Acetoclastic Methanosaeta are dominant methanogens in organic-rich Antarctic marine sediments

Stable carbon isotope ratios of intact GDGTs indicate heterogeneous sources to marine sediments

(2016) Ann Pearson et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

The use of amino acid indices for assessing organic matter quality and microbial abundance in deep-sea Antarctic sediments of IODP Expedition 318

(2016) S.A. Carr et al.   MARINE CHEMISTRY

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Influence of ammonia oxidation rate on thaumarchaeal lipid composition and the TEX86temperature proxy

(2016) Sarah J. Hurley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2015) Dinghua Li et al.   BIOINFORMATICS

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

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

Influence of temperature, pH, and salinity on membrane lipid composition and TEX 86 of marine planktonic thaumarchaeal isolates

(2015) Felix J. Elling et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Possible roles of uncultured archaea in carbon cycling in methane-seep sediments

(2015) Marcos Y. Yoshinaga et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Microbial dark matter ecogenomics reveals complex synergistic networks in a methanogenic bioreactor

(2015) Masaru K Nobu et al.   ISME Journal

OrthoVenn: a web server for genome wide comparison and annotation of orthologous clusters across multiple species

(2015) Yi Wang et al.   NUCLEIC ACIDS RESEARCH

Abundant Atribacteria in deep marine sediment from the Adélie Basin, Antarctica

(2015) Stephanie A. Carr et al.   Frontiers in Microbiology

Anvi’o: an advanced analysis and visualization platform for ‘omics data

(2015) A. Murat Eren et al.   PeerJ

Anaerolineaceae and Methanosaeta turned to be the dominant microorganisms in alkanes-dependent methanogenic culture after long-term of incubation

(2015) Bo Liang et al.   AMB Express

Illuminating Microbial Dark Matter in Meromictic Sakinaw Lake

(2014) Esther A. Gies et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

New Mode of Energy Metabolism in the Seventh Order of Methanogens as Revealed by Comparative Genome Analysis of “Candidatus Methanoplasma termitum”

(2014) Kristina Lang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Binning metagenomic contigs by coverage and composition

(2014) Johannes Alneberg et al.   NATURE METHODS

Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation

(2014) W. Qin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nonpareil: a redundancy-based approach to assess the level of coverage in metagenomic datasets

(2013) Luis M. Rodriguez-R et al.   BIOINFORMATICS

A new model for electron flow during anaerobic digestion: direct interspecies electron transfer to Methanosaeta for the reduction of carbon dioxide to methane

(2013) Amelia-Elena Rotaru et al.   Energy & Environmental Science

The relative contribution of methanotrophs to microbial communities and carbon cycling in soil overlying a coal-bed methane seep

(2013) Christopher T. Mills et al.   FEMS MICROBIOLOGY ECOLOGY

Bacterial abundance and composition in marine sediments beneath the Ross Ice Shelf, Antarctica

(2013) S. A. Carr et al.   Geobiology

IMG 4 version of the integrated microbial genomes comparative analysis system

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

Application of two new LC–ESI–MS methods for improved detection of intact polar lipids (IPLs) in environmental samples

(2013) Lars Wörmer et al.   ORGANIC GEOCHEMISTRY

An improved method for the analysis of archaeal and bacterial ether core lipids

(2013) Kevin W. Becker et al.   ORGANIC GEOCHEMISTRY

Comprehensive glycerol ether lipid fingerprints through a novel reversed phase liquid chromatography–mass spectrometry protocol

(2013) Chun Zhu et al.   ORGANIC GEOCHEMISTRY

Turnover of microbial lipids in the deep biosphere and growth of benthic archaeal populations

(2013) S. Xie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Characterization of salt-adapted secreted lignocellulolytic enzymes from the mangrove fungus Pestalotiopsis sp.

