Transient exposure to oxygen or nitrate reveals ecophysiology of fermentative and sulfate-reducing benthic microbial populations

Defluviitalea raffinosedens sp. nov., a thermophilic, anaerobic, saccharolytic bacterium isolated from an anaerobic batch digester treating animal manure and rice straw

(2017)   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Microbial community dynamics in Inferno Crater Lake, a thermally fluctuating geothermal spring

(2017) Laura Ward et al.   ISME Journal

Uncultivated microbes in need of their own taxonomy

(2017) Konstantinos T Konstantinidis et al.   ISME Journal

Divergent extremes but convergent recovery of bacterial and archaeal soil communities to an ongoing subterranean coal mine fire

(2017) Sang-Hoon Lee et al.   ISME Journal

Impacts of chemical gradients on microbial community structure

(2017) Jianwei Chen et al.   ISME Journal

Diversity and Composition of Sulfate-Reducing Microbial Communities Based on Genomic DNA and RNA Transcription in Production Water of High Temperature and Corrosive Oil Reservoir

(2017) Xiao-Xiao Li et al.   Frontiers in Microbiology

Challenges in microbial ecology: building predictive understanding of community function and dynamics

(2016) Stefanie Widder et al.   ISME Journal

Genomic insights into members of the candidate phylum Hyd24-12 common in mesophilic anaerobic digesters

(2016) Rasmus Hansen Kirkegaard et al.   ISME Journal

Thermal and geochemical influences on microbial biogeography in the hydrothermal sediments of Guaymas Basin, Gulf of California

(2016) Luke McKay et al.   Environmental Microbiology Reports

Methane Seep in Shallow-Water Permeable Sediment Harbors High Diversity of Anaerobic Methanotrophic Communities, Elba, Italy

(2016) S. Emil Ruff et al.   Frontiers in Microbiology

Microbial Communities in Methane- and Short Chain Alkane-Rich Hydrothermal Sediments of Guaymas Basin

(2016) Frederick Dowell et al.   Frontiers in Microbiology

Characterization of microbial associations with methanotrophic archaea and sulfate-reducing bacteria through statistical comparison of nested Magneto-FISH enrichments

(2016) Elizabeth Trembath-Reichert et al.   PeerJ

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

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

Global dispersion and local diversification of the methane seep microbiome

(2015) S. Emil Ruff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Rapid succession of uncultured marine bacterial and archaeal populations in a denitrifying continuous culture

(2014) Beate Kraft et al.   ENVIRONMENTAL MICROBIOLOGY

Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

(2014) Pablo Yarza et al.   NATURE REVIEWS MICROBIOLOGY

The Fate of Nitrate in Intertidal Permeable Sediments

(2014) Hannah K. Marchant et al.   PLoS One

Thermophilic microbial cellulose decomposition and methanogenesis pathways recharacterized by metatranscriptomic and metagenomic analysis

(2014) Yu Xia et al.   Scientific Reports

Recoding of the stop codon UGA to glycine by a BD1-5/SN-2 bacterium and niche partitioning between Alpha- and Gammaproteobacteria in a tidal sediment microbial community naturally selected in a laboratory chemostat

(2014) Anna Hanke et al.   Frontiers in Microbiology

Membrane-bound oxygen reductases of the anaerobic sulfate-reducing Desulfovibrio vulgaris Hildenborough: roles in oxygen defence and electron link with periplasmic hydrogen oxidation

(2013) F. Ramel et al.   MICROBIOLOGY-SGM

Phylogenetic Analysis of a Microbialite-Forming Microbial Mat from a Hypersaline Lake of the Kiritimati Atoll, Central Pacific

(2013) Dominik Schneider et al.   PLoS One

Role of Diatoms in the Spatial-Temporal Distribution of Intracellular Nitrate in Intertidal Sediment

(2013) Peter Stief et al.   PLoS One

UGA is an additional glycine codon in uncultured SR1 bacteria from the human microbiota

(2013) J. H. Campbell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

(2012) Elmar Pruesse et al.   BIOINFORMATICS

Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat

(2012) J Kirk Harris et al.   ISME Journal

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Isolation of Sulfate-Reducing Bacteria from Sediments Above the Deep-Subseafloor Aquifer

(2012) Katja Fichtel et al.   Frontiers in Microbiology

The Binning of Metagenomic Contigs for Microbial Physiology of Mixed Cultures

(2012) Marc Strous et al.   Frontiers in Microbiology

Fundamentals of Microbial Community Resistance and Resilience

(2012) Ashley Shade et al.   Frontiers in Microbiology

Shifts in microbial community structure of granular and liquid biomass in response to changes to infeed and digester design in anaerobic digesters receiving food-processing wastes

(2011) Michael C. Nelson et al.   BIORESOURCE TECHNOLOGY

Sponge-specific clusters revisited: a comprehensive phylogeny of sponge-associated microorganisms

(2011) Rachel L. Simister et al.   ENVIRONMENTAL MICROBIOLOGY

Drivers of bacterial diversity dynamics in permeable carbonate and silicate coral reef sands from the Red Sea

(2011) Sandra Schöttner et al.   ENVIRONMENTAL MICROBIOLOGY

Bacterial sulfur cycling shapes microbial communities in surface sediments of an ultramafic hydrothermal vent field

(2011) Regina Schauer et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial methane cycling in a terrestrial mud volcano in eastern Taiwan

(2011) Yung-Hsin Chang et al.   ENVIRONMENTAL MICROBIOLOGY

Intensive and extensive nitrogen loss from intertidal permeable sediments of the Wadden Sea

(2011) Hang Gao et al.   LIMNOLOGY AND OCEANOGRAPHY

Diversity and Spatial Distribution of Prokaryotic Communities Along A Sediment Vertical Profile of A Deep-Sea Mud Volcano

(2011) Maria G. Pachiadaki et al.   MICROBIAL ECOLOGY

EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data

(2011) Christopher S Miller et al.   GENOME BIOLOGY

Microbial communities acclimate to recurring changes in soil redox potential status

(2010) Kristen M. DeAngelis et al.   ENVIRONMENTAL MICROBIOLOGY

Novel groups of Gammaproteobacteria catalyse sulfur oxidation and carbon fixation in a coastal, intertidal sediment

(2010) Sabine Lenk et al.   ENVIRONMENTAL MICROBIOLOGY

Dynamics of zero-valent sulfur species including polysulfides at seep sites on intertidal sand flats (Wadden Sea, North Sea)

(2010) Alexey Kamyshny et al.   MARINE CHEMISTRY

Enhanced biological phosphorus removal by granular sludge: From macro- to micro-scale

(2009) Chang-Yong Wu et al.   WATER RESEARCH

The past and present of sodium energetics: May the sodium-motive force be with you

(2008) Armen Y. Mulkidjanian et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Identity and abundance of active sulfate-reducing bacteria in deep tidal flat sediments determined by directed cultivation and CARD-FISH analysis

(2008) Antje Gittel et al.   ENVIRONMENTAL MICROBIOLOGY

Diurnal redox fluctuation and microbial activity in the rhizosphere of wetland plants

(2008) Marcell Nikolausz et al.   EUROPEAN JOURNAL OF SOIL BIOLOGY

The ecology and biotechnology of sulphate-reducing bacteria

(2008) Gerard Muyzer et al.   NATURE REVIEWS MICROBIOLOGY

Resistance, resilience, and redundancy in microbial communities

(2008) S. D. Allison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA