(Q46498170)

22 February 2018

title

Genomic composition and dynamics among Methanomicrobiales predict adaptation to contrasting environments (English)

1 reference

22 February 2018

author

Nikos C. Kyrpides

3

1 reference

PubMed publication ID

27552639

22 December 2017

http://europepmc.org/abstract/MED/27552639

Patrick Browne

Patrick Browne

1

0 references

Hiroyuki Imachi

Hiroyuki Imachi

6

0 references

Tanja Woyke

4

Tanja Woyke

1 reference

22 February 2018

Lynne A. Goodwin

5

Lynne Goodwin

1 reference

22 February 2018

Hideyuki Tamaki

2

Hideyuki Tamaki

1 reference

22 February 2018

Hinsby Cadillo-Quiroz

11

Hinsby Cadillo-Quiroz

1 reference

22 February 2018

Stephen H. Zinder

10

Stephen Zinder

1 reference

22 February 2018

Joseph B Yavitt

8

Joseph B Yavitt

1 reference

22 February 2018

Suzanna Bräuer

7

Suzanna Bräuer

1 reference

22 February 2018

author name string

Wen-Tso Liu

9

1 reference

22 February 2018

publication date

23 August 2016

1 reference

22 February 2018

published in

The ISME Journal

1 reference

22 February 2018

volume

11

1 reference

22 February 2018

issue

1

1 reference

22 February 2018

page(s)

87-99

1 reference

22 February 2018

Chasing the elusive Euryarchaeota class WSA2: genomes reveal a uniquely fastidious methyl-reducing methanogen

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Complete Genome Sequence of Methanosphaerula palustris E1-9CT, a Hydrogenotrophic Methanogen Isolated from a Minerotrophic Fen Peatland

24 May 2018

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24 May 2018

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24 May 2018

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24 May 2018

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24 May 2018

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Comparative genomics highlights the unique biology of Methanomassiliicoccales, a Thermoplasmatales-related seventh order of methanogenic archaea that encodes pyrrolysine

24 May 2018

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24 May 2018

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Archaebiotics: proposed therapeutic use of archaea to prevent trimethylaminuria and cardiovascular disease

24 May 2018

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Low-temperature (10°C) anaerobic digestion of dilute dairy wastewater in an EGSB bioreactor: microbial community structure, population dynamics, and kinetics of methanogenic populations

24 May 2018

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VhuD facilitates electron flow from H2 or formate to heterodisulfide reductase in Methanococcus maripaludis

24 May 2018

1 reference

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Evolution of divergent life history strategies in marine alphaproteobacteria

24 May 2018

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24 May 2018

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Evolution of Na(+) and H(+) bioenergetics in methanogenic archaea

24 May 2018

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Updated clusters of orthologous genes for Archaea: a complex ancestor of the Archaea and the byways of horizontal gene transfer

24 May 2018

1 reference

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Essential anaplerotic role for the energy-converting hydrogenase Eha in hydrogenotrophic methanogenesis

24 May 2018

1 reference

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jModelTest 2: more models, new heuristics and parallel computing

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Functional responses of methanogenic archaea to syntrophic growth

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Repeated, selection-driven genome reduction of accessory genes in experimental populations

24 May 2018

1 reference

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MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Promiscuous archaeal ATP synthase concurrently coupled to Na+ and H+ translocation

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Comparative proteomic analysis of Methanothermobacter themautotrophicus ΔH in pure culture and in co-culture with a butyrate-oxidizing bacterium

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Genome-wide evidence for positive selection and recombination in Actinobacillus pleuropneumoniae

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Fundamentals of methanogenic pathways that are key to the biomethanation of complex biomass

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Resolving difficult phylogenetic questions: why more sequences are not enough

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

ProtTest 3: fast selection of best-fit models of protein evolution

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Complete genome sequence of Methanoplanus petrolearius type strain (SEBR 4847)

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Complete genome sequence of Methanocorpusculum labreanum type strain Z

24 May 2018

1 reference

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A novel host-specific restriction system associated with DNA backbone S-modification in Salmonella

24 May 2018

1 reference

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Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Protein complexing in a methanogen suggests electron bifurcation and electron delivery from formate to heterodisulfide reductase

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanoregula boonei gen. nov., sp. nov., an acidiphilic methanogen isolated from an acidic peat bog.

24 May 2018

1 reference

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Hydrogen is a preferred intermediate in the energy-conserving electron transport chain of Methanosarcina barkeri

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanoregula formicica sp. nov., a methane-producing archaeon isolated from methanogenic sludge

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Genomic characterization of methanomicrobiales reveals three classes of methanogens

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanosphaerula palustris gen. nov., sp. nov., a hydrogenotrophic methanogen isolated from a minerotrophic fen peatland

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanogenic archaea: ecologically relevant differences in energy conservation

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Characterization of the archaeal community in a minerotrophic fen and terminal restriction fragment length polymorphism-directed isolation of a novel hydrogenotrophic methanogen

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanolinea tarda gen. nov., sp. nov., a methane-producing archaeon isolated from a methanogenic digester sludge

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Clustal W and Clustal X version 2.0

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

The Kdp-ATPase system and its regulation

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Functionally distinct genes regulated by hydrogen limitation and growth rate in methanogenic Archaea

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

PAML 4: phylogenetic analysis by maximum likelihood

24 May 2018

1 reference

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Microbial diversity in natural asphalts of the Rancho La Brea Tar Pits

24 May 2018

1 reference

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DarkHorse: a method for genome-wide prediction of horizontal gene transfer

24 May 2018

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The Methanosarcina barkeri Genome: Comparative Analysis with Methanosarcina acetivorans and Methanosarcina mazei Reveals Extensive Rearrangement within Methanosarcinal Genomes

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Isolation of a novel acidiphilic methanogen from an acidic peat bog.

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models.

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

The genome sequence of Methanosphaera stadtmanae reveals why this human intestinal archaeon is restricted to methanol and H2 for methane formation and ATP synthesis

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Genome Streamlining in a Cosmopolitan Oceanic Bacterium

24 May 2018

1 reference

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Genomic islands in pathogenic and environmental microorganisms

24 May 2018

1 reference

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The Roles and Regulation of Potassium in Bacteria

24 May 2018

1 reference

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An index of substitution saturation and its application

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

T-Coffee: A novel method for fast and accurate multiple sequence alignment

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Lateral gene transfer and the nature of bacterial innovation

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Kup is the major K+ uptake system in Escherichia coli upon hyper-osmotic stress at a low pH.

24 May 2018

1 reference

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KEGG: Kyoto Encyclopedia of Genes and Genomes

24 May 2018

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Energetics of syntrophic cooperation in methanogenic degradation

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Amelioration of bacterial genomes: rates of change and exchange

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanoplanus petrolearius sp. nov., a novel methanogenic bacterium from an oil-producing well

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Basic local alignment search tool

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Genomic and phenotypic differentiation among Methanosarcina mazei populations from Columbia River sediment.

24 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

The impact of HGT on phylogenomic reconstruction methods

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanogenesis by Methanosarcina acetivorans involves two structurally and functionally distinct classes of heterodisulfide reductase

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Global ecological patterns in uncultured Archaea

15 August 2018

1 reference

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Flagellum mediates symbiosis.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

A putative new order of methanogenic Archaea inhabiting the human gut, as revealed by molecular analyses of the mcrA gene

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Methanogenesis in marine sediments

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

IslandPath: aiding detection of genomic islands in prokaryotes

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5315469

Genome of Methanoregula boonei 6A8 reveals adaptations to oligotrophic peatland environments

15 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FISMEJ.2016.104

Transfer of Methanogenium bourgense, Methanogenium marisnigri, Methanogenium olentangyi, and Methanogenium thermophilicum to the Genus Methanoculleus gen. nov., Emendation of Methanoculleus marisnigri and Methanogenium, and Description of New Stra...

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FISMEJ.2016.104

Comparative transcriptome analysis of responses of Methanothermobacter thermautotrophicus to different environmental stimuli

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/27552639

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

K+, Na+, and Mg2+ content and permeability of Methanospirillum hungatei and Methanobacterium thermoautotrophicum

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/27552639

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/ISMEJ.2016.104

1 reference

22 February 2018

PMC publication ID

5315469

1 reference

22 February 2018

PubMed publication ID

27552639

1 reference

22 February 2018