Niche Partitioning of the N Cycling Microbial Community of an Offshore Oxygen Deficient Zone

Cryptic oxygen cycling in anoxic marine zones

(2017) Emilio Garcia-Robledo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbial functional diversity alters the structure and sensitivity of oxygen deficient zones

(2016) Justin Penn et al.   GEOPHYSICAL RESEARCH LETTERS

Vertical modeling of the nitrogen cycle in the eastern tropical South Pacific oxygen deficient zone using high-resolution concentration and isotope measurements

(2016) Brian D. Peters et al.   GLOBAL BIOGEOCHEMICAL CYCLES

NC10 bacteria in marine oxygen minimum zones

(2016) Cory C Padilla et al.   ISME Journal

Pathways and key intermediates required for obligate aerobic ammonia-dependent chemolithotrophy in bacteria and Thaumarchaeota

(2016) Jessica A Kozlowski et al.   ISME Journal

SAR11 bacteria linked to ocean anoxia and nitrogen loss

(2016) Despina Tsementzi et al.   NATURE

Database Resources of the National Center for Biotechnology Information

(2016)   NUCLEIC ACIDS RESEARCH

Ammonium and nitrite oxidation at nanomolar oxygen concentrations in oxygen minimum zone waters

(2016) Laura A. Bristow et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Anaerobic Nitrogen Turnover by Sinking Diatom Aggregates at Varying Ambient Oxygen Levels

(2016) Peter Stief et al.   Frontiers in Microbiology

Metagenomic analysis of nitrogen and methane cycling in the Arabian Sea oxygen minimum zone

(2016) Claudia Lüke et al.   PeerJ

Nitrous oxide production by nitrification and denitrification in the Eastern Tropical South Pacific oxygen minimum zone

(2015) Qixing Ji et al.   GEOPHYSICAL RESEARCH LETTERS

Ammonia and nitrite oxidation in the Eastern Tropical North Pacific

(2015) Xuefeng Peng et al.   GLOBAL BIOGEOCHEMICAL CYCLES

Ecophysiology of uncultivated marine euryarchaea is linked to particulate organic matter

(2015) William D Orsi et al.   ISME Journal

Genomic potential for arsenic efflux and methylation varies among global Prochlorococcus populations

(2015) Jaclyn K Saunders et al.   ISME Journal

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

(2015) Sangita Ganesh et al.   ISME Journal

Marine Oxygen-Deficient Zones Harbor Depauperate Denitrifying Communities Compared to Novel Genetic Diversity in Coastal Sediments

(2015) Jennifer L. Bowen et al.   MICROBIAL ECOLOGY

Rapid nitrous oxide cycling in the suboxic ocean

(2015) A. R. Babbin et al.   SCIENCE

Meta-omic signatures of microbial metal and nitrogen cycling in marine oxygen minimum zones

(2015) Jennifer B. Glass et al.   Frontiers in Microbiology

Methane oxidation in the eastern tropical North Pacific Ocean water column

(2015) Mary A. Pack et al.   Journal of Geophysical Research-Biogeosciences

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

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

The effect of organic carbon on fixed nitrogen loss in the eastern tropical South Pacific and Arabian Sea oxygen deficient zones

(2014) Bonnie X. Chang et al.   LIMNOLOGY AND OCEANOGRAPHY

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

Community composition of bacteria involved in fixed nitrogen loss in the water column of two major oxygen minimum zones in the ocean

(2013) A Jayakumar et al.   AQUATIC MICROBIAL ECOLOGY

A role for nitrite in the production of nitrous oxide in the lower euphotic zone of the oligotrophic North Pacific Ocean

(2013) Samuel T. Wilson et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

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

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

(2013) Sebastian Lücker et al.   Frontiers in Microbiology

The metagenome of the marine anammox bacterium ‘CandidatusScalindua profunda’ illustrates the versatility of this globally important nitrogen cycle bacterium

(2012) Jack van de Vossenberg et al.   ENVIRONMENTAL MICROBIOLOGY

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

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

Fixed nitrogen loss from the eastern tropical North Pacific and Arabian Sea oxygen deficient zones determined from measurements of N2:Ar

(2012) Bonnie X. Chang et al.   GLOBAL BIOGEOCHEMICAL CYCLES

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

(2012) Tage Dalsgaard et al.   LIMNOLOGY AND OCEANOGRAPHY

TIGRFAMs and Genome Properties in 2013

(2012) Daniel H. Haft et al.   NUCLEIC ACIDS RESEARCH

Bacterial oxygen production in the dark

(2012) Katharina F. Ettwig et al.   Frontiers in Microbiology

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

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

Aligning short reads to reference alignments and trees

(2011) Simon A. Berger et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Microbial metatranscriptomics in a permanent marine oxygen minimum zone

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

Metabolic strategies of free-living and aggregate-associated bacterial communities inferred from biologic and chemical profiles in the Black Sea suboxic zone

(2011) Clara A. Fuchsman et al.   FEMS MICROBIOLOGY ECOLOGY

Intensive nitrogen loss over the Omani Shelf due to anammox coupled with dissimilatory nitrite reduction to ammonium

(2011) Marlene M Jensen et al.   ISME Journal

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Isotopic Signature of N2O Produced by Marine Ammonia-Oxidizing Archaea

(2011) A. E. Santoro et al.   SCIENCE

Climate-Forced Variability of Ocean Hypoxia

(2011) Curtis Deutsch et al.   SCIENCE

Performance, Accuracy, and Web Server for Evolutionary Placement of Short Sequence Reads under Maximum Likelihood

(2011) Simon A. Berger et al.   SYSTEMATIC BIOLOGY

Reduced iron induced nitric oxide and nitrous oxide emission

(2011) Marlies J. Kampschreur et al.   WATER RESEARCH

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Denitrification and the nitrogen gas excess in the eastern tropical South Pacific oxygen deficient zone

(2010) Bonnie X. Chang et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Nitrite-driven anaerobic methane oxidation by oxygenic bacteria

(2010) Katharina F. Ettwig et al.   NATURE

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

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

Denitrification as the dominant nitrogen loss process in the Arabian Sea

(2009) B. B. Ward et al.   NATURE

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

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