(2013) Yonathan Arfi et al.   Nature Communications

Aceticlastic and NaCl-Requiring Methanogen “Methanosaeta pelagica” sp. nov., Isolated from Marine Tidal Flat Sediment

(2012) Koji Mori et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Intact polar and core glycerol dibiphytanyl glycerol tetraether lipids in the Arabian Sea oxygen minimum zone. Part II: Selective preservation and degradation in sediments and consequences for the TEX86

(2012) Sabine K. Lengger et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Microbial lipid records of highly alkaline deposits and enhanced aridity associated with significant uplift of the Tibetan Plateau in the Late Miocene

(2012) S. Xie et al.   GEOLOGY

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

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

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Carbon isotope fractionation by the marine ammonia-oxidizing archaeon Nitrosopumilus maritimus

(2012) Martin Könneke et al.   ORGANIC GEOCHEMISTRY

Core and Intact Polar Glycerol Dibiphytanyl Glycerol Tetraether Lipids of Ammonia-Oxidizing Archaea Enriched from Marine and Estuarine Sediments

(2011) Angela Pitcher et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Coupled organic and inorganic carbon cycling in the deep subseafloor sediment of the northeastern Bering Sea Slope (IODP Exp. 323)

(2011) Laura M. Wehrmann et al.   CHEMICAL GEOLOGY

Methane Index: A tetraether archaeal lipid biomarker indicator for detecting the instability of marine gas hydrates

(2011) Yi Ge Zhang et al.   EARTH AND PLANETARY SCIENCE LETTERS

Stable carbon isotopic compositions of intact polar lipids reveal complex carbon flow patterns among hydrocarbon degrading microbial communities at the Chapopote asphalt volcano

(2011) Florence Schubotz et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Complete Genome Sequence of Methanosaeta concilii, a Specialist in Aceticlastic Methanogenesis

(2011) R. D. Barber et al.   JOURNAL OF BACTERIOLOGY

Isoprenoid glycerol dialkanol diethers: A series of novel archaeal lipids in marine sediments

(2011) Xiao-Lei Liu et al.   ORGANIC GEOCHEMISTRY

Systematic fragmentation patterns of archaeal intact polar lipids by high-performance liquid chromatography/electrospray ionization ion-trap mass spectrometry

(2011) Marcos Y. Yoshinaga et al.   RAPID COMMUNICATIONS IN MASS SPECTROMETRY

EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data

(2011) Christopher S Miller et al.   GENOME BIOLOGY

Emerging Topics in Marine Methane Biogeochemistry

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

Fossilization and degradation of intact polar lipids in deep subsurface sediments: A theoretical approach

(2010) Stefan Schouten et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Influence of high-latitude vegetation feedbacks on late Palaeozoic glacial cycles

(2010) Daniel E. Horton et al.   Nature Geoscience

Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea

(2010) C. B. Walker et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of ribosomal RNA genes in metagenomic fragments

(2009) Ying Huang et al.   BIOINFORMATICS

Detection of microbial biomass by intact polar membrane lipid analysis in the water column and surface sediments of the Black Sea

(2009) Florence Schubotz et al.   ENVIRONMENTAL MICROBIOLOGY

The stable carbon isotope biogeochemistry of acetate and other dissolved carbon species in deep subseafloor sediments at the northern Cascadia Margin

(2009) Verena B. Heuer et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Structural diversity and fate of intact polar lipids in marine sediments

(2009) Julius Sebastian Lipp et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Experimental studies on the stable carbon isotope biogeochemistry of acetate in lake sediments

(2009) Verena B. Heuer et al.   ORGANIC GEOCHEMISTRY

Methanogenesis in Marine Sediments

(2008) James G. Ferry et al.   Annals of the New York Academy of Sciences

Estimates of Biogenic Methane Production Rates in Deep Marine Sediments at Hydrate Ridge, Cascadia Margin

(2008) F. S. Colwell et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Intact Membrane Lipids of "Candidatus Nitrosopumilus maritimus," a Cultivated Representative of the Cosmopolitan Mesophilic Group I Crenarchaeota

(2008) S. Schouten et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Genome-wide analysis of the interaction between the endosymbiotic bacterium Wolbachia and its Drosophila host

(2008) Zhiyong Xi et al.   BMC GENOMICS

Significant contribution of Archaea to extant biomass in marine subsurface sediments

(2008) Julius S. Lipp et al.   NATURE

Stable carbon isotope fractionation between substrates and products of Methanosarcina barkeri

(2008) Kathleen L. Londry et al.   ORGANIC GEOCHEMISTRY

Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environment

(2008) J. F. Biddle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A dendrogram of archaea based on lipid component parts composition and its relationship to rRNA phylogeny

(2008) Yosuke Koga et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY