Genomic reconstruction of a novel, deeply branched sediment archaeal phylum with pathways for acetogenesis and sulfur reduction

Genomic Expansion of Domain Archaea Highlights Roles for Organisms from New Phyla in Anaerobic Carbon Cycling

(2015) Cindy J. Castelle et al.   CURRENT BIOLOGY

Environmental controls on intragroup diversity of the uncultured benthicarchaeaof the miscellaneous Crenarchaeotal group lineage naturally enriched in anoxic sediments of the White Oak River estuary (North Carolina, USA)

(2015) Cassandre Sara Lazar 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

Complex archaea that bridge the gap between prokaryotes and eukaryotes

(2015) Anja Spang et al.   NATURE

Genomic resolution of linkages in carbon, nitrogen, and sulfur cycling among widespread estuary sediment bacteria

(2015) Brett J Baker et al.   Microbiome

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Crenarchaeal heterotrophy in salt marsh sediments

(2014) Lauren M Seyler et al.   ISME Journal

Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer

(2014) Kelly C Wrighton et al.   ISME Journal

Carbohydrate Metabolism in Archaea: Current Insights into Unusual Enzymes and Pathways and Their Regulation

(2014) C. Brasen et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

PhyloSift: phylogenetic analysis of genomes and metagenomes

(2014) Aaron E. Darling et al.   PeerJ

Genetic and functional properties of uncultivated MCG archaea assessed by metagenome and gene expression analyses

(2013) Jun Meng et al.   ISME Journal

Insights into the phylogeny and coding potential of microbial dark matter

(2013) Christian Rinke et al.   NATURE

Predominant archaea in marine sediments degrade detrital proteins

(2013) Karen G. Lloyd et al.   NATURE

The changing carbon cycle of the coastal ocean

(2013) James E. Bauer et al.   NATURE

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment

(2013) Cindy J. Castelle et al.   Nature Communications

The first microbiological contamination assessment by deep-sea drilling and coring by the D/V Chikyu at the Iheya North hydrothermal field in the Mid-Okinawa Trough (IODP Expedition 331)

(2013) Katsunori Yanagawa et al.   Frontiers in Microbiology

Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling

(2013) Laura A Hug et al.   Microbiome

Denaturing Gradient Gel Electrophoresis and Barcoded Pyrosequencing Reveal Unprecedented Archaeal Diversity in Mangrove Sediment and Rhizosphere Samples

(2012) Ana C. C. Pires et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Characterization of the unusual non-thiosulfate-reducing Edwardsiella tarda isolated from eel (Anguilla japonica) farms

(2012) C.-I. Park et al.   AQUACULTURE

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

Metabolically active microbial communities in marine sediment under high-CO2 and low-pH extremes

(2012) Katsunori Yanagawa et al.   ISME Journal

Archaea of the Miscellaneous Crenarchaeotal Group are abundant, diverse and widespread in marine sediments

(2012) Kyoko Kubo et al.   ISME Journal

Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla

(2012) K. C. Wrighton et al.   SCIENCE

There Must be an Acetogen Somewhere

(2012) Aharon Oren   Frontiers in Microbiology

Acetogenesis in the Energy-Starved Deep Biosphere – A Paradox?

(2012) Mark Alexander Lever   Frontiers in Microbiology

Environmental evidence for net methane production and oxidation in putative ANaerobic MEthanotrophic (ANME) archaea

(2011) Karen G. Lloyd et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial diversity and stratification of South Pacific abyssal marine sediments

(2011) Alan M. Durbin et al.   ENVIRONMENTAL MICROBIOLOGY

Thiosulfate Reduction in Salmonella enterica Is Driven by the Proton Motive Force

(2011) L. Stoffels et al.   JOURNAL OF BACTERIOLOGY

IMG: the integrated microbial genomes database and comparative analysis system

(2011) V. M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

The archaeal ‘TACK’ superphylum and the origin of eukaryotes

(2011) Lionel Guy et al.   TRENDS IN MICROBIOLOGY

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

(2011) Christopher S Miller et al.   GENOME BIOLOGY

Estuarine and Coastal Ocean Carbon Paradox: CO2 Sinks or Sites of Terrestrial Carbon Incineration?

(2010) Wei-Jun Cai   Annual Review of Marine Science

BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments

(2010) Alexis Criscuolo et al.   BMC EVOLUTIONARY BIOLOGY

Enigmatic, ultrasmall, uncultivated Archaea

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

Community-wide analysis of microbial genome sequence signatures

(2009) Gregory J Dick et al.   GENOME BIOLOGY

Acetogenesis and the Wood–Ljungdahl pathway of CO2 fixation

(2008) Stephen W. Ragsdale et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Changes in microbial community structure in the wake of Hurricanes Katrina and Rita

(2008) Linda A. Amaral-Zettler et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY