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(2021) Metagenomes, metatranscriptomes, and metagenome-assembled genomes from chesapeake and Delaware bay (USA) water samples.
Microbiology Resource Announcements 10(21).
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(2021) Pre-Cambrian roots of novel Antarctic cryptoendolithic bacterial lineages.
Microbiome 9(1), 15.
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(2021) The widespread IS200/605 transposon family encodes diverse programmable RNA-guided endonucleases.
Science 374(6563), 57-65.
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(2021) Ecogenomics of Groundwater Phages Suggests Niche Differentiation Linked to Specific Environmental Tolerance.
mSystems 6(3), e00537-21.
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(2021) Elucidating gene expression adaptation of phylogenetically divergent coral holobionts under heat stress.
Nature Communications 12.
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(2021) Viruses infecting a warm water picoeukaryote shed light on spatial co-occurrence dynamics of marine viruses and their hosts.
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(2021) Changing expression patterns of TonB-dependent transporters suggest shifts in polysaccharide consumption over the course of a spring phytoplankton bloom.
Isme Journal , 15.
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(2021) Extreme dimensions — how big (or small) can tailed phages be?.
Nature Reviews Microbiology 19(7), 407.
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(2021) Dissecting the dominant hot spring microbial populations based on community-wide sampling at single-cell genomic resolution.
The ISME Journal: Multidisciplinary Journal of Microbial Ecology , 1-11.
10.1038/s41396-021-01178-4
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(2021) Whole Community Metatranscriptomes and Lipidomes Reveal Diverse Responses Among Antarctic Phytoplankton to Changing Ice Conditions.
Frontiers in Marine Science 8, 14.
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(2021) Seasonal dynamics of core fungi in the switchgrass phyllosphere, and co-occurrence with leaf bacteria.
Phytobiomes Journal 5(1), 60-68.
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(2021) Illuminating the Virosphere Through Global Metagenomics.
Annual Review of Biomedical Data Science 4(1), 369-391.
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(2021) Cultivating the bacterial microbiota of populus roots.
mSystems 6(3).
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(2021) Prokaryotic viruses impact functional microorganisms in nutrient removal and carbon cycle in wastewater treatment plants.
Nature Communications 12(1).
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(2021) Microbial Community Field Surveys Reveal Abundant Pseudomonas Population in Sorghum Rhizosphere Composed of Many Closely Related Phylotypes.
Frontiers in Microbiology 12, 17.
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(2021) Rapid response of nitrogen cycling gene transcription to labile carbon amendments in a soil microbial community.
mSystems 6(3).
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(2021) DOE JGI metagenome workflow.
mSystems 6(3).
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(2021) Global overview and major challenges of host prediction methods for uncultivated phages.
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(2021) Dinoflagellates alter their carbon and nutrient metabolic strategies across environmental gradients in the central Pacific Ocean.
Nature Microbiology 6(2), 173-+.
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(2021) Different threats, same response.
Nature Plants 7(5), 544-545.
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(2021) A global metagenomic map of urban microbiomes and antimicrobial resistance.
Cell 184(13), 3376-3393.e17.
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(2021) Brockarchaeota, a novel archaeal phylum with unique and versatile carbon cycling pathways.
Nature Communications 12(1).
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(2021) Methanogenesis and Salt Tolerance Genes of a Novel Halophilic Methanosarcinaceae Metagenome-Assembled Genome from a Former Solar Saltern.
Genes 12(10), 1609.
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(2021) Perspective on taxonomic classification of uncultivated viruses.
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(2021) Silicon-rich soil amendments impact microbial community composition and the composition of arsM bearing microbes.
Plant and Soil .
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(2021) 16S rRNA gene amplicon sequencing data from flooded rice paddy mesocosms treated with different silicon-rich soil amendments.
Microbiology Resource Announcements 10(27).
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(2021) Global Diversity and Biogeography of the Zostera marina Mycobiome.
Applied and Environmental Microbiology 87(12), 1-19.
