DOE Joint Genome Institute

  • COVID-19
  • About
  • Phones
  • Contacts
  • Our Science
    • DOE Mission Areas
    • Bioenergy Research Centers
    • Science Programs
    • Products
    • Science Highlights
    • Scientists
    Maize can produce a cocktail of antibiotics with a handful of enzymes. (Sam Fentress, CC BY-SA 2.0)
    How Maize Makes An Antibiotic Cocktail
    Zealexins are produced in every corn variety and protect maize by fending off fungal and microbial infections using surprisingly few enzymes.

    More

    The genome of the common fiber vase or Thelephora terrestris was among those used in the study. (Francis Martin)
    From Competition to Cooperation
    By comparing 135 fungal sequenced genomes, researchers were able to carry out a broader analysis than had ever been done before to look at how saprotrophs have transitioned to the symbiotic lifestyle.

    More

    Miscanthus grasses. (Roy Kaltschmidt/Berkeley Lab)
    A Grass Model to Help Improve Giant Miscanthus
    The reference genome for M. sinensis, and the associated genomic tools, allows Miscanthus to both inform and benefit from breeding programs of related candidate bioenergy feedstock crops such as sugarcane and sorghum.

    More

  • Our Projects
    • Search JGI Projects
    • DOE Metrics/Statistics
    • Approved User Proposals
    • Legacy Projects
    Poplar (Populus trichocarpa and P. deltoides) grow in the Advanced Plant Phenotyping Laboratory (APPL) at Oak Ridge National Laboratory in Tennessee. Poplar is an important biofuel feedstock, and Populus trichocarpa is the first tree species to have its genome sequenced — a feat accomplished by JGI. (Image courtesy of Oak Ridge National Laboratory, U.S. Dept. of Energy)
    Podcast: Xiaohan Yang on A Plantiful Future
    Building off plant genomics collaborations between the JGI and Oak Ridge National Laboratory, Xiaohan Yang envisions customizing plants for the benefit of human society.

    More:

    Expansin complex with cell wall in background. (Courtesy of Daniel Cosgrove)
    Synthesizing Microbial Expansins with Unusual Activities
    Expansin proteins from diverse microbes have potential uses in deconstructing lignocellulosic biomass for conversion to renewable biofuels, nanocellulosic fibers, and commodity biochemicals.

    Read more

    High oleic pennycress. (Courtesy of Ratan Chopra)
    Pennycress – A Solution for Global Food Security, Renewable Energy and Ecosystem Benefits
    Pennycress (Thlaspi arvense) is under development as a winter annual oilseed bioenergy crop. It could produce up to 3 billion gallons of seed oil annually while reducing soil erosion and fertilizer runoff.

    Read more

  • Data & Tools
    • IMG
    • Genome Portal
    • MycoCosm
    • PhycoCosm
    • Phytozome
    • GOLD
    Artistic interpretation of CheckV assessing virus genome sequences from environmental samples. (Rendered by Zosia Rostomian​, Berkeley Lab)
    An Automated Tool for Assessing Virus Data Quality
    CheckV can be broadly utilized by the research community to gauge virus data quality and will help researchers to follow best practices and guidelines for providing the minimum amount of information for an uncultivated virus genome.

    More

    Unicellular algae in the Chlorella genus, magnified 1300x. (Andrei Savitsky)
    A One-Stop Shop for Analyzing Algal Genomes
    The PhycoCosm data portal is an interactive browser that allows algal scientists and enthusiasts to look deep into more than 100 algal genomes, compare them, and visualize supporting experimental data.

    More

    Artistic interpretation of how microbial genome sequences from the GEM catalog can help fill in gaps of knowledge about the microbes that play key roles in the Earth's microbiomes. (Rendered by Zosia Rostomian​, Berkeley Lab)
    Podcast: A Primer on Genome Mining
    In Natural Prodcast: the basics of genome mining, and how JGI researchers conducted it in IMG/ABC on thousands of metagenome-derived genomes for a Nature Biotechnology paper.

    Read more

  • User Programs
    • Calls for User Proposals
    • Special Initiatives & Programs
    • User Support
    • Submit a Proposal
    Scanning electron micrographs of diverse diatoms. (Credits: Diana Sarno, Marina Montresor, Nicole Poulsen, Gerhard Dieckmann)
    Learn About the Approved 2021 Large-Scale CSP Proposals
    A total of 27 proposals have been approved through JGI's annual Community Science Program (CSP) call. For the first time, 63 percent of the accepted proposals come from researchers who have not previously been a principal investigator on an approved JGI proposal.

    Read more

    MiddleGaylor Michael Beman UC Merced
    How to Successfully Apply for a CSP Proposal
    Reach out to JGI staff for feedback before submitting a proposal. Be sure to describe in detail what you will do with the data.

    Read more

    Click on the image or go here to watch the video "Enriching target populations for genomic analyses using HCR-FISH" from the journal Microbiome describing the research.
    How to Target a Microbial Needle within a Community Haystack
    Enabled by the JGI’s Emerging Technologies Opportunity Program, researchers have developed, tested and deployed a pipeline to first target cells from communities of uncultivated microbes, and then efficiently retrieve and characterize their genomes.

    Read more

  • News & Publications
    • News
    • Blog
    • Podcasts
    • Publications
    • Scientific Posters
    • Newsletter
    • Logos and Templates
    • Photos
    Artistic interpretation of how microbial genome sequences from the GEM catalog can help fill in gaps of knowledge about the microbes that play key roles in the Earth's microbiomes. (Rendered by Zosia Rostomian​, Berkeley Lab)
    Uncovering Novel Genomes from Earth’s Microbiomes
    A public repository of 52,515 microbial draft genomes generated from environmental samples around the world, expanding the known diversity of bacteria and archaea by 44%, is now available .

    More

    Green millet (Setaria viridis) plant collected in the wild. (Courtesy of the Kellogg lab)
    Shattering Expectations: Novel Seed Dispersal Gene Found in Green Millet
    In Nature Biotechnology, a very high quality reference Setaria viridis genome was sequenced, and for the first time in wild populations, a gene related to seed dispersal was identified.

    More

    The Brachypodium distachyon-B. stacei-B. hybridum polyploid model complex. (Illustrations credits: Juan Luis Castillo)
    The More the Merrier: Making the Case for Plant Pan-genomes
    Crop breeders have harnessed polyploidy to increase fruit and flower size, and confer stress tolerance traits. Using a Brachypodium model system, researchers have sought to learn the origins, evolution and development of plant polyploids. The work recently appeared in Nature Communications.

