamics in Biofuel Producing Microorganisms Bioimaging
Wang, Jin Auburn University Hilliard, Matthew Methanotroph-Photoautotroph Coculture – A Flexible Platform for Efficient Biological CO2-CH4 Co-utilization Conversion
Wang, Jin Auburn University Badr, Kiumars Tools for Easy, Fast and Accurate Quantitative Characterization of the Methanotroph-Photoautotroph Coculture Conversion
Weston, David Oak Ridge National Laboratory Weston, David Determining the genetic and environmental factors underlying mutualism within a Sphagnum peatmoss microbiome system Plant-Microbe Interactions
Westpheling, Jan University of Georgia - Athens Westpheling, Janet Development of emerging model microorganisms: Megasphaera elsdenii for biomass and organic acid upgrading to fuels and chemicals Metabolic Engineering
Wheeldon, Ian University of California - Riverside Wheeldon, Ian Developing the thermotolerant yeast Kluyveromyces marxianus as a host for next generation bioprocessing Metabolic Engineering
Wrighton, Kelly Colorado State University Narrowe, Adrienne Scaling from genomes to methane emission: targeting critical knowledge gaps in wetland soils Microbiome
Yeates, Todd University of California - Los Angeles Davidi, Lital Orchestrated Response of Dunaliella for Coping with Iron Limitation Environmental Microbiology
Yeates, Todd University of California - Los Angeles Castruita, Madeli Cadmium Toxicity Impacts the Transcriptome and Global Mineral Homeostasis in Chlamydomonas reinhardtii Environmental Microbiology
Yeates, Todd University of California - Los Angeles Strenkert, Daniela Correlation of periodic changes in the transcriptome and proteome in the Chlamydomonas cell cycle Environmental Microbiology
Yeates, Todd University of California - Los Angeles Schmollinger, Stefan Multivariant RNAseq reveal novel players in algae nitrogen metabolism Environmental Microbiology
Yeates, Todd University of California - Los Angeles Muroski, John Characterization of the Methanosaeta concilii Sheath, a Remarkably Resilient Protein Assembly Microbial Physiology
Yeates, Todd University of California - Los Angeles Sherkhanov, Saken Synthetic Biochemistry: Making Biofuels and Commodity Chemicals the Cell-Free Way Metabolic Engineering
Yeates, Todd University of California - Los Angeles Valliere, Meaghan Cell-free enzymatic biosynthesis of cannabinoids Metabolic Engineering
Yeates, Todd University of California - Los Angeles Gosschalk, Jason Advances to Determine the Factors that Govern Stable Protein-display in the Model Gram-positive Bacterium Bacillus subtilis Metabolic Engineering
Yeates, Todd University of California - Los Angeles Hughes, Michael LARKSdb: a tool for proteome-wide identification of functional low-complexity domains of proteins Computational Biology
Yeates, Todd University of California - Los Angeles Yeates, Todd A Designed Scaffold for Near-Atomic Resolution Cryo-EM Imaging of Small Proteins Computational Biology
Yeates, Todd University of California - Los Angeles Cannon, Kevin Application of a Designed Protein Cage to Increase Pathway Flux of Cellulolysis Technology Development
Young, Jamey Vanderbilt University Cheah, Yi Ern Systematic debottlenecking of isobutyraldehyde production in cyanobacteria Metabolic Engineering
Young, Jamey Vanderbilt University Zheng, Amy Modeling carbon metabolism of the diatom Phaeodactylum tricornutum Metabolic Engineering
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Zhao, Huimin University of Illinois - Urbana-Champaign Deewan, Anshu Transcriptome and metabolome analysis of the oleaginous yeast Rhodosporidium toruloides uncovered new gene targets for metabolic engineering Conversion
Zhao, Huimin University of Illinois - Urbana-Champaign Mishra, Shekhar Model-guided analysis of the role of OPI1 and RPD3 transcription factors in hexadecanol overproduction strategies Metabolic Engineering
Zhao, Huimin University of Illinois - Urbana-Champaign Fatma, Zia Development of a genetic toolbox for metabolic engineering of Issatchenkia orientalis Metabolic Engineering
Zhao, Huimin University of Illinois - Urbana-Champaign Subramanian, Arjuna Quantifying Metabolic Enzyme Variation in Non-Model Yeasts Biosystems Design
Zhao, Huimin University of Illinois - Urbana-Champaign Xiao, Tianxia Oxidative Pentose Phosphate Pathway is the Major Cytosolic NADPH Source in Rhodosporidium toruloides Biosystems Design
Zhao, Huimin University of Illinois - Urbana-Champaign Suthers, Patrick Genome-scale Metabolic Reconstruction of the Non-model Yeast Issatchenkia orientalis SD108 Biosystems Design
Zhao, Huimin University of Illinois - Urbana-Champaign Shen, Yihui Metabolic flux measurement in I. orientalis and R. toruloides Biosystems Design
Zhao, Huimin University of Illinois - Urbana-Champaign Yoshikuni, Yasuo Evaluation of Issatchenkia orientalis as a next-generation chassis for bioproduct production from lignocellulosic biomass Biosystems Design
Zhao, Huimin University of Illinois - Urbana-Champaign Dinh, Hoang A Comprehensive Genome-Scale Model for Rhodosporidium toruloides IFO0880 Accounted for Functional Genomics and Phenotypic Data Computational Biology
Zhou, Jizhong University of Oklahoma Zhou, Jizhong Feedback Responses of Grassland Microbial Communities to Experimental Warming, Precipitation Alternation, and Clipping Environmental Microbiology