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(2021) Ecological Dichotomies Arise in Microbial Communities Due to Mixing of Deep Hydrothermal Waters and Atmospheric Gas in a Circumneutral Hot Spring.
Applied and Environmental Microbiology 87(23), e01598-21.
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BMC Bioinformatics 22(1).
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(2021) VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses.
Microbiome 9(1), 13.
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(2021) Proteome specialization of anaerobic fungi during ruminal degradation of recalcitrant plant fiber.
Isme Journal 15(2), 421-434.
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(2021) Genomic adaptations to an endolithic lifestyle in the coral-associated alga Ostreobium.
Current Biology 31(7), 1393-1402.e5.
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(2021) Viral community analysis in a marine oxygen minimum zone indicates increased potential for viral manipulation of microbial physiological state.
The ISME Journal: Multidisciplinary Journal of Microbial Ecology , 1-11.
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(2021) Restoring wetlands on intensive agricultural lands modifies nitrogen cycling microbial communities and reduces N2O production potential.
Journal of Environmental Management 299.
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(2021) Metagenomic insights into the taxonomy, function, and dysbiosis of prokaryotic communities in octocorals.
Microbiome 9(1), 21.
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(2021) Metagenomic reconstruction of nitrogen and carbon cycling pathways in forest soil: Influence of different hardwood tree species.
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(2021) Ecology of inorganic sulfur auxiliary metabolism in widespread bacteriophages.
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(2021) Pangenomics reveals alternative environmental lifestyles among chlamydiae.
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(2021) Peatland microbial community responses to plant functional group and drought are depth-dependent.
Molecular Ecology 30(20), 5119-5136.
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(2021) Large-scale protein level comparison of Deltaproteobacteria reveals cohesive metabolic groups.
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(2021) Long-term excess nitrogen fertilizer increases sensitivity of soil microbial community to seasonal change revealed by ecological network and metagenome analyses.
Soil Biology and Biochemistry 160.
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(2021) Mercury methylation by metabolically versatile and cosmopolitan marine bacteria.
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(2021) Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes.
PLOS Biology 19(11), e3001442.
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(2021) Metabolic Potential for Reductive Acetogenesis and a Novel Energy-Converting [NiFe] Hydrogenase in Bathyarchaeia From Termite Guts – A Genome-Centric Analysis.
Frontiers in Microbiology 11.
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(2021) Revealing enzyme functional architecture via high-throughput microfluidic enzyme kinetics.
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(2021) The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole.
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(2021) Medicago root nodule microbiomes: insights into a complex ecosystem with potential candidates for plant growth promotion.
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(2021) New Insights Into the Influence of Plant and Microbial Diversity on Denitrification Rates in a Salt Marsh.
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(2021) Meanders as a scaling motif for understanding of floodplain soil microbiome and biogeochemical potential at the watershed scale.
Microbiome 9(1).
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(2021) Decrypting bacterial polyphenol metabolism in an anoxic wetland soil.
Nature Communications 12(1).
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(2021) Activity-based, genome-resolved metagenomics uncovers key populations and pathways involved in subsurface conversions of coal to methane.
The ISME Journal: Multidisciplinary Journal of Microbial Ecology , 1-12.
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(2021) Energy efficiency and biological interactions define the core microbiome of deep oligotrophic groundwater.
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(2021) Genomes OnLine Database (GOLD) v.8: overview and updates.
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(2021) Atypical Divergence of SARS-CoV-2 Orf8 from Orf7a within the Coronavirus Lineage Suggests Potential Stealthy Viral Strategies in Immune Evasion.
Mbio 12(1), 12.
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(2021) Niche dimensions of a marine bacterium are identified using invasion studies in coastal seawater.
Nature Microbiology 6(4), 524-+.
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(2021) Verrucomicrobiota are specialist consumers of sulfated methyl pentoses during diatom blooms.
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(2021) Remarkably coherent population structure for a dominant Antarctic Chlorobium species.
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(2021) Searching for fat tails in CRISPR-Cas systems: Data analysis and mathematical modeling.
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(2021) Genomic and functional analyses of fungal and bacterial consortia that enable lignocellulose breakdown in goat gut microbiomes.
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(2021) The Santorini Volcanic Complex as a Valuable Source of Enzymes for Bioenergy.
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(2021) A Novel Freshwater to Marine Evolutionary Transition Revealed within Methylophilaceae Bacteria from the Arctic Ocean.
mBio 12(3), e0130621.
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(2021) Divergent Genomic Adaptations in the Microbiomes of Arctic Subzero Sea-Ice and Cryopeg Brines.
Frontiers in Microbiology 12.
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(2021) Serendipita fungi modulate the switchgrass root transcriptome to circumvent host defenses and establish a symbiotic relationship.
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(2021) High Potential for Biomass-Degrading Enzymes Revealed by Hot Spring Metagenomics.
Frontiers in Microbiology 12.
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(2021) Diverse ecophysiological adaptations of subsurface Thaumarchaeota in floodplain sediments revealed through genome-resolved metagenomics.
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(2021) Nutrient Inputs Stimulate Mercury Methylation by Syntrophs in a Subarctic Peatland.
Frontiers in Microbiology 12, 741523.
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(2021) IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses.
Nucleic Acids Res 49(D1), D764-D775.
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(2021) The Rhizosphere Responds: Rich Fen Peat and Root Microbial Ecology after Long-Term Water Table Manipulation.
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(2021) Contrasting Community Assembly Forces Drive Microbial Structural and Potential Functional Responses to Precipitation in an Incipient Soil System.
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Genes 13(1), 22.
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(2015) Patterns in wetland microbial community composition and functional gene repertoire associated with methane emissions.
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(2015) Patterns in wetland microbial community composition and functional gene repertoire associated with methane emissions.
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(2015) Geomicrobiology of sublacustrine thermal vents in Yellowstone Lake: geochemical controls on microbial community structure and function.
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(2015) MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities.
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(2015) Spatial Homogeneity of Bacterial Communities Associated with the Surface Mucus Layer of the Reef-Building Coral Acropora palmata.
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(2015) Insights into the bacterial community and its temporal succession during the fermentation of wine grapes.
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(2015) Similar Microbial Communities Found on Two Distant Seafloor Basalts.
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(2015) High-throughput metagenomic technologies for complex microbial community analysis: open and closed formats.
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2014
(2014) Convergent bacterial microbiotas in the fungal agricultural systems of insects.
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(2014) Phylogenetically driven sequencing of extremely halophilic archaea reveals strategies for static and dynamic osmo-response.
PLoS Genet 10(11), e1004784.
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(2014) Building the crops of tomorrow: advantages of symbiont-based approaches to improving abiotic stress tolerance.
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(2014) Metagenomic sequencing of two salton sea microbiomes.
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(2014) Metagenomes from two microbial consortia associated with Santa Barbara seep oil.
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(2014) Metagenomic analysis of microbial consortium from natural crude oil that seeps into the marine ecosystem offshore Southern California.
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(2014) Tackling soil diversity with the assembly of large, complex metagenomes.
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(2014) Predominant Acidilobus-like populations from geothermal environments in yellowstone national park exhibit similar metabolic potential in different hypoxic microbial communities.
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(2014) Assessment of the Deepwater Horizon oil spill impact on Gulf coast microbial communities.
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(2014) Purifying the Impure: Sequencing Metagenomes and Metatranscriptomes from Complex Animal-associated Samples.
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(2014) FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus.
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(2014) Improved assemblies using a source-agnostic pipeline for MetaGenomic Assembly by Merging (MeGAMerge) of contigs.
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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) 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.
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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.
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(2013) Comparative metagenomic and metatranscriptomic analysis of hindgut paunch microbiota in wood- and dung-feeding higher termites.
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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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2012
(2012) Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens.
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