    Read more

News & Publications
Home › News & Publications › Publications › 2017 Publications

2017 Publications

Ahn, A. C. et al. (2017) Genomic diversity within the haloalkaliphilic genus Thioalkalivibrio. PLoS One 12(3), e0173517. 10.1371/journal.pone.0173517
More Details

Ai, C. et al. (2017) Evolution of copper arsenate resistance for enhanced enargite bioleaching using the extreme thermoacidophile Metallosphaera sedula. J Ind Microbiol Biotechnol 44(12), 1613-1625. 10.1007/s10295-017-1973-5
More Details

Aime, M. C. et al. (2017) Phylogenetics and Phylogenomics of Rust Fungi. Adv Genet 100, 267-307. 10.1016/bs.adgen.2017.09.011
More Details

Amos, G. C. A. et al. (2017) Comparative transcriptomics as a guide to natural product discovery and biosynthetic gene cluster functionality. Proc Natl Acad Sci U S A 114(52), E11121-E11130. 10.1073/pnas.1714381115
More Details

Andreopoulos, Bill et al. (2017) Clustering Categorical Data. Wiley StatsRef: Statistics Reference Online . 10.1002/9781118445112.stat07907
More Details

Angle, J. C. et al. (2017) Methanogenesis in oxygenated soils is a substantial fraction of wetland methane emissions. Nat Commun 8(1), 1567. 10.1038/s41467-017-01753-4
More Details

Aserse, A. A. et al. (2017) Draft genome sequences of Bradyrhizobium shewense sp. nov. ERR11(T) and Bradyrhizobium yuanmingense CCBAU 10071(T). Stand Genomic Sci 12, 74. 10.1186/s40793-017-0283-x
More Details

Aserse, A. A. et al. (2017) Draft genome sequence of type strain HBR26T and description of Rhizobium aethiopicum sp. nov. Stand Genomic Sci 12, 14. 10.1186/s40793-017-0220-z
More Details

Baltrus, D. A. et al. (2017) Absence of genome reduction in diverse, facultative endohyphal bacteria. Microb Genom 3(2), e000101. 10.1099/mgen.0.000101
More Details

Becraft, E. D. et al. (2017) Rokubacteria: Genomic Giants among the Uncultured Bacterial Phyla. Front Microbiol 8, 2264. 10.3389/fmicb.2017.02264
More Details

Becraft, E. D. et al. (2017) Genomic Comparison of Two Family-Level Groups of the Uncultivated NAG1 Archaeal Lineage from Chemically and Geographically Disparate Hot Springs. Front Microbiol 8, 2082. 10.3389/fmicb.2017.02082
More Details

Beukes, C. W. et al. (2017) Genome Data Provides High Support for Generic Boundaries in Burkholderia Sensu Lato. Front Microbiol 8, 1154. 10.3389/fmicb.2017.01154
More Details

Blanc-Mathieu, R. et al. (2017) Population genomics of picophytoplankton unveils novel chromosome hypervariability. Sci Adv 3(7), e1700239. 10.1126/sciadv.1700239
More Details

Booker, A. E. et al. (2017) Sulfide Generation by Dominant Halanaerobium Microorganisms in Hydraulically Fractured Shales. mSphere 2(4). 10.1128/mSphereDirect.00257-17
More Details

Bowers, R. M. et al. (2017) Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nat Biotechnol 35(8), 725-731. 10.1038/nbt.3893
More Details

Bowers, R. M. et al. (2017) Sequencing of Genomes from Environmental Single Cells. Methods Mol Biol 1712, 97-111. 10.1007/978-1-4939-7514-3_8
More Details

Bowman, J. L. et al. (2017) Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome. Cell 171(2), 287-304 e15. 10.1016/j.cell.2017.09.030
More Details

Brawley, S. H. et al. (2017) Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta). Proc Natl Acad Sci U S A 114(31), E6361-E6370. 10.1073/pnas.1703088114
More Details

Browne, D. R. et al. (2017) Draft Nuclear Genome Sequence of the Liquid Hydrocarbon-Accumulating Green Microalga Botryococcus braunii Race B (Showa). Genome Announc 5(16). 10.1128/genomeA.00215-17
More Details

Browne, D. R. et al. (2017) Draft Nuclear Genome Sequence of the Liquid Hydrocarbon-Accumulating Green Microalga Botryococcus braunii Race B (Showa). Genome Announc 5(16). 10.1128/genomeA.00215-17
More Details

Browne, P. et al. (2017) Genomic composition and dynamics among Methanomicrobiales predict adaptation to contrasting environments. ISME J 11(1), 87-99. 10.1038/ismej.2016.104
More Details

Bushnell, B. et al. (2017) BBMerge - Accurate paired shotgun read merging via overlap. PLoS One 12(10), e0185056. 10.1371/journal.pone.0185056
More Details

Castanera, R. et al. (2017) Comparative genomics of Coniophora olivacea reveals different patterns of genome expansion in Boletales. BMC Genomics 18(1), 883. 10.1186/s12864-017-4243-z
More Details

Ceballos, S. J. et al. (2017) Development and characterization of a thermophilic, lignin degrading microbiota. Process Biochemistry 63, 193-203. 10.1016/j.procbio.2017.08.018
More Details

Chen, I. A. et al. (2017) IMG/M: integrated genome and metagenome comparative data analysis system. Nucleic Acids Res 45(D1), D507-D516. 10.1093/nar/gkw929
More Details

Chen, L. X. et al. (2017) Metabolic versatility of small archaea Micrarchaeota and Parvarchaeota. ISME J . 10.1038/s41396-017-0002-z
More Details

Choi, D. H. et al. (2017) Draft genome sequence of Marinobacterium rhizophilum CL-YJ9(T) (DSM 18822(T)), isolated from the rhizosphere of the coastal tidal-flat plant Suaeda japonica. Stand Genomic Sci 12, 65. 10.1186/s40793-017-0275-x
More Details

Cobo-Diaz, J. F. et al. (2017) Taxonomic and Functional Diversity of a Quercus pyrenaica Willd. Rhizospheric Microbiome in the Mediterranean Mountains. Forests 8(10). 10.3390/f8100390
More Details

Cole, B. J. et al. (2017) Genome-wide identification of bacterial plant colonization genes. PLoS Biol 15(9), e2002860. 10.1371/journal.pbio.2002860
More Details

Coninx, L. et al. (2017) The SlZRT1 Gene Encodes a Plasma Membrane-Located ZIP (Zrt-, Irt-Like Protein) Transporter in the Ectomycorrhizal Fungus Suillus luteus. Front Microbiol 8, 2320. 10.3389/fmicb.2017.02320
More Details

Contreras-Moreira, B. et al. (2017) Analysis of Plant Pan-Genomes and Transcriptomes with GET_HOMOLOGUES-EST, a Clustering Solution for Sequences of the Same Species. Front Plant Sci 8, 184. 10.3389/fpls.2017.00184
More Details

D'Haeseleer, P. et al. (2017) Metagenomic analysis of intertidal hypersaline microbial mats from Elkhorn Slough, California, grown with and without molybdate. Stand Genomic Sci 12, 67. 10.1186/s40793-017-0279-6
More Details

D'Souza, M. et al. (2017) Strategic Integration of Multiple Bioinformatics Resources for System Level Analysis of Biological Networks. Methods Mol Biol 1613, 85-99. 10.1007/978-1-4939-7027-8_5
More Details

Daly, P. et al. (2017) Expression of Aspergillus niger CAZymes is determined by compositional changes in wheat straw generated by hydrothermal or ionic liquid pretreatments. Biotechnol Biofuels 10, 35. 10.1186/s13068-017-0700-9
More Details

Danby, Phillip M. et al. (2017) Glycosyl Cations versus Allylic Cations in Spontaneous and Enzymatic Hydrolysis. Journal of the American Chemical Society 139(31), 10629-10632. 10.1021/jacs.7b05628
More Details

de Matos, G. F. et al. (2017) Bradyrhizobium sacchari sp. nov., a legume nodulating bacterium isolated from sugarcane roots. Arch Microbiol 199(9), 1251-1258. 10.1007/s00203-017-1398-6
More Details

de Raad, M. et al. (2017) OpenMSI Arrayed Analysis Toolkit: Analyzing Spatially Defined Samples Using Mass Spectrometry Imaging. Anal Chem 89(11), 5818-5823. 10.1021/acs.analchem.6b05004
More Details

de Rond, T. et al. (2017) Oxidative cyclization of prodigiosin by an alkylglycerol monooxygenase-like enzyme. Nat Chem Biol . 10.1038/nchembio.2471
More Details

de Rond, T. et al. (2017) Oxidative cyclization of prodigiosin by an alkylglycerol monooxygenase-like enzyme. Nat Chem Biol 13(11), 1155-1157. 10.1038/nchembio.2471
More Details

de Vries, R. P. et al. (2017) Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus. Genome Biol 18(1), 28. 10.1186/s13059-017-1151-0
More Details

Diaz-Cardenas, C. et al. (2017) Draft genome and description of Consotaella salsifontis gen. nov. sp. nov., a halophilic, free-living, nitrogen-fixing alphaproteobacterium isolated from an ancient terrestrial saline spring. Int J Syst Evol Microbiol . 10.1099/ijsem.0.002185
More Details

Diaz-Cardenas, C. et al. (2017) Draft genome sequence of Dethiosulfovibrio salsuginis DSM 21565(T) an anaerobic, slightly halophilic bacterium isolated from a Colombian saline spring. Stand Genomic Sci 12, 86. 10.1186/s40793-017-0303-x
More Details

Ding, Y. et al. (2017) Selinene Volatiles Are Essential Precursors for Maize Defense Promoting Fungal Pathogen Resistance. Plant Physiol 175(3), 1455-1468. 10.1104/pp.17.00879
More Details

Dore, J. et al. (2017) The ectomycorrhizal basidiomycete Hebeloma cylindrosporum undergoes early waves of transcriptional reprogramming prior to symbiotic structures differentiation. Environ Microbiol 19(3), 1338-1354. 10.1111/1462-2920.13670
More Details

Dossani, Z. Y. et al. (2017) A combinatorial approach to synthetic transcription factor-promoter combinations for yeast strain engineering. Yeast . 10.1002/yea.3292
More Details

Doud, D. F. R. et al. (2017) Novel approaches in function-driven single-cell genomics. FEMS Microbiol Rev . 10.1093/femsre/fux009
More Details

Doud, D. F. R. et al. (2017) Novel approaches in function-driven single-cell genomics. FEMS Microbiol Rev . 10.1093/femsre/fux009
More Details

Eminoglu, A. et al. (2017) Deletion of the hfsB gene increases ethanol production in Thermoanaerobacterium saccharolyticum and several other thermophilic anaerobic bacteria. Biotechnol Biofuels 10, 282. 10.1186/s13068-017-0968-9
More Details

Fernandez-Bayo, J. D. et al. (2017) Comparison of soil biosolarization with mesophilic and thermophilic solid digestates on soil microbial quantity and diversity. Applied Soil Ecology 119, 183-191. 10.1016/j.apsoil.2017.06.016
More Details

Fernandez-Gonzalez, A. J. et al. (2017) The rhizosphere microbiome of burned holm-oak: potential role of the genus Arthrobacter in the recovery of burned soils. Sci Rep 7(1), 6008. 10.1038/s41598-017-06112-3
More Details

Fochi, V. et al. (2017) Fungal and plant gene expression in the Tulasnella calospora-Serapias vomeracea symbiosis provides clues about nitrogen pathways in orchid mycorrhizas. New Phytol 213(1), 365-379. 10.1111/nph.14279
More Details

Frindte, K. et al. (2017) Draft Genome Sequences of Two Gammaproteobacterial Methanotrophs Isolated from Rice Ecosystems. Genome Announc 5(33). 10.1128/genomeA.00526-17
More Details

Gach, P. C. et al. (2017) Droplet microfluidics for synthetic biology. Lab Chip . 10.1039/c7lc00576h
More Details

Garcia, S. L. et al. (2017) Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations. ISME J . 10.1038/s41396-017-0001-0
More Details

Gasch, A. P. et al. (2017) Single-cell RNA sequencing reveals intrinsic and extrinsic regulatory heterogeneity in yeast responding to stress. PLoS Biol 15(12), e2004050. 10.1371/journal.pbio.2004050
More Details

Gaskell, J. et al. (2017) Draft genome sequence of a monokaryotic model brown-rot fungus Postia (Rhodonia) placenta SB12. Genom Data 14, 21-23. 10.1016/j.gdata.2017.08.003
More Details

Gilbert, R. A. et al. (2017) Toward Understanding Phage:Host Interactions in the Rumen; Complete Genome Sequences of Lytic Phages Infecting Rumen Bacteria. Front Microbiol 8, 2340. 10.3389/fmicb.2017.02340
More Details

Gontang, E. A. et al. (2017) Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach. PLoS One 12(5), e0177189. 10.1371/journal.pone.0177189
More Details

Gontang, E. A. et al. (2017) Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach. PLoS One 12(5), e0177189. 10.1371/journal.pone.0177189
More Details

Gordon, S. P. et al. (2017) Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure. Nat Commun 8(1), 2184. 10.1038/s41467-017-02292-8
More Details

Gordon, S. P. et al. (2017) Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure. Nat Commun 8(1), 2184. 10.1038/s41467-017-02292-8
More Details

Gutierrez, T. et al. (2017) Genome Sequence of Oceanicola sp. Strain MCTG156(1a), Isolated from a Scottish Coastal Phytoplankton Net Sample. Genome Announc 5(32). 10.1128/genomeA.00796-17
More Details

Gutierrez, T. et al. (2017) Genome Sequence of Roseovarius sp. Strain MCTG156(2b) Isolated from a Phytoplankton Net Trawl on the Scottish West Coast. Genome Announc 5(35). 10.1128/genomeA.00837-17
More Details

Hadjithomas, M. et al. (2017) IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomes. Nucleic Acids Res 45(D1), D560-D565. 10.1093/nar/gkw1103
More Details

Hahn, M. W. et al. (2017) Reclassification of a Polynucleobacter cosmopolitanus strain isolated from tropical Lake Victoria as Polynucleobacter victoriensis sp. nov. Int J Syst Evol Microbiol . 10.1099/ijsem.0.002421
More Details

