Novel hydrocarbon monooxygenase genes in the metatranscriptome of a natural deep-sea hydrocarbon plume

Erratum: Community transcriptomic assembly reveals microbes that contribute to deep-sea carbon and nitrogen cycling

(2013) Brett J Baker et al.   ISME Journal

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

Deep-sea bacteria enriched by oil and dispersant from the Deepwater Horizon spill

(2012) Jacob Baelum et al.   ENVIRONMENTAL MICROBIOLOGY

Differential expression of particulate methane monooxygenase genes in the verrucomicrobial methanotroph ‘Methylacidiphilum kamchatkense’ Kam1

(2012) Helge-André Erikstad et al.   EXTREMOPHILES

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

(2012) Ryan A Lesniewski et al.   ISME Journal

Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill

(2012) Olivia U Mason et al.   ISME Journal

Genome-enabled transcriptomics reveals archaeal populations that drive nitrification in a deep-sea hydrothermal plume

(2012) Brett J Baker et al.   ISME Journal

The Divergent AmoC3 Subunit of Ammonia Monooxygenase Functions as Part of a Stress Response System in Nitrosomonas europaea

(2012) P. M. Berube et al.   JOURNAL OF BACTERIOLOGY

Isolation of Two Novel Marine Ethylene-Assimilating Bacteria, Haliea Species ETY-M and ETY-NAG, Containing Particulate Methane Monooxygenase-like Genes

(2012) Toshihiro Suzuki et al.   MICROBES AND ENVIRONMENTS

Abundance and distribution of diverse membrane-bound monooxygenase (Cu-MMO) genes within the Costa Rica oxygen minimum zone

(2012) Patricia L. Tavormina et al.   Environmental Microbiology Reports

Potential ofpmoAAmplicon Pyrosequencing for Methanotroph Diversity Studies

(2011) Claudia Lüke et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A metagenomic study of methanotrophic microorganisms in Coal Oil Point seep sediments

(2011) Othilde Håvelsrud et al.   BMC MICROBIOLOGY

Modularity of methylotrophy, revisited

(2011) Ludmila Chistoserdova   ENVIRONMENTAL MICROBIOLOGY

Diversity and function in microbial mats from the Lucky Strike hydrothermal vent field

(2011) Valentin Crépeau et al.   FEMS MICROBIOLOGY ECOLOGY

Hydrocarbon monooxygenase in Mycobacterium: recombinant expression of a member of the ammonia monooxygenase superfamily

(2011) Nicholas V Coleman et al.   ISME Journal

Genome Sequence of the Methanotrophic Alphaproteobacterium Methylocystis sp. Strain Rockwell (ATCC 49242)

(2011) L. Y. Stein et al.   JOURNAL OF BACTERIOLOGY

Genome Sequence of the Arctic Methanotroph Methylobacter tundripaludum SV96

(2011) Mette M. Svenning et al.   JOURNAL OF BACTERIOLOGY

Complete Genome Sequence of the Aerobic Marine Methanotroph Methylomonas methanica MC09

(2011) R. Boden et al.   JOURNAL OF BACTERIOLOGY

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil

(2011) M. Tourna et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Persistent Oxygen Anomaly Reveals the Fate of Spilled Methane in the Deep Gulf of Mexico

(2011) J. D. Kessler et al.   SCIENCE

Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean

(2011) B. K. Swan 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

The membrane-associated monooxygenase in the butane-oxidizing Gram-positive bacteriumNocardioidessp. strain CF8 is a novel member of the AMO/PMO family

(2011) Luis A. Sayavedra-Soto et al.   Environmental Microbiology Reports

Microbial Metagenomics: Beyond the Genome

(2010) Jack A. Gilbert et al.   Annual Review of Marine Science

Emerging Topics in Marine Methane Biogeochemistry

(2010) David L. Valentine   Annual Review of Marine Science

Identification of Novel Methane-, Ethane-, and Propane-Oxidizing Bacteria at Marine Hydrocarbon Seeps by Stable Isotope Probing

(2010) M. C. Redmond et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Microbial diversity and biogeochemistry of the Guaymas Basin deep-sea hydrothermal plume

(2010) Gregory J. Dick et al.   ENVIRONMENTAL MICROBIOLOGY

Distributions of putative aerobic methanotrophs in diverse pelagic marine environments

(2010) Patricia L Tavormina et al.   ISME Journal

Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean

(2010) Yanmei Shi et al.   ISME Journal

Complete Genome Sequence of the Aerobic Facultative Methanotroph Methylocella silvestris BL2

(2010) Y. Chen et al.   JOURNAL OF BACTERIOLOGY

Measure methane to quantify the oil spill

(2010) David Valentine   NATURE

Oxidation of methane by a biological dicopper centre

(2010) Ramakrishnan Balasubramanian et al.   NATURE

Nitrite-driven anaerobic methane oxidation by oxygenic bacteria

(2010) Katharina F. Ettwig et al.   NATURE

Propane Respiration Jump-Starts Microbial Response to a Deep Oil Spill

(2010) David L. Valentine et al.   SCIENCE

Untangling the multiple monooxygenases ofMycobacterium chubuensestrain NBB4, a versatile hydrocarbon degrader

(2010) Nicholas V. Coleman et al.   Environmental Microbiology Reports

A novel family of functional operons encoding methane/ammonia monooxygenase-related proteins in gammaproteobacterial methanotrophs

(2010) Patricia L. Tavormina et al.   Environmental Microbiology Reports

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

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

Phylogenetic diversity of methanogenic, sulfate-reducing and methanotrophic prokaryotes from deep-sea hydrothermal vents and cold seeps

(2009) Andrew J. Reed et al.   DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY

Microbial diversity in sediments associated with a shallow methane seep in the tropical Timor Sea of Australia reveals a novel aerobic methanotroph diversity

(2009) Kenneth Wasmund et al.   FEMS MICROBIOLOGY ECOLOGY

Enzymatic microbial Mn(II) oxidation and Mn biooxide production in the Guaymas Basin deep-sea hydrothermal plume

(2009) Gregory J. Dick et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Planktonic and Sediment-Associated Aerobic Methanotrophs in Two Seep Systems along the North American Margin

(2008) P. L. Tavormina et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia

(2008) Shaobin Hou et al.   Biology Direct

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

New insigths on the metabolic diversity among the epibiotic microbial communitiy of the hydrothermal shrimp Rimicaris exoculata

(2008) Magali Zbinden et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

Detection of Large Numbers of Novel Sequences in the Metatranscriptomes of Complex Marine Microbial Communities

(2008) Jack A. Gilbert et al.   PLoS One

Two isozymes of particulate methane monooxygenase with different methane oxidation kinetics are found in Methylocystis sp. strain SC2

(2008) M. Baani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Bacteria from hydrocarbon seep areas growing on short-chain alkanes

(2008) Gerard Muyzer et al.   TRENDS IN MICROBIOLOGY