2018
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(2018) Discovery of enzymes for toluene synthesis from anoxic microbial communities.
Nat Chem Biol .
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(2018) Coupled laboratory and field investigations resolve microbial interactions that underpin persistence in hydraulically fractured shales.
Proc Natl Acad Sci U S A 115(28), E6585-E6594.
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(2018) Novel soil bacteria possess diverse genes for secondary metabolite biosynthesis.
Nature 558(7710), 440-444.
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(2018) Metagenomic Analysis of Subtidal Sediments from Polar and Subpolar Coastal Environments Highlights the Relevance of Anaerobic Hydrocarbon Degradation Processes.
Microb Ecol 75(1), 123-139.
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(2018) Peatland Acidobacteria with a dissimilatory sulfur metabolism.
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(2018) Meta-omics survey of [NiFe]-hydrogenase genes fails to capture drastic variations in H2-oxidation activity measured in three soils exposed to H2.
Soil Biology and Biochemistry 125, 239-243.
10.1016/j.soilbio.2018.07.020
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(2018) New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes.
Front Microbiol 9, 1635.
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(2018) Genomic features of bacterial adaptation to plants.
Nat Genet 50(1), 138-150.
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(2018) Combining Hadoop with MPI to Solve Metagenomics Problems that are both Data- and Compute-intensive.
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(2018) Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States.
Front Microbiol 9, 1775.
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(2018) Metagenomic insights into diazotrophic communities across Arctic glacier forefields.
FEMS Microbiol Ecol .
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(2018) Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface.
Nat Microbiol 3(3), 328-336.
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(2018) Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy.
Nat Microbiol 3(7), 836-843.
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Nat Commun 9(1), 777.
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(2018) Large-scale replicated field study of maize rhizosphere identifies heritable microbes.
Proc Natl Acad Sci U S A 115(28), 7368-7373.
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(2018) Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil.
Nat Ecol Evol 2(3), 499-509.
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(2018) Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil.
Nat Ecol Evol 2(3), 499-509.
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2017
(2017) Rokubacteria: Genomic Giants among the Uncultured Bacterial Phyla.
Front Microbiol 8, 2264.
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(2017) Sulfide Generation by Dominant Halanaerobium Microorganisms in Hydraulically Fractured Shales.
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(2017) IMG/M: integrated genome and metagenome comparative data analysis system.
Nucleic Acids Res 45(D1), D507-D516.
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(2017) Metabolic versatility of small archaea Micrarchaeota and Parvarchaeota.
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(2017) Metagenomic analysis of intertidal hypersaline microbial mats from Elkhorn Slough, California, grown with and without molybdate.
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(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.
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(2017) Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach.
PLoS One 12(5), e0177189.
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(2017) Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach.
PLoS One 12(5), e0177189.
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(2017) Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI.
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(2017) A genomic perspective on stoichiometric regulation of soil carbon cycling.
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(2017) A compendium of multi-omic sequence information from the Saanich Inlet water column.
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Nat Commun 8(1), 1507.
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(2017) Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes.
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(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.
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(2017) Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders.
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(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.
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(2017) Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems.
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(2017) Genomic comparisons of a bacterial lineage that inhabits both marine and terrestrial deep subsurface systems.
PeerJ 5, e3134.
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(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.
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(2017) Genome-Resolved Meta-Omics Ties Microbial Dynamics to Process Performance in Biotechnology for Thiocyanate Degradation.
Environ Sci Technol 51(5), 2944-2953.
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(2017) The tale of a neglected energy source: Elevated hydrogen exposure affects both microbial diversity and function in soil.
Appl Environ Microbiol 83(11).
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(2017) Patterns and drivers of fungal community depth stratification in Sphagnum peat.
FEMS Microbiol Ecol 93(7).
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(2017) Lignocellulose pretreatment in a fungus-cultivating termite.
Proc Natl Acad Sci U S A 114(18), 4709-4714.
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(2017) Lignocellulose pretreatment in a fungus-cultivating termite.
Proc Natl Acad Sci U S A 114(18), 4709-4714.
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(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 .
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(2017) Conversion of Amazon rainforest to agriculture alters community traits of methane-cycling organisms.
Mol Ecol 26(6), 1547-1556.
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(2017) 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.
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(2017) The Source and Evolutionary History of a Microbial Contaminant Identified Through Soil Metagenomic Analysis.
MBio 8(1).
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(2017) Protein structure determination using metagenome sequence data.
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(2017) Nontargeted virus sequence discovery pipeline and virus clustering for metagenomic data.
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(2017) Ecogenomics of virophages and their giant virus hosts assessed through time series metagenomics.
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(2017) Towards a balanced view of the bacterial tree of life.
Microbiome 5(1), 140.
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(2017) Giant viruses with an expanded complement of translation system components.
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(2017) Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.
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(2017) Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism.
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(2017) Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism.