Haitjema, C. H. et al. (2017) A parts list for fungal cellulosomes revealed by comparative genomics. Nat Microbiol 2, 17087. 10.1038/nmicrobiol.2017.87
More Details

Haitjema, C. H. et al. (2017) A parts list for fungal cellulosomes revealed by comparative genomics. Nat Microbiol 2, 17087. 10.1038/nmicrobiol.2017.87
More Details

Hamilton, J. J. et al. (2017) Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI. mSystems 2(4). 10.1128/mSystems.00091-17
More Details

Harrington, L. B. et al. (2017) A thermostable Cas9 with increased lifetime in human plasma. Nat Commun 8(1), 1424. 10.1038/s41467-017-01408-4
More Details

Hartman, W. H. et al. (2017) A genomic perspective on stoichiometric regulation of soil carbon cycling. ISME J . 10.1038/ismej.2017.115
More Details

Hawley, A. K. et al. (2017) A compendium of multi-omic sequence information from the Saanich Inlet water column. Sci Data 4, 170160. 10.1038/sdata.2017.160
More Details

Hawley, A. K. et al. (2017) Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients. Nat Commun 8(1), 1507. 10.1038/s41467-017-01376-9
More Details

He, S. et al. (2017) Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes. mSphere 2(5). 10.1128/mSphere.00277-17
More Details

Herbold, C. W. et al. (2017) Ammonia-oxidising archaea living at low pH: Insights from comparative genomics. Environmental Microbiology 19(12), 4939-4952. 10.1111/1462-2920.13971
More Details

Hossain, M. S. et al. (2017) Divergent cytosine DNA methylation patterns in single-cell, soybean root hairs. New Phytol 214(2), 808-819. 10.1111/nph.14421
More Details

Hsia, M. M. et al. (2017) Sequencing and functional validation of the JGI Brachypodium distachyon T-DNA collection. Plant J . 10.1111/tpj.13582
More Details

Hsia, M. M. et al. (2017) Sequencing and functional validation of the JGI Brachypodium distachyon T-DNA collection. Plant J . 10.1111/tpj.13582
More Details

Hu, P. et al. (2017) Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders. Proc Natl Acad Sci U S A 114(28), 7432-7437. 10.1073/pnas.1703424114
More Details

Hu, P. et al. (2017) Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders. Proc Natl Acad Sci U S A . 10.1073/pnas.1703424114
More Details

Huang, Pu et al. (2017) Sparse panicle1 is required for inflorescence development in Setaria viridis and maize. Nat Plants 3, 17054. 10.1038/nplants.2017.54 https://www.nature.com/articles/nplants201754#supplementary-information
More Details

Huang, Pu et al. (2017) Sparse panicle1 is required for inflorescence development in Setaria viridis and maize. Nat Plants 3, 17054. 10.1038/nplants.2017.54 https://www.nature.com/articles/nplants201754#supplementary-information
More Details

Hutt, L. P. et al. (2017) Permanent draft genome of Thiobacillus thioparus DSM 505T, an obligately chemolithoautotrophic member of the Betaproteobacteria. Stand Genomic Sci 12, 10. 10.1186/s40793-017-0229-3
More Details

Jennings, R. M. et al. (2017) Integration of Metagenomic and Stable Carbon Isotope Evidence Reveals the Extent and Mechanisms of Carbon Dioxide Fixation in High-Temperature Microbial Communities. Front Microbiol 8, 88. 10.3389/fmicb.2017.00088
More Details

Jiao, J. Y. et al. (2017) Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds. Stand Genomic Sci 12, 21. 10.1186/s40793-017-0226-6
More Details

Jimenez, D. J. et al. (2017) Draft Genome Sequence of Coniochaeta ligniaria NRRL 30616, a Lignocellulolytic Fungus for Bioabatement of Inhibitors in Plant Biomass Hydrolysates. Genome Announc 5(4). 10.1128/genomeA.01476-16
More Details

Jungbluth, S. P. et al. (2017) Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems. PeerJ 5, e3134. 10.7717/peerj.3134
More Details

Jungbluth, S. P. et al. (2017) Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems. PeerJ 5, e3134. 10.7717/peerj.3134
More Details

Kamke, J. et al. (2017) Gene and transcript abundances of bacterial type III secretion systems from the rumen microbiome are correlated with methane yield in sheep. BMC Res Notes 10(1), 367. 10.1186/s13104-017-2671-0
More Details

Kantor, R. S. et al. (2017) Genome-Resolved Meta-Omics Ties Microbial Dynamics to Process Performance in Biotechnology for Thiocyanate Degradation. Environ Sci Technol 51(5), 2944-2953. 10.1021/acs.est.6b04477
More Details

Khdhiri, M. et al. (2017) The tale of a neglected energy source: Elevated hydrogen exposure affects both microbial diversity and function in soil. Appl Environ Microbiol 83(11). 10.1128/AEM.00275-17
More Details

Klonowska, A. et al. (2017) High-quality draft genome sequence of Rhizobium mesoamericanum strain STM6155, a Mimosa pudica microsymbiont from New Caledonia. Stand Genomic Sci 12, 7. 10.1186/s40793-016-0212-4
More Details

Kruse, T. et al. (2017) Comparative genomics of the genus Desulfitobacterium. FEMS Microbiol Ecol 93(12). 10.1093/femsec/fix135
More Details

Kublanov, I. V. et al. (2017) Genomic Analysis of Caldithrix abyssi, the Thermophilic Anaerobic Bacterium of the Novel Bacterial Phylum Calditrichaeota. Front Microbiol 8, 195. 10.3389/fmicb.2017.00195
More Details

Lamit, L. J. et al. (2017) Patterns and drivers of fungal community depth stratification in Sphagnum peat. FEMS Microbiol Ecol 93(7). 10.1093/femsec/fix082
More Details

Lang, D. et al. (2017) The P. patens chromosome-scale assembly reveals moss genome structure and evolution. Plant J . 10.1111/tpj.13801
More Details

Laviad-Shitrit, S. et al. (2017) High quality permanent draft genome sequence of Chryseobacterium bovis DSM 19482T, isolated from raw cow milk. Stand Genomic Sci 12, 31. 10.1186/s40793-017-0242-6
More Details

Laviad-Shitrit, S. et al. (2017) High quality permanent draft genome sequence of Chryseobacterium bovis DSM 19482T, isolated from raw cow milk. Stand Genomic Sci 12, 31. 10.1186/s40793-017-0242-6
More Details

Lee, C-R. et al. (2017) Young inversion with multiple linked QTLs under selection in a hybrid zone. Nature Ecology & Evolution 1, 0119. 10.1038/s41559-017-0119
More Details

Li, G. et al. (2017) The Sequences of 1504 Mutants in the Model Rice Variety Kitaake Facilitate Rapid Functional Genomic Studies. Plant Cell 29(6), 1218-1231. 10.1105/tpc.17.00154
More Details

Li, G. et al. (2017) The Sequences of 1504 Mutants in the Model Rice Variety Kitaake Facilitate Rapid Functional Genomic Studies. Plant Cell 29(6), 1218-1231. 10.1105/tpc.17.00154
More Details

Li, H. et al. (2017) Lignocellulose pretreatment in a fungus-cultivating termite. Proc Natl Acad Sci U S A 114(18), 4709-4714. 10.1073/pnas.1618360114
More Details

Li, H. et al. (2017) Lignocellulose pretreatment in a fungus-cultivating termite. Proc Natl Acad Sci U S A 114(18), 4709-4714. 10.1073/pnas.1618360114
More Details

Liu, J. et al. (2017) Novel reductive dehalogenases from the marine sponge associated bacterium Desulfoluna spongiiphila. Environ Microbiol Rep 9(5), 537-549. 10.1111/1758-2229.12556
More Details

Lopez, G. et al. (2017) Draft genome sequence of Pseudomonas extremaustralis strain USBA-GBX 515 isolated from Superparamo soil samples in Colombian Andes. Stand Genomic Sci 12, 78. 10.1186/s40793-017-0292-9
More Details

Magain, N. et al. (2017) Conserved genomic collinearity as a source of broadly applicable, fast evolving, markers to resolve species complexes: a case study using the lichen-forming genus Peltigera section Polydactylon. Mol Phylogenet Evol . 10.1016/j.ympev.2017.08.013
More Details

Magain, N. et al. (2017) Conserved genomic collinearity as a source of broadly applicable, fast evolving, markers to resolve species complexes: A case study using the lichen -forming genus Peltigera section Polydactylon. Molecular Phylogenetics and Evolution 117, 10-29. 10.1016/j.ympev.2017.08.013
More Details

Mansueto, L. et al. (2017) Rice SNP-seek database update: new SNPs, indels, and queries. Nucleic Acids Res 45(D1), D1075-D1081. 10.1093/nar/gkw1135
More Details

Masumba, E. A. et al. (2017) QTL associated with resistance to cassava brown streak and cassava mosaic diseases in a bi-parental cross of two Tanzanian farmer varieties, Namikonga and Albert. Theor Appl Genet . 10.1007/s00122-017-2943-z
More Details

Matrosova, V. Y. et al. (2017) High-quality genome sequence of the radioresistant bacterium Deinococcus ficus KS 0460. Stand Genomic Sci 12, 46. 10.1186/s40793-017-0258-y
More Details

McCormick, R. F. et al. (2017) The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization. Plant J . 10.1111/tpj.13781
More Details

McCormick, R. F. et al. (2017) The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization. Plant J . 10.1111/tpj.13781
More Details

Mei, R. et al. (2017) Operation-driven heterogeneity and overlooked feed-associated populations in global anaerobic digester microbiome. Water Res 124, 77-84. 10.1016/j.watres.2017.07.050
More Details

Melton, E. D. et al. (2017) Draft genome sequence of Dethiobacter alkaliphilus strain AHT1T, a gram-positive sulfidogenic polyextremophile. Stand Genomic Sci 12, 57. 10.1186/s40793-017-0268-9
More Details

Men, Y. et al. (2017) Metagenomic and metatranscriptomic analyses reveal structure and dynamics of a dechlorinating community containing Dehalococcoides mccartyi and corrinoid-providing microorganisms under cobalamin-limited condition. Appl Environ Microbiol . 10.1128/AEM.03508-16
More Details

Meyer, K. M. et al. (2017) Conversion of Amazon rainforest to agriculture alters community traits of methane-cycling organisms. Mol Ecol 26(6), 1547-1556. 10.1111/mec.14011
More Details

Min, B. et al. (2017) FunGAP: Fungal Genome Annotation Pipeline Using Evidence-based Gene Model Evaluation. Bioinformatics . 10.1093/bioinformatics/btx353
More Details

Min, B. et al. (2017) FunGAP: Fungal Genome Annotation Pipeline Using Evidence-based Gene Model Evaluation. Bioinformatics . 10.1093/bioinformatics/btx353
More Details

Miroshnikov, K. K. et al. (2017) Draft Genome Sequence of Methylocapsa palsarum NE2T, an Obligate Methanotroph from Subarctic Soil. Genome Announc 5(24). 10.1128/genomeA.00504-17
More Details

Miroshnikov, K. K. et al. (2017) Draft Genome Sequence of Methylocapsa palsarum NE2T, an Obligate Methanotroph from Subarctic Soil. Genome Announc 5(24). 10.1128/genomeA.00504-17
More Details

Mock, T. et al. (2017) Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus. Nature 541(7638), 536-540. 10.1038/nature20803
More Details

Mondo, S. J. et al. (2017) Widespread adenine N6-methylation of active genes in fungi. Nat Genet 49(6), 964-968. 10.1038/ng.3859
More Details

Mondo, S. J. et al. (2017) Bacterial endosymbionts influence host sexuality and reveal reproductive genes of early divergent fungi. Nat Commun 8(1), 1843. 10.1038/s41467-017-02052-8
More Details

Mondo, S. J. et al. (2017) Bacterial endosymbionts influence host sexuality and reveal reproductive genes of early divergent fungi. Nat Commun 8(1), 1843. 10.1038/s41467-017-02052-8
More Details

Mondo, S. J. et al. (2017) Widespread adenine N6-methylation of active genes in fungi. Nat Genet 49(6), 964-968. 10.1038/ng.3859
More Details

Montero-Calasanz, M. D. C. et al. (2017) Genome-Scale Data Call for a Taxonomic Rearrangement of Geodermatophilaceae. Front Microbiol 8, 2501. 10.3389/fmicb.2017.02501
More Details

Montero-Calasanz, M. D. C. et al. (2017) Genome-Scale Data Call for a Taxonomic Rearrangement of Geodermatophilaceae. Front Microbiol 8, 2501. 10.3389/fmicb.2017.02501
More Details

Moraes, L. E. et al. (2017) Resequencing and annotation of the Nostoc punctiforme ATTC 29133 genome: facilitating biofuel and high-value chemical production. AMB Express 7(1), 42. 10.1186/s13568-017-0338-9
More Details

Morrell, W. C. et al. (2017) The Experiment Data Depot: A Web-Based Software Tool for Biological Experimental Data Storage, Sharing, and Visualization. ACS Synth Biol . 10.1021/acssynbio.7b00204
More Details

Mujic, A. B. et al. (2017) Comparative Genomics of the Ectomycorrhizal Sister Species Rhizopogon vinicolor and Rhizopogon vesiculosus (Basidiomycota: Boletales) Reveals a Divergence of the Mating Type B Locus. G3 (Bethesda) 7(6), 1775-1789. 10.1534/g3.117.039396
More Details

Mujic, A. B. et al. (2017) Comparative Genomics of the Ectomycorrhizal Sister Species Rhizopogon vinicolor and Rhizopogon vesiculosus (Basidiomycota: Boletales) Reveals a Divergence of the Mating Type B Locus. G3 (Bethesda) 7(6), 1775-1789. 10.1534/g3.117.039396
More Details

