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Title: Complete genome sequence of Methanothermus fervidus type strain (V24ST)

Abstract

Methanothermus fervidus Stetter 1982 is the type strain of the genus Methanothermus. This hyperthermophilic genus is of a thought to be endemic in Icelandic hot springs. M. fervidus was not only the first characterized organism with a maximal growth temperature (97°C) close to the boiling point of water, but also the first archaeon in which a detailed functional analysis of its histone protein was reported and the first one in which the function of 2,3-cyclodiphosphoglycerate in thermoadaptation was characterized. Strain V24ST is of interest because of its very low substrate ranges, it grows only on H2 + CO2. This is the first completed genome sequence of the family Methanothermaceae. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 1,243,342 bp long genome with its 1,311 protein-coding and 50 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project.

Authors:
 [1];  [2];  [3];  [3];  [1];  [1];  [1];  [1];  [1];  [1];  [3];  [3];  [3];  [1];  [1];  [1];  [1];  [1];  [1];  [4] more »;  [5];  [5];  [6];  [6];  [6];  [6];  [4];  [4];  [2];  [7];  [7];  [7];  [4];  [1];  [1];  [1];  [8];  [5];  [1];  [4];  [1] « less
  1. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
  2. Helmholtz Centre for Infection Research, Braunschweig (Germany)
  3. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
  4. German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig (Germany)
  5. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  6. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
  7. Univ. of Regensburg (Germany)
  8. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Univ. of California, Davis, CA (United States). Genome Center
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
OSTI Identifier:
1511323
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Accepted Manuscript
Journal Name:
Standards in Genomic Sciences
Additional Journal Information:
Journal Volume: 3; Journal Issue: 3; Journal ID: ISSN 1944-3277
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Anderson, Iain, Djao, Olivier Duplex Ngatchou, Misra, Monica, Chertkov, Olga, Nolan, Matt, Lucas, Susan, Lapidus, Alla, Del Rio, Tijana Glavina, Tice, Hope, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Brambilla, Evelyne, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Sikorski, Johannes, Spring, Stefan, Rohde, Manfred, Eichinger, Konrad, Huber, Harald, Wirth, Reinhard, Göker, Markus, Detter, John C., Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Klenk, Hans-Peter, and Kyrpides, Nikos C. Complete genome sequence of Methanothermus fervidus type strain (V24ST). United States: N. p., 2010. Web. doi:10.4056/sigs.1283367.
Anderson, Iain, Djao, Olivier Duplex Ngatchou, Misra, Monica, Chertkov, Olga, Nolan, Matt, Lucas, Susan, Lapidus, Alla, Del Rio, Tijana Glavina, Tice, Hope, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Brambilla, Evelyne, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Sikorski, Johannes, Spring, Stefan, Rohde, Manfred, Eichinger, Konrad, Huber, Harald, Wirth, Reinhard, Göker, Markus, Detter, John C., Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Klenk, Hans-Peter, & Kyrpides, Nikos C. Complete genome sequence of Methanothermus fervidus type strain (V24ST). United States. doi:10.4056/sigs.1283367.
Anderson, Iain, Djao, Olivier Duplex Ngatchou, Misra, Monica, Chertkov, Olga, Nolan, Matt, Lucas, Susan, Lapidus, Alla, Del Rio, Tijana Glavina, Tice, Hope, Cheng, Jan-Fang, Tapia, Roxanne, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Ivanova, Natalia, Mavromatis, Konstantinos, Mikhailova, Natalia, Pati, Amrita, Brambilla, Evelyne, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Sikorski, Johannes, Spring, Stefan, Rohde, Manfred, Eichinger, Konrad, Huber, Harald, Wirth, Reinhard, Göker, Markus, Detter, John C., Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Klenk, Hans-Peter, and Kyrpides, Nikos C. Fri . "Complete genome sequence of Methanothermus fervidus type strain (V24ST)". United States. doi:10.4056/sigs.1283367. https://www.osti.gov/servlets/purl/1511323.
@article{osti_1511323,
title = {Complete genome sequence of Methanothermus fervidus type strain (V24ST)},
author = {Anderson, Iain and Djao, Olivier Duplex Ngatchou and Misra, Monica and Chertkov, Olga and Nolan, Matt and Lucas, Susan and Lapidus, Alla and Del Rio, Tijana Glavina and Tice, Hope and Cheng, Jan-Fang and Tapia, Roxanne and Han, Cliff and Goodwin, Lynne and Pitluck, Sam and Liolios, Konstantinos and Ivanova, Natalia and Mavromatis, Konstantinos and Mikhailova, Natalia and Pati, Amrita and Brambilla, Evelyne and Chen, Amy and Palaniappan, Krishna and Land, Miriam and Hauser, Loren and Chang, Yun-Juan and Jeffries, Cynthia D. and Sikorski, Johannes and Spring, Stefan and Rohde, Manfred and Eichinger, Konrad and Huber, Harald and Wirth, Reinhard and Göker, Markus and Detter, John C. and Woyke, Tanja and Bristow, James and Eisen, Jonathan A. and Markowitz, Victor and Hugenholtz, Philip and Klenk, Hans-Peter and Kyrpides, Nikos C.},
abstractNote = {Methanothermus fervidus Stetter 1982 is the type strain of the genus Methanothermus. This hyperthermophilic genus is of a thought to be endemic in Icelandic hot springs. M. fervidus was not only the first characterized organism with a maximal growth temperature (97°C) close to the boiling point of water, but also the first archaeon in which a detailed functional analysis of its histone protein was reported and the first one in which the function of 2,3-cyclodiphosphoglycerate in thermoadaptation was characterized. Strain V24ST is of interest because of its very low substrate ranges, it grows only on H2 + CO2. This is the first completed genome sequence of the family Methanothermaceae. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 1,243,342 bp long genome with its 1,311 protein-coding and 50 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project.},
doi = {10.4056/sigs.1283367},
journal = {Standards in Genomic Sciences},
number = 3,
volume = 3,
place = {United States},
year = {2010},
month = {12}
}

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Figures / Tables:

Figure 1 Figure 1: Phylogenetic tree highlighting the position of M. fervidus V24ST relative to the other type strains within the family Methanothermaceae. The tree was inferred from 1,249 aligned characters of the 16S rRNA gene sequence under the maximum likelihood criterion and rooted in accordance with the current taxonomy. The branchesmore » are scaled in terms of the expected number of substitutions per site. Numbers above branches are *support values from 100 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD are shown in blue, published genomes in bold.« less

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Works referenced in this record:

Hyperthermophilic microorganisms
journal, June 1990


The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata
journal, December 2007

  • Liolios, K.; Mavromatis, K.; Tavernarakis, N.
  • Nucleic Acids Research, Vol. 36, Issue Database
  • DOI: 10.1093/nar/gkm884

Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
journal, July 2006

  • DeSantis, T. Z.; Hugenholtz, P.; Larsen, N.
  • Applied and Environmental Microbiology, Vol. 72, Issue 7, p. 5069-5072
  • DOI: 10.1128/AEM.03006-05

Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis
journal, April 2000


Hyperthermophilic procaryotes
journal, May 1996


Thermoadaptation of methanogenic bacteria by intracellular ion concentration
journal, January 1988


The minimum information about a genome sequence (MIGS) specification
journal, May 2008

  • Field, Dawn; Garrity, George; Gray, Tanya
  • Nature Biotechnology, Vol. 26, Issue 5
  • DOI: 10.1038/nbt1360

Complete genome sequence of Kytococcus sedentarius type strain (541T)
journal, July 2009

  • Sims, David; Brettin, Thomas; Detter, John C.
  • Standards in Genomic Sciences, Vol. 1, Issue 1
  • DOI: 10.4056/sigs.761

The All-Species Living Tree project: A 16S rRNA-based phylogenetic tree of all sequenced type strains
journal, September 2008

  • Yarza, Pablo; Richter, Michael; Peplies, Jörg
  • Systematic and Applied Microbiology, Vol. 31, Issue 4
  • DOI: 10.1016/j.syapm.2008.07.001

A Rapid Bootstrap Algorithm for the RAxML Web Servers
journal, October 2008

  • Stamatakis, Alexandros; Hoover, Paul; Rougemont, Jacques
  • Systematic Biology, Vol. 57, Issue 5
  • DOI: 10.1080/10635150802429642

Gene Ontology: tool for the unification of biology
journal, May 2000

  • Ashburner, Michael; Ball, Catherine A.; Blake, Judith A.
  • Nature Genetics, Vol. 25, Issue 1
  • DOI: 10.1038/75556

Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
journal, June 1990

  • Woese, C. R.; Kandler, O.; Wheelis, M. L.
  • Proceedings of the National Academy of Sciences, Vol. 87, Issue 12
  • DOI: 10.1073/pnas.87.12.4576

HMf, a DNA-binding protein isolated from the hyperthermophilic archaeon Methanothermus fervidus, is most closely related to histones.
journal, August 1990

  • Sandman, K.; Krzycki, J. A.; Dobrinski, B.
  • Proceedings of the National Academy of Sciences, Vol. 87, Issue 15
  • DOI: 10.1073/pnas.87.15.5788

Prodigal: prokaryotic gene recognition and translation initiation site identification
journal, March 2010


Complete Genome Sequence of the Methanogenic Archaeon, Methanococcus jannaschii
journal, August 1996


A novel ether core lipid with H-shaped C80-isoprenoid hydrocarbon chain from the hyperthermophilic methanogen Methanothermus fervidus
journal, February 1998

  • Morii, Hiroyuki; Eguchi, Tadashi; Nishihara, Masateru
  • Biochimica et Biophysica Acta (BBA) - Lipids and Lipid Metabolism, Vol. 1390, Issue 3
  • DOI: 10.1016/S0005-2760(97)00183-5

The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus
journal, November 1997

  • Klenk, Hans-Peter; Clayton, