Selective carbon sources influence the end products of microbial nitrate respiration

Diversity of the Gut Microbiota in Dihydrotestosterone-Induced PCOS Rats and the Pharmacologic Effects of Diane-35, Probiotics, and Berberine

(2019) Feifei Zhang et al.   Frontiers in Microbiology

AnnoTree: visualization and exploration of a functionally annotated microbial tree of life

(2019) Kerrin Mendler et al.   NUCLEIC ACIDS RESEARCH

MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies

(2019) Dongwan D. Kang et al.   PeerJ

Deciphering microbial interactions in synthetic human gut microbiome communities

(2018) Ophelia S Venturelli et al.   Molecular Systems Biology

Abundance determines the functional role of bacterial phylotypes in complex communities

(2018) Damian W. Rivett et al.   Nature Microbiology

Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly

(2018) Kateryna Zhalnina et al.   Nature Microbiology

Mutant phenotypes for thousands of bacterial genes of unknown function

(2018) Morgan N. Price et al.   NATURE

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life

(2018) Donovan H Parks et al.   NATURE BIOTECHNOLOGY

Emergent simplicity in microbial community assembly

(2018) Joshua E. Goldford et al.   SCIENCE

The selective pressures on the microbial community in a metal-contaminated aquifer

(2018) Hans K. Carlson et al.   ISME Journal

metaSPAdes: a new versatile metagenomic assembler

(2017) Sergey Nurk et al.   GENOME RESEARCH

Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads

(2017) Ryan R. Wick et al.   PLoS Computational Biology

Unraveling RubisCO Form I and Form II Regulation in an Uncultured Organism from a Deep-Sea Hydrothermal Vent via Metagenomic and Mutagenesis Studies

(2017) Stefanie Böhnke et al.   Frontiers in Microbiology

Parallelized, Aerobic, Single Carbon-Source Enrichments from Different Natural Environments Contain Divergent Microbial Communities

(2017) Theodore M. Flynn et al.   Frontiers in Microbiology

Global biogeography of microbial nitrogen-cycling traits in soil

(2016) Michaeline B. Nelson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Host-Specific Functional Significance of Caenorhabditis Gut Commensals

(2016) Maureen Berg et al.   Frontiers in Microbiology

Monofluorophosphate Is a Selective Inhibitor of Respiratory Sulfate-Reducing Microorganisms

(2015) Hans K. Carlson et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

KEGG as a reference resource for gene and protein annotation

(2015) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Denitrification versus respiratory ammonification: environmental controls of two competing dissimilatory NO3−/NO2− reduction pathways in Shewanella loihica strain PV-4

(2014) Sukhwan Yoon et al.   ISME Journal

Mechanisms of direct inhibition of the respiratory sulfate-reduction pathway by (per)chlorate and nitrate

(2014) Hans K Carlson et al.   ISME Journal

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

The environmental controls that govern the end product of bacterial nitrate respiration

(2014) B. Kraft et al.   SCIENCE

In Situ Bioremediation of Uranium with Emulsified Vegetable Oil as the Electron Donor

(2013) David B. Watson et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks

(2013) Pelin Yilmaz et al.   NUCLEIC ACIDS RESEARCH

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Bioremediation of uranium-contaminated groundwater: a systems approach to subsurface biogeochemistry

(2012) Kenneth H Williams et al.   CURRENT OPINION IN BIOTECHNOLOGY

Acetate Availability and its Influence on Sustainable Bioremediation of Uranium-Contaminated Groundwater

(2011) Kenneth H. Williams et al.   GEOMICROBIOLOGY JOURNAL

Differential Growth Responses of Soil Bacterial Taxa to Carbon Substrates of Varying Chemical Recalcitrance

(2011) Katherine C. Goldfarb et al.   Frontiers in Microbiology

High cell density cultivation and recombinant protein production with Escherichia coli in a rocking-motion-type bioreactor

(2010) Julia Glazyrina et al.   Microbial Cell Factories

BioNumbers—the database of key numbers in molecular and cell biology

(2009) Ron Milo et al.   NUCLEIC ACIDS RESEARCH

High cell density media for Escherichia coli are generally designed for aerobic cultivations – consequences for large-scale bioprocesses and shake flask cultures

(2008) Jaakko Soini et al.   Microbial Cell Factories

An Earth-system perspective of the global nitrogen cycle

(2008) Nicolas Gruber et al.   NATURE