Mukai, T. et al. (2017) RNA-Dependent Cysteine Biosynthesis in Bacteria and Archaea. MBio 8(3). 10.1128/mBio.00561-17
More Details

Mukai, T. et al. (2017) RNA-Dependent Cysteine Biosynthesis in Bacteria and Archaea. MBio 8(3). 10.1128/mBio.00561-17
More Details

Mukherjee, S. et al. (2017) 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. Nat Biotechnol 35(7), 676-683. 10.1038/nbt.3886
More Details

Mukherjee, S. et al. (2017) Genomes OnLine Database (GOLD) v.6: data updates and feature enhancements. Nucleic Acids Res 45(D1), D446-D456. 10.1093/nar/gkw992
More Details

Mukherjee, S. et al. (2017) 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. Nat Biotechnol . 10.1038/nbt.3886
More Details

Myers, C. J. et al. (2017) A standard-enabled workflow for synthetic biology. Biochem Soc Trans 45(3), 793-803. 10.1042/BST20160347
More Details

Myers, C. J. et al. (2017) A standard-enabled workflow for synthetic biology. Biochem Soc Trans 45(3), 793-803. 10.1042/BST20160347
More Details

Nagy, L. G. et al. (2017) Genetic Bases of Fungal White Rot Wood Decay Predicted by Phylogenomic Analysis of Correlated Gene-Phenotype Evolution. Mol Biol Evol 34(1), 35-44. 10.1093/molbev/msw238
More Details

Neilson, J. A. D. et al. (2017) Evolution and regulation of Bigelowiella natans light-harvesting antenna system. Journal of Plant Physiology 217, 68-76. 10.1016/j.jplph.2017.05.019
More Details

Nouioui, I. et al. (2017) High quality draft genome of Nakamurella lactea type strain, a rock actinobacterium, and emended description of Nakamurella lactea. Stand Genomic Sci 12, 4. 10.1186/s40793-016-0216-0
More Details

Nzuki, I. et al. (2017) QTL Mapping for Pest and Disease Resistance in Cassava and Coincidence of Some QTL with Introgression Regions Derived from Manihot glaziovii. Front Plant Sci 8, 1168. 10.3389/fpls.2017.01168
More Details

O'Connor, D. L. et al. (2017) Cross-species functional diversity within the PIN auxin efflux protein family. Elife 6. 10.7554/eLife.31804
More Details

Oberortner, E. et al. (2017) Streamlining the Design-to-Build Transition with Build-Optimization Software Tools. ACS Synth Biol . 10.1021/acssynbio.6b00200
More Details

Olm, M. R. et al. (2017) The Source and Evolutionary History of a Microbial Contaminant Identified Through Soil Metagenomic Analysis. MBio 8(1). 10.1128/mBio.01969-16
More Details

Osman, W. A. M. et al. (2017) High-quality draft genome sequence of Ensifer meliloti Mlalz-1, a microsymbiont of Medicago laciniata (L.) miller collected in Lanzarote, Canary Islands, Spain. Stand Genomic Sci 12, 58. 10.1186/s40793-017-0270-2
More Details

Ovchinnikov, S. et al. (2017) Protein structure determination using metagenome sequence data. Science 355(6322), 294-298. 10.1126/science.aah4043
More Details

Pachiadaki, M. G. et al. (2017) Major role of nitrite-oxidizing bacteria in dark ocean carbon fixation. Science 358(6366), 1046-1051. 10.1126/science.aan8260
More Details

Paez-Espino, D. et al. (2017) Nontargeted virus sequence discovery pipeline and virus clustering for metagenomic data. Nat Protoc 12(8), 1673-1682. 10.1038/nprot.2017.063
More Details

Paez-Espino, D. et al. (2017) IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses. Nucleic Acids Res 45(D1), D457-D465. 10.1093/nar/gkw1030
More Details

Patil, Y. et al. (2017) High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698). Stand Genomic Sci 12, 24. 10.1186/s40793-017-0236-4
More Details

Pavlopoulos, G. A. et al. (2017) Empirical Comparison of Visualization Tools for Larger-Scale Network Analysis. Adv Bioinformatics 2017, 1278932. 10.1155/2017/1278932
More Details

Peng, M. et al. (2017) The draft genome sequence of the ascomycete fungus Penicillium subrubescens reveals a highly enriched content of plant biomass related CAZymes compared to related fungi. J Biotechnol 246, 1-3. 10.1016/j.jbiotec.2017.02.012
More Details

Polle, J. E. W. et al. (2017) Draft Nuclear Genome Sequence of the Halophilic and Beta-Carotene-Accumulating Green Alga Dunaliella salina Strain CCAP19/18. Genome Announc 5(43). 10.1128/genomeA.01105-17
More Details

Powell, J. J. et al. (2017) Transcriptome analysis of Brachypodium during fungal pathogen infection reveals both shared and distinct defense responses with wheat. Sci Rep 7(1), 17212. 10.1038/s41598-017-17454-3
More Details

Proenca, D. N. et al. (2017) Arboriscoccus pini gen. nov., sp. nov., an endophyte from a pine tree of the class Alphaproteobacteria, emended description of Geminicoccus roseus, and proposal of Geminicoccaceae fam. nov. Syst Appl Microbiol . 10.1016/j.syapm.2017.11.006
More Details

Proenca, D. N. et al. (2017) Draft genome sequence of the cellulolytic endophyte Chitinophaga costaii A37T2T. Stand Genomic Sci 12, 53. 10.1186/s40793-017-0262-2
More Details

Raissig, M. T. et al. (2017) Mobile MUTE specifies subsidiary cells to build physiologically improved grass stomata. Science 355(6330), 1215-1218. 10.1126/science.aal3254
More Details

Reeve, W. et al. (2017) High-quality permanent draft genome sequence of the Bradyrhizobium elkanii type strain USDA 76T, isolated from Glycine max (L.) Merr. Stand Genomic Sci 12, 26. 10.1186/s40793-017-0238-2
More Details

Rice, M. C. et al. (2017) Complete Genome Sequence of Nitrosomonas cryotolerans ATCC 49181, a Phylogenetically Distinct Ammonia-Oxidizing Bacterium Isolated from Arctic Waters. Genome Announc 5(11). 10.1128/genomeA.00011-17
More Details

Rineau, F. et al. (2017) Comparative genomics and expression levels of hydrophobins from eight mycorrhizal genomes. Mycorrhiza . 10.1007/s00572-016-0758-4
More Details

Robicheau, B. M. et al. (2017) The homothallic mating-type locus of the conifer needle endophyte Phialocephala scopiformis DAOMC 229536 (order Helotiales). Fungal Biol 121(12), 1011-1024. 10.1016/j.funbio.2017.08.007
More Details

Robicheau, B. M. et al. (2017) The homothallic mating-type locus of the conifer needle endophyte Phialocephala scopiformis DAOMC 229536 (order Helotiales). Fungal Biol 121(12), 1011-1024. 10.1016/j.funbio.2017.08.007
More Details

Robicheau, B. M. et al. (2017) The complete mitochondrial genome of the conifer needle endophyte, Phialocephala scopiformis DAOMC 229536 confirms evolutionary division within the fungal Phialocephala fortinii s.l. - Acephala appalanata species complex. Fungal Biol 121(3), 212-221. 10.1016/j.funbio.2016.11.007
More Details

Rojas-Rojas, F. U. et al. (2017) Draft genome of Paraburkholderia caballeronis TNe-841(T), a free-living, nitrogen-fixing, tomato plant-associated bacterium. Stand Genomic Sci 12, 80. 10.1186/s40793-017-0294-7
More Details

Roux, S. et al. (2017) Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity. PeerJ 5, e3817. 10.7717/peerj.3817
More Details

Roux, S. et al. (2017) Ecogenomics of virophages and their giant virus hosts assessed through time series metagenomics. Nat Commun 8(1), 858. 10.1038/s41467-017-01086-2
More Details

Sancho, R. et al. (2017) Comparative plastome genomics and phylogenomics of Brachypodium: flowering time signatures, introgression and recombination in recently diverged ecotypes. New Phytol . 10.1111/nph.14926
More Details

Sancho, R. et al. (2017) Comparative plastome genomics and phylogenomics of Brachypodium: flowering time signatures, introgression and recombination in recently diverged ecotypes. New Phytol . 10.1111/nph.14926
More Details

Saski, C. A. et al. (2017) Sub genome anchored physical frameworks of the allotetraploid Upland cotton (Gossypium hirsutum L.) genome, and an approach toward reference-grade assemblies of polyploids. Sci Rep 7(1), 15274. 10.1038/s41598-017-14885-w
More Details

Sasse, J. et al. (2017) Feed Your Friends: Do Plant Exudates Shape the Root Microbiome?. Trends Plant Sci . 10.1016/j.tplants.2017.09.003
More Details

Schulz, F. et al. (2017) Giant viruses with an expanded complement of translation system components. Science 356(6333), 82-85. 10.1126/science.aal4657
More Details

Schulz, F. et al. (2017) Towards a balanced view of the bacterial tree of life. Microbiome 5(1), 140. 10.1186/s40168-017-0360-9
More Details

Schulz, F. et al. (2017) Giant viruses with an expanded complement of translation system components. Science 356(6333), 82-85. 10.1126/science.aal4657
More Details

Sczyrba, A. et al. (2017) Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software. Nat Methods 14(11), 1063-1071. 10.1038/nmeth.4458
More Details

Silas, S. et al. (2017) On the Origin of Reverse Transcriptase-Using CRISPR-Cas Systems and Their Hyperdiverse, Enigmatic Spacer Repertoires. MBio 8(4). 10.1128/mBio.00897-17
More Details

Siletti, C. E. et al. (2017) Distributions of fungal melanin across species and soils. Soil Biology & Biochemistry 113, 285-293. 10.1016/j.soilbio.2017.05.030
More Details

Simon, L. et al. (2017) Paenibacillus aquistagni sp. nov., isolated from an artificial lake accumulating industrial wastewater. Antonie Van Leeuwenhoek . 10.1007/s10482-017-0891-x
More Details

Simon, L. et al. (2017) Paenibacillus aquistagni sp. nov., isolated from an artificial lake accumulating industrial wastewater. Antonie Van Leeuwenhoek . 10.1007/s10482-017-0891-x
More Details

Singer, E. et al. (2017) Capturing the genetic makeup of the active microbiome in situ. ISME J . 10.1038/ismej.2017.59
More Details

Singer, E. et al. (2017) Capturing the genetic makeup of the active microbiome in situ. ISME J . 10.1038/ismej.2017.59
More Details

Sipos, G. et al. (2017) Genome expansion and lineage-specific genetic innovations in the forest pathogenic fungi Armillaria. Nat Ecol Evol 1(12), 1931-1941. 10.1038/s41559-017-0347-8
More Details

Skraban, J. et al. (2017) Draft genome sequence of Chryseobacterium limigenitum SUR2T (LMG 28734T) isolated from dehydrated sludge. Braz J Microbiol . 10.1016/j.bjm.2017.03.009
More Details

Slaby, B. M. et al. (2017) Metagenomic binning of a marine sponge microbiome reveals unity in defense but metabolic specialization. ISME J 11(11), 2465-2478. 10.1038/ismej.2017.101
More Details

Spatafora, J. W. et al. (2017) The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies. Microbiol Spectr 5(5). 10.1128/microbiolspec.FUNK-0053-2016
More Details

Staley, C. et al. (2017) Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism. Microbiome 5(1), 65. 10.1186/s40168-017-0287-1
More Details

Staley, C. et al. (2017) Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism. Microbiome 5(1), 65. 10.1186/s40168-017-0287-1
More Details

Stritt, C. et al. (2017) Recent activity in expanding populations and purifying selection have shaped transposable element landscapes across natural accessions of the Mediterranean grass Brachypodium distachyon. Genome Biol Evol . 10.1093/gbe/evx276
More Details

Susanti, D. et al. (2017) Permanent Draft Genome Sequence of Desulfurococcus amylolyticus Strain Z-533T, a Peptide and Starch Degrader Isolated from Thermal Springs in the Kamchatka Peninsula and Kunashir Island, Russia. Genome Announc 5(15). 10.1128/genomeA.00078-17
More Details

Susanti, D. et al. (2017) Permanent Draft Genome Sequence of Desulfurococcus amylolyticus Strain Z-533T, a Peptide and Starch Degrader Isolated from Thermal Springs in the Kamchatka Peninsula and Kunashir Island, Russia. Genome Announc 5(15). 10.1128/genomeA.00078-17
More Details

Theodosiou, T. et al. (2017) NAP: The Network Analysis Profiler, a web tool for easier topological analysis and comparison of medium-scale biological networks. BMC Res Notes 10(1), 278. 10.1186/s13104-017-2607-8
More Details

Thieme, N. et al. (2017) The transcription factor PDR-1 is a multi-functional regulator and key component of pectin deconstruction and catabolism in Neurospora crassa. Biotechnol Biofuels 10, 149. 10.1186/s13068-017-0807-z
More Details

Thieme, N. et al. (2017) The transcription factor PDR-1 is a multi-functional regulator and key component of pectin deconstruction and catabolism in Neurospora crassa. Biotechnol Biofuels 10, 149. 10.1186/s13068-017-0807-z
More Details

Tian, L. et al. (2017) Enhanced ethanol formation by Clostridium thermocellum via pyruvate decarboxylase. Microb Cell Fact 16(1), 171. 10.1186/s12934-017-0783-9
More Details

Tian, R. et al. (2017) Evolution of a multi-step phosphorelay signal transduction system in Ensifer: Recruitment of the sigma factor RpoN and a novel enhancer binding protein triggers acid-activated gene expression. Mol Microbiol . 10.1111/mmi.13592
More Details

