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

Oxygen distribution and aerobic respiration in the north and south eastern tropical Pacific oxygen minimum zones

(2014) Laura Tiano et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Validation of reference genes for normalization of qPCR mRNA expression levels inStaphylococcus aureusexposed to osmotic and lactic acid stress conditions encountered during food production and preservation

(2014) Henna-Maria Sihto et al.   FEMS MICROBIOLOGY LETTERS

Microspatial gene expression patterns in the Amazon River Plume

(2014) B. M. Satinsky et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Organic Matter Stoichiometry, Flux, and Oxygen Control Nitrogen Loss in the Ocean

(2014) A. R. Babbin et al.   SCIENCE

Oxygen at Nanomolar Levels Reversibly Suppresses Process Rates and Gene Expression in Anammox and Denitrification in the Oxygen Minimum Zone off Northern Chile

(2014) Tage Dalsgaard et al.   mBio

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Vertical partitioning of nitrogen-loss processes across the oxic-anoxic interface of an oceanic oxygen minimum zone

(2013) Loreto De Brabandere et al.   ENVIRONMENTAL MICROBIOLOGY

Metabolic flexibility of enigmatic SAR324 revealed through metagenomics and metatranscriptomics

(2013) Cody S. Sheik et al.   ENVIRONMENTAL MICROBIOLOGY

Design and Application of an Internal Amplification Control to Improve Dehalococcoides mccartyi 16S rRNA Gene Enumeration by qPCR

(2013) Janet K. Hatt et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Nitrite oxidation in the upper water column and oxygen minimum zone of the eastern tropical North Pacific Ocean

(2013) J Michael Beman et al.   ISME Journal

Compartmentalized microbial composition, oxygen gradients and nitrogen fixation in the gut of Odontotaenius disjunctus

(2013) Javier A Ceja-Navarro et al.   ISME Journal

Evaluating rRNA as an indicator of microbial activity in environmental communities: limitations and uses

(2013) Steven J Blazewicz et al.   ISME Journal

Genomic properties of Marine Group A bacteria indicate a role in the marine sulfur cycle

(2013) Jody J Wright et al.   ISME Journal

Metagenomic analysis of size-fractionated picoplankton in a marine oxygen minimum zone

(2013) Sangita Ganesh et al.   ISME Journal

Nitrogen cycling driven by organic matter export in the South Pacific oxygen minimum zone

(2013) Tim Kalvelage et al.   Nature Geoscience

Diversity and Spatial Distribution of Hydrazine Oxidoreductase (hzo) Gene in the Oxygen Minimum Zone Off Costa Rica

(2013) Liangliang Kong et al.   PLoS One

Deoxygenation alters bacterial diversity and community composition in the ocean’s largest oxygen minimum zone

(2013) J. Michael Beman et al.   Nature Communications

The Genome of Nitrospina gracilis Illuminates the Metabolism and Evolution of the Major Marine Nitrite Oxidizer

(2013) Sebastian Lücker et al.   Frontiers in Microbiology

Relationship between Abundance and Specific Activity of Bacterioplankton in Open Ocean Surface Waters

(2012) Dana E. Hunt et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Microbial community structure and productivity in the oxygen minimum zone of the eastern tropical North Pacific

(2012) Agnieszka Podlaska et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Free-living and aggregate-associated Planctomycetes in the Black Sea

(2012) Clara A. Fuchsman et al.   FEMS MICROBIOLOGY ECOLOGY

Diversity, abundance and expression of nitrite reductase (nirK)-like genes in marine thaumarchaea

(2012) Marie B Lund et al.   ISME Journal

Anammox and denitrification in the oxygen minimum zone of the eastern South Pacific

(2012) Tage Dalsgaard et al.   LIMNOLOGY AND OCEANOGRAPHY

Quantification of ammonia oxidation rates and ammonia-oxidizing archaea and bacteria at high resolution in the Gulf of California and eastern tropical North Pacific Ocean

(2012) J. Michael Beman et al.   LIMNOLOGY AND OCEANOGRAPHY

Biomarker evidence for anammox in the oxygen minimum zone of the Eastern Tropical North Pacific

(2012) Darci Rush et al.   ORGANIC GEOCHEMISTRY

Microbial oceanography of anoxic oxygen minimum zones

(2012) O. Ulloa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Marine Microbes See a Sea of Gradients

(2012) R. Stocker   SCIENCE

Heterotrophic bacterial production and extracellular enzymatic activity in sinking particulate matter in the western North Pacific Ocean

(2012) Namiha Yamada et al.   Frontiers in Microbiology

Identification and removal of ribosomal RNA sequences from metatranscriptomes

(2011) Robert Schmieder et al.   BIOINFORMATICS

Microbial metatranscriptomics in a permanent marine oxygen minimum zone

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

Integrative analysis of environmental sequences using MEGAN4

(2011) D. H. Huson et al.   GENOME RESEARCH

Nitrite oxidation in the Namibian oxygen minimum zone

(2011) Jessika Füssel et al.   ISME Journal

Determination of ultra-low oxygen concentrations in oxygen minimum zones by the STOX sensor

(2011) Niels Peter Revsbech et al.   LIMNOLOGY AND OCEANOGRAPHY-METHODS

Activity of abundant and rare bacteria in a coastal ocean

(2011) B. J. Campbell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean

(2011) B. K. Swan et al.   SCIENCE

Microbial Nitrogen Cycling Processes in Oxygen Minimum Zones

(2010) Phyllis Lam et al.   Annual Review of Marine Science

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data

(2010) Thomas J Hardcastle et al.   BMC BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

YbdG inEscherichia coliis a threshold-setting mechanosensitive channel with MscM activity

(2010) Ulrike Schumann 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

Biochemistry and molecular biology of anammox bacteria

(2009) Mike S. M. Jetten et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Hydrolytic ectoenzyme activity associated with suspended and sinking organic particles within the anoxic Cariaco Basin

(2009) Gordon T. Taylor et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Diversity of total and active free-living vs. particle-attached bacteria in the euphotic zone of the NW Mediterranean Sea

(2009) Jean-François Ghiglione et al.   FEMS MICROBIOLOGY LETTERS

Autonomous observations of in vivo 
fluorescence and particle backscattering
in an oceanic oxygen minimum zone

(2009) A. L. Whitmire et al.   OPTICS EXPRESS

Revising the nitrogen cycle in the Peruvian oxygen minimum zone

(2009) P. Lam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metagenome of a Versatile Chemolithoautotroph from Expanding Oceanic Dead Zones

(2009) D. A. Walsh et al.   SCIENCE

Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter

(2008) Elena Ivars-Martinez et al.   ISME Journal

Microbial community gene expression in ocean surface waters

(2008) J. Frias-Lopez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Oxygen minimum zones in the eastern tropical Atlantic and Pacific oceans

(2008) Johannes Karstensen et al.   PROGRESS IN OCEANOGRAPHY

Oxygen minimum zones (OMZs) in the modern ocean

(2008) A. Paulmier et al.   PROGRESS IN OCEANOGRAPHY

Resource Partitioning and Sympatric Differentiation Among Closely Related Bacterioplankton

(2008) D. E. Hunt et al.   SCIENCE