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(2017) Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP).
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(2017) Succession in the petroleum reservoir microbiome through an oil field production lifecycle.
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(2017) Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico.
Sci Rep 7(1), 16015.
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(2017) Comparative metagenomics of hydrocarbon and methane seeps of the Gulf of Mexico.
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(2017) DNA-SIP based genome-centric metagenomics identifies key long-chain fatty acid-degrading populations in anaerobic digesters with different feeding frequencies.
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2016
(2016) Ice cover extent drives phytoplankton and bacterial community structure in a large north-temperate lake: implications for a warming climate.
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(2016) Assembly and Succession of Iron Oxide Microbial Mat Communities in Acidic Geothermal Springs.
Frontiers in Microbiology 7, 25.
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(2016) Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species.
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(2016) Microbial metabolisms in a 2.5-km-deep ecosystem created by hydraulic fracturing in shales.
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(2016) Seasonal Succession Leads to Habitat-Dependent Differentiation in Ribosomal RNA:DNA Ratios among Freshwater Lake Bacteria.
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(2016) Chloroflexi CL500-11 Populations That Predominate Deep-Lake Hypolimnion Bacterioplankton Rely on Nitrogen-Rich Dissolved Organic Matter Metabolism and C1 Compound Oxidation.
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(2016) Detection of short-term cropping system-induced changes to soil bacterial communities differs among four molecular characterization methods.
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(2016) Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs.
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(2016) The Cacti Microbiome: Interplay between Habitat-Filtering and Host-Specificity.
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(2016) The distribution, diversity and function of predominant Thermoproteales in high-temperature environments of Yellowstone National Park.
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(2016) Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage.
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(2016) Metagenomic Insights into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines.
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2015
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2014
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(2014) Metatranscriptomic analysis of lignocellulolytic microbial communities involved in high-solids decomposition of rice straw.
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(2014) Rearrangement of a Large Novel Pseudomonas aeruginosa Gene Island in Strains Isolated from a Patient Developing Ventilator-Associated Pneumonia.
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(2014) Impact of fire on active layer and permafrost microbial communities and metagenomes in an upland Alaskan boreal forest.
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(2014) Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative.
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(2014) Microbial ecology of an Antarctic hypersaline lake: genomic assessment of ecophysiology among dominant haloarchaea.
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(2014) An environmental bacterial taxon with a large and distinct metabolic repertoire.
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(2014) MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm.
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(2014) Recruiting human microbiome shotgun data to site-specific reference genomes.
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2013
(2013) Diversity and population structure of Marine Group A bacteria in the Northeast subarctic Pacific Ocean.
ISME J 7(2), 256-68.
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(2013) Leucoagaricus gongylophorus produces diverse enzymes for the degradation of recalcitrant plant polymers in leaf-cutter ant fungus gardens.
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(2013) Proteogenomic analysis of a thermophilic bacterial consortium adapted to deconstruct switchgrass.
PLoS One 8(7), e68465.
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(2013) Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage.
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(2013) Comparative metagenomic and metatranscriptomic analysis of hindgut paunch microbiota in wood- and dung-feeding higher termites.
PLoS One 8(4), e61126.
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(2013) Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling.
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(2013) Phylogenetic and Functional Analysis of Metagenome Sequence from High-Temperature Archaeal Habitats Demonstrate Linkages between Metabolic Potential and Geochemistry.
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(2013) The YNP Metagenome Project: Environmental Parameters Responsible for Microbial Distribution in the Yellowstone Geothermal Ecosystem.
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(2013) Community structure and function of high-temperature chlorophototrophic microbial mats inhabiting diverse geothermal environments.
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(2013) Geoarchaeota: a new candidate phylum in the Archaea from high-temperature acidic iron mats in Yellowstone National Park.
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(2013) The epsomitic phototrophic microbial mat of Hot Lake, Washington: community structural responses to seasonal cycling.
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(2013) Pyrosequencing reveals high-temperature cellulolytic microbial consortia in Great Boiling Spring after in situ lignocellulose enrichment.
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(2013) Diversity and heritability of the maize rhizosphere microbiome under field conditions.
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(2013) Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill.
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(2013) Comparative genomic analysis of phylogenetically closely related Hydrogenobaculum sp. isolates from Yellowstone National Park.
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(2013) Comparative Genomic Analysis of the Endosymbionts of Herbivorous Insects Reveals Eco-Environmental Adaptations: Biotechnology Applications.
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2012
(2012) Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens.
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(2012) Deep-sea bacteria enriched by oil and dispersant from the Deepwater Horizon spill.
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(2012) Metagenomic analysis of a stable trichloroethene-degrading microbial community.
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(2012) Hydrogen production in photosynthetic microbial mats in the Elkhorn Slough estuary, Monterey Bay.
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(2008) Identification of ancient remains through genomic sequencing.
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(2008) A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cells.
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2006
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