Tighe, S. et al. (2017) Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP). J Biomol Tech . 10.7171/jbt.17-2801-004
More Details

Torres-Beltran, M. et al. (2017) A compendium of geochemical information from the Saanich Inlet water column. Sci Data 4, 170159. 10.1038/sdata.2017.159
More Details

Tringe, S. G. et al. (2017) Single-cell genomics for the masses. Nat Biotechnol 35(7), 635-636. 10.1038/nbt.3914
More Details

Turco, G. M. et al. (2017) DNA methylation and gene expression regulation associated with vascularization in Sorghum bicolor. New Phytol . 10.1111/nph.14448
More Details

Twing, K. I. et al. (2017) Serpentinization-Influenced Groundwater Harbors Extremely Low Diversity Microbial Communities Adapted to High pH. Front Microbiol 8, 308. 10.3389/fmicb.2017.00308
More Details

Uehling, J. et al. (2017) Comparative genomics of Mortierella elongata and its bacterial endosymbiont Mycoavidus cysteinexigens. Environ Microbiol . 10.1111/1462-2920.13669
More Details

Vaz-Moreira, I. et al. (2017) Oryzisolibacter propanilivorax gen. nov., sp. nov., a propanil-degrading bacterium. Int J Syst Evol Microbiol 67(10), 3752-3758. 10.1099/ijsem.0.002184
More Details

Verde, I. et al. (2017) The Peach v2.0 release: high-resolution linkage mapping and deep resequencing improve chromosome-scale assembly and contiguity. BMC Genomics 18(1), 225. 10.1186/s12864-017-3606-9
More Details

Vigneron, A. et al. (2017) Succession in the petroleum reservoir microbiome through an oil field production lifecycle. ISME J . 10.1038/ismej.2017.78
More Details

Vigneron, A. et al. (2017) Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico. Sci Rep 7(1), 16015. 10.1038/s41598-017-16375-5
More Details

Vigneron, A. et al. (2017) Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico. Sci Rep 7(1), 16015. 10.1038/s41598-017-16375-5
More Details

Vigneron, A. et al. (2017) Succession in the petroleum reservoir microbiome through an oil field production lifecycle. ISME J . 10.1038/ismej.2017.78
More Details

Waite, D. W. et al. (2017) Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.). Front Microbiol 8, 682. 10.3389/fmicb.2017.00682
More Details

Waite, D. W. et al. (2017) Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.). Front Microbiol 8, 682. 10.3389/fmicb.2017.00682
More Details

Wang, L. et al. (2017) Interactions among triphenyltin degradation, phospholipid synthesis and membrane characteristics of Bacillus thuringiensis in the presence of d-malic acid. Chemosphere 169, 403-412. 10.1016/j.chemosphere.2016.10.140
More Details

Warshan, D. et al. (2017) Feathermoss and epiphytic Nostoc cooperate differently: expanding the spectrum of plant-cyanobacteria symbiosis. ISME J . 10.1038/ismej.2017.134
More Details

Wilhelm, R. C. et al. (2017) Biogeography and organic matter removal shape long-term effects of timber harvesting on forest soil microbial communities. ISME J 11(11), 2552-2568. 10.1038/ismej.2017.109
More Details

Woods, D. P. et al. (2017) Genetic Architecture of Flowering-Time Variation in Brachypodium distachyon. Plant Physiol 173(1), 269-279. 10.1104/pp.16.01178
More Details

Woyke, T. et al. (2017) The trajectory of microbial single-cell sequencing. Nat Methods 14(11), 1045-1054. 10.1038/nmeth.4469
More Details

Woyke, T. et al. (2017) The trajectory of microbial single-cell sequencing. Nat Methods 14(11), 1045-1054. 10.1038/nmeth.4469
More Details

Wu, W. et al. (2017) Characterization of four endophytic fungi as potential consolidated bioprocessing hosts for conversion of lignocellulose into advanced biofuels. Appl Microbiol Biotechnol 101(6), 2603-2618. 10.1007/s00253-017-8091-1
More Details

Xiong, Y. et al. (2017) A fungal transcription factor essential for starch degradation affects integration of carbon and nitrogen metabolism. PLoS Genet 13(5), e1006737. 10.1371/journal.pgen.1006737
More Details

Xiong, Y. et al. (2017) A fungal transcription factor essential for starch degradation affects integration of carbon and nitrogen metabolism. PLoS Genet 13(5), e1006737. 10.1371/journal.pgen.1006737
More Details

Yang, X. et al. (2017) The Kalanchoe genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism. Nat Commun 8(1), 1899. 10.1038/s41467-017-01491-7
More Details

Yassin, A. F. et al. (2017) Draft genome sequence of Actinotignum schaalii DSM 15541T: Genetic insights into the lifestyle, cell fitness and virulence. PLoS One 12(12), e0188914. 10.1371/journal.pone.0188914
More Details

Yi, W. et al. (2017) Triphenyltin degradation and proteomic response by an engineered Escherichia coli expressing cytochrome P450 enzyme. Ecotoxicol Environ Saf 137, 29-34. 10.1016/j.ecoenv.2016.11.012
More Details

Yoo, C. G. et al. (2017) Insights of biomass recalcitrance in natural Populus trichocarpa variants for biomass conversion. Green Chemistry 19(22), 5467-5478. 10.1039/c7gc02219k
More Details

Yu, F. B. et al. (2017) Microfluidic-based mini-metagenomics enables discovery of novel microbial lineages from complex environmental samples. Elife 6. 10.7554/eLife.26580
More Details

Ziels, R.M. et al. (2017) DNA-SIP based genome-centric metagenomics identifies key long-chain fatty acid-degrading populations in anaerobic digesters with different feeding frequencies. ISME J , 112-123. 10.1038/ismej.2017.143
More Details

Zojer, M. et al. (2017) Variant profiling of evolving prokaryotic populations. PeerJ 5, e2997. 10.7717/peerj.2997
More Details

  • 2020 Publications
  • 2019 Publications
  • 2018 Publications
  • 2017 Publications
  • 2016 Publications
  • 2015 Publications
  • 2014 Publications
  • 2013 Publications
  • 2012 Publications
  • 2011 Publications
  • 2010 Publications
  • 2009 Publications
  • 2008 Publications
  • 2007 Publications
  • 2006 Publications
  • 2005 Publications
  • 2004 Publications
  • 2003 Publications

More topics:

  • COVID-19 Status
  • News
  • Science Highlights
  • Blog
  • Podcasts
  • CSP Plans
  • Featured Profiles
  • Careers
  • Contact Us
  • Events
  • User Meeting
  • MGM Workshops
  • Internal
  • Disclaimer
  • Credits
  • Emergency Info
  • Accessibility / Section 508 Statement
  • RSS feed
  • Flickr
  • LinkedIn
  • Twitter
  • YouTube
Lawrence Berkeley National Lab Biosciences Area
A project of the US Department of Energy, Office of Science

JGI is a DOE Office of Science User Facility managed by Lawrence Berkeley National Laboratory

© 1997-2021 The Regents of the University of California