Impacts of chemical gradients on microbial community structure

Phenotypic heterogeneity driven by nutrient limitation promotes growth in fluctuating environments

(2016) Frank Schreiber et al.   Nature Microbiology

Size-fraction partitioning of community gene transcription and nitrogen metabolism in a marine oxygen minimum zone

(2015) Sangita Ganesh et al.   ISME Journal

Heterotrophic nitrification and aerobic denitrification at low nutrient conditions by a newly isolated bacterium, Acinetobacter sp. SYF26

(2015) Jun-feng Su et al.   MICROBIOLOGY-SGM

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Metaproteomics reveals differential modes of metabolic coupling among ubiquitous oxygen minimum zone microbes

(2014) A. K. Hawley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2014) B. Kraft et al.   SCIENCE

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

Mimicking the oxygen minimum zones: stimulating interaction of aerobic archaeal and anaerobic bacterial ammonia oxidizers in a laboratory-scale model system

(2012) Jia Yan et al.   ENVIRONMENTAL MICROBIOLOGY

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

Reconstruction of Ribosomal RNA Genes from Metagenomic Data

(2012) Lu Fan et al.   PLoS One

The Binning of Metagenomic Contigs for Microbial Physiology of Mixed Cultures

(2012) Marc Strous et al.   Frontiers in Microbiology

Microbial metatranscriptomics in a permanent marine oxygen minimum zone

(2011) Frank J. Stewart et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial Ecology of the Dark Ocean above, at, and below the Seafloor

(2011) B. N. Orcutt et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

The Warburg and Crabtree effects: On the origin of cancer cell energy metabolism and of yeast glucose repression

(2010) Rodrigo Diaz-Ruiz et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Steepest entropy increase is justified by information theory. The relations between Ziegler’s principle, Onsager’s formalism and Prigogine’s principle

(2010) Sergio Bordel   PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS

Aerobic growth at nanomolar oxygen concentrations

(2010) D. A. Stolper 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

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Aerobic denitrification in permeable Wadden Sea sediments

(2009) Hang Gao et al.   ISME Journal

Pathways, rates, and regulation of N2 production in the chemocline of an anoxic basin, Mariager Fjord, Denmark

(2009) Marlene M. Jensen et al.   MARINE CHEMISTRY

Rules of Engagement: Interspecies Interactions that Regulate Microbial Communities

(2008) Ainslie E.F. Little et al.   Annual Review of Microbiology

Glycerol fermentation by (open) mixed cultures: A chemostat study

(2008) Margarida F. Temudo et al.   BIOTECHNOLOGY AND BIOENGINEERING

Energy-based models for environmental biotechnology

(2008) Jorge Rodríguez et al.   TRENDS IN BIOTECHNOLOGY

A Probabilistic Model of Local Sequence Alignment That Simplifies Statistical Significance Estimation

(2008) Sean R. Eddy   PLoS Computational Biology