Genomic Reconstruction of an Uncultured Hydrothermal Vent Gammaproteobacterial Methanotroph (Family Methylothermaceae) Indicates Multiple Adaptations to Oxygen Limitation

MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

(2015) Dinghua Li et al.   BIOINFORMATICS

Methane oxidation coupled to nitrate reduction under hypoxia by the GammaproteobacteriumMethylomonas denitrificans, sp. nov. type strain FJG1

(2015) K. Dimitri Kits et al.   ENVIRONMENTAL MICROBIOLOGY

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

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

Metagenomic resolution of microbial functions in deep-sea hydrothermal plumes across the Eastern Lau Spreading Center

(2015) Karthik Anantharaman et al.   ISME Journal

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Structure of the V. cholerae Na+-pumping NADH:quinone oxidoreductase

(2014) Julia Steuber et al.   NATURE

Microbial iron uptake as a mechanism for dispersing iron from deep-sea hydrothermal vents

(2014) Meng Li et al.   Nature Communications

Genome mining for methanobactins

(2013) Grace E Kenney et al.   BMC BIOLOGY

Methanobactin and MmoD work in concert to act as the ‘copper-switch’ in methanotrophs

(2013) Jeremy D. Semrau et al.   ENVIRONMENTAL MICROBIOLOGY

An authoritative global database for active submarine hydrothermal vent fields

(2013) Stace E. Beaulieu et al.   GEOCHEMISTRY GEOPHYSICS GEOSYSTEMS

Methylomarinovum caldicuralii gen. nov., sp. nov., a moderately thermophilic methanotroph isolated from a shallow submarine hydrothermal system, and proposal of the family Methylothermaceae fam. nov.

(2013) H. Hirayama et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Anaerobic oxidation of methane coupled to nitrate reduction in a novel archaeal lineage

(2013) Mohamed F. Haroon et al.   NATURE

IMG/M 4 version of the integrated metagenome comparative analysis system

(2013) Victor M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)

(2013) Ross Overbeek et al.   NUCLEIC ACIDS RESEARCH

The microbiology of deep-sea hydrothermal vent plumes: ecological and biogeographic linkages to seafloor and water column habitats

(2013) Gregory J. Dick et al.   Frontiers in Microbiology

Low Temperature Geomicrobiology Follows Host Rock Composition Along a Geochemical Gradient in Lau Basin

(2013) Jason B. Sylvan et al.   Frontiers in Microbiology

Denitrification and aerobic respiration, hybrid electron transport chains and co-evolution

(2012) Jianwei Chen et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Methylomarinum vadi gen. nov., sp. nov., a methanotroph isolated from two distinct marine environments

(2012) H. Hirayama et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

The metatranscriptome of a deep-sea hydrothermal plume is dominated by water column methanotrophs and lithotrophs

(2012) Ryan A Lesniewski et al.   ISME Journal

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Nitrifying and denitrifying pathways of methanotrophic bacteria

(2011) Lisa Y. Stein et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

The cytochrome bd respiratory oxygen reductases

(2011) Vitaliy B. Borisov et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Model of the molecular basis for hydroxylamine oxidation and nitrous oxide production in methanotrophic bacteria

(2011) Mark A. Campbell et al.   FEMS MICROBIOLOGY LETTERS

Distribution and Selection of Poly-3-Hydroxybutyrate Production Capacity in Methanotrophic Proteobacteria

(2011) Allison J. Pieja et al.   MICROBIAL ECOLOGY

Adaptation of aerobic respiration to low O2 environments

(2011) H. Han et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chemistry of hot springs along the Eastern Lau Spreading Center

(2010) Michael J. Mottl et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Methylothermus subterraneus sp. nov., a moderately thermophilic methanotroph isolated from a terrestrial subsurface hot aquifer

(2010) H. Hirayama et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Distributions of putative aerobic methanotrophs in diverse pelagic marine environments

(2010) Patricia L Tavormina et al.   ISME Journal

Nitrite-driven anaerobic methane oxidation by oxygenic bacteria

(2010) Katharina F. Ettwig et al.   NATURE

Hydrothermal contribution to the oceanic dissolved iron inventory

(2010) Alessandro Tagliabue et al.   Nature Geoscience

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

Ammonia cometabolism and product inhibition vary considerably among species of methanotrophic bacteria

(2009) Györgyi Nyerges et al.   FEMS MICROBIOLOGY LETTERS

Community-wide analysis of microbial genome sequence signatures

(2009) Gregory J Dick et al.   GENOME BIOLOGY

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS