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

Community history affects the predictability of microbial ecosystem development

(2013) Eulyn Pagaling et al.   ISME Journal

Oxygen-dependent niche formation of a pyrite-dependent acidophilic consortium built by archaea and bacteria

(2013) Sibylle Ziegler et al.   ISME Journal

Insights into the phylogeny and coding potential of microbial dark matter

(2013) Christian Rinke et al.   NATURE

Predominant archaea in marine sediments degrade detrital proteins

(2013) Karen G. Lloyd et al.   NATURE

The global nitrogen cycle in the twenty-first century: introduction

(2013) D. Fowler et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

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

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Ecological Populations of Bacteria Act as Socially Cohesive Units of Antibiotic Production and Resistance

(2012) O. X. Cordero et al.   SCIENCE

Founder takes all: density-dependent processes structure biodiversity

(2012) Jonathan M. Waters et al.   TRENDS IN ECOLOGY & EVOLUTION

Stimulation of Autotrophic Denitrification by Intrusions of the Bosporus Plume into the Anoxic Black Sea

(2012) Clara A. Fuchsman et al.   Frontiers in Microbiology

The Binning of Metagenomic Contigs for Microbial Physiology of Mixed Cultures

(2012) Marc Strous et al.   Frontiers in Microbiology

Identifying fermenting bacteria in anoxic tidal-flat sediments by a combination of microcalorimetry and ribosome-based stable-isotope probing

(2011) Jutta Graue et al.   FEMS MICROBIOLOGY ECOLOGY

De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities

(2011) Priya Narasingarao et al.   ISME Journal

A metagenome of a full-scale microbial community carrying out enhanced biological phosphorus removal

(2011) Mads Albertsen et al.   ISME Journal

Microbial nitrate respiration – Genes, enzymes and environmental distribution

(2011) Beate Kraft et al.   JOURNAL OF BIOTECHNOLOGY

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

(2011) Hang Gao et al.   LIMNOLOGY AND OCEANOGRAPHY

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

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

(2011) Christopher S Miller et al.   GENOME BIOLOGY

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

(2010) Sabine Lenk et al.   ENVIRONMENTAL MICROBIOLOGY

Ecological and evolutionary factors underlying global and local assembly of denitrifier communities

(2010) Christopher M Jones et al.   ISME Journal

Viral and microbial community dynamics in four aquatic environments

(2010) Beltran Rodriguez-Brito et al.   ISME Journal

Enigmatic, ultrasmall, uncultivated Archaea

(2010) B. J. Baker et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Cryptic Sulfur Cycle in Oxygen-Minimum-Zone Waters off the Chilean Coast

(2010) D. E. Canfield et al.   SCIENCE

Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota

(2010) Anja Spang et al.   TRENDS IN MICROBIOLOGY

The Systemic Imprint of Growth and Its Uses in Ecological (Meta)Genomics

(2010) Sara Vieira-Silva et al.   PLoS Genetics

Quantitative Community Fingerprinting Methods for Estimating the Abundance of Operational Taxonomic Units in Natural Microbial Communities

(2009) A. Ramette   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Bacteriophage predation regulates microbial abundance and diversity in a full-scale bioreactor treating industrial wastewater

(2009) Orr H Shapiro et al.   ISME Journal

Aerobic denitrification in permeable Wadden Sea sediments

(2009) Hang Gao et al.   ISME Journal

Archaeal ammonia oxidizers and nirS-type denitrifiers dominate sediment nitrifying and denitrifying populations in a subtropical macrotidal estuary

(2009) Guy C J Abell et al.   ISME Journal

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

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

Phylogenetic Analysis of Nitrite, Nitric Oxide, and Nitrous Oxide Respiratory Enzymes Reveal a Complex Evolutionary History for Denitrification

(2008) Christopher M. Jones et al.   MOLECULAR BIOLOGY AND EVOLUTION

Detoxification of sulphidic African shelf waters by blooming chemolithotrophs

(2008) Gaute Lavik et al.   NATURE

Chaos in a long-term experiment with a plankton community

(2008) Elisa Benincà et al.   NATURE

Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques

(2008) Rudolf Amann et al.   NATURE REVIEWS MICROBIOLOGY

Cultivable bacteria from bulk water, aggregates, and surface sediments of a tidal flat ecosystem

(2008) Heike Stevens et al.   OCEAN DYNAMICS