4.8 Article

Genomic variation in microbial populations inhabiting the marine subseafloor at deep-sea hydrothermal vents

Related references

Note: Only part of the references are listed.
Article Multidisciplinary Sciences

Microbial community assembly and evolution in subseafloor sediment

Piotr Starnawski et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)

Review Microbiology

How clonal are bacteria over time?

B. Jesse Shapiro

CURRENT OPINION IN MICROBIOLOGY (2016)

Article Multidisciplinary Sciences

Pathways for abiotic organic synthesis at submarine hydrothermal fields

Jill M. McDermott et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)

Article Biotechnology & Applied Microbiology

ITEP: An integrated toolkit for exploration of microbial pan-genomes

Matthew N. Benedict et al.

BMC GENOMICS (2014)

Article Multidisciplinary Sciences

The origin of methanethiol in midocean ridge hydrothermal fluids

Eoghan P. Reeves et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Article Multidisciplinary Sciences

PhyloSift: phylogenetic analysis of genomes and metagenomes

Aaron E. Darling et al.

PEERJ (2014)

Article Multidisciplinary Sciences

Insights into the phylogeny and coding potential of microbial dark matter

Christian Rinke et al.

NATURE (2013)

Article Biochemistry & Molecular Biology

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

Christian Quast et al.

NUCLEIC ACIDS RESEARCH (2013)

Article Multidisciplinary Sciences

UGA is an additional glycine codon in uncultured SR1 bacteria from the human microbiota

James H. Campbell et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Article Biotechnology & Applied Microbiology

Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade

Katarzyna Zaremba-Niedzwiedzka et al.

GENOME BIOLOGY (2013)

Article Oceanography

A precision multi-sampler for deep-sea hydrothermal microbial mat studies

J. A. Breier et al.

DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS (2012)

Article Biochemical Research Methods

Fast gapped-read alignment with Bowtie 2

Ben Langmead et al.

NATURE METHODS (2012)

Article Biochemistry & Molecular Biology

IMG: the integrated microbial genomes database and comparative analysis system

Victor M. Markowitz et al.

NUCLEIC ACIDS RESEARCH (2012)

Article Microbiology

Prospects for the study of evolution in the deep biosphere

Jennifer F. Biddle et al.

FRONTIERS IN MICROBIOLOGY (2012)

Article Geochemistry & Geophysics

Catabolic and anabolic energy for chemolithoautotrophs in deep-sea hydrothermal systems hosted in different rock types

Jan P. Amend et al.

GEOCHIMICA ET COSMOCHIMICA ACTA (2011)

Article Biochemistry & Molecular Biology

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy

Ivica Letunic et al.

NUCLEIC ACIDS RESEARCH (2011)

Article Biochemical Research Methods

Accelerated Profile HMM Searches

Sean R. Eddy

PLOS COMPUTATIONAL BIOLOGY (2011)

Article Biotechnology & Applied Microbiology

Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems

Andre E. Minoche et al.

GENOME BIOLOGY (2011)

Article Biochemical Research Methods

Prodigal: prokaryotic gene recognition and translation initiation site identification

Doug Hyatt et al.

BMC BIOINFORMATICS (2010)

Article Multidisciplinary Sciences

Diverse styles of submarine venting on the ultraslow spreading Mid-Cayman Rise

C. R. German et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Biotechnology & Applied Microbiology

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

Patrick D. Schloss et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2009)

Article Biochemical Research Methods

IMG ER: a system for microbial genome annotation expert review and curation

Victor M. Markowitz et al.

BIOINFORMATICS (2009)

Article Biochemical Research Methods

Fast and accurate short read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2009)

Article Oceanography

A suspended-particle rosette multi-sampler for discrete biogeochemical sampling in low-particle-density waters

J. A. Breier et al.

DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS (2009)

Article Multidisciplinary Sciences

Shifting the genomic gold standard for the prokaryotic species definition

Michael Richter et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Article Biotechnology & Applied Microbiology

Extensive genome rearrangements and multiple horizontal gene transfers in a population of Pyrococcus isolates from Vulcano Island, Italy

James R. White et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2008)

Article Biochemistry & Molecular Biology

SILVA:: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

Elmar Pruesse et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Multidisciplinary Sciences

Microbial population structures in the deep marine biosphere

Julie A. Huber et al.

SCIENCE (2007)

Review Microbiology

Feast and famine - microbial life in the deep-sea bed

Bo Barker Jorgensen et al.

NATURE REVIEWS MICROBIOLOGY (2007)

Article Multidisciplinary Sciences

Deep-sea vent ε-proteobacterial genomes provide insights into emergence of pathogens

Satoshi Nakagawa et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Ecology

Genomic plasticity in prokaryotes: the case of the square haloarchaeon

Sara Cuadros-Orellana et al.

ISME JOURNAL (2007)

Article Biochemical Research Methods

RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

Alexandros Stamatakis

BIOINFORMATICS (2006)

Article Biotechnology & Applied Microbiology

Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB

T. Z. DeSantis et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)

Article Biochemical Research Methods

An application of statistics to comparative metagenomics

Beltran Rodriguez-Brito et al.

BMC BIOINFORMATICS (2006)

Article Biotechnology & Applied Microbiology

Temporal changes in archaeal diversity and chemistry in a mid-ocean ridge subseafloor habitat

JA Huber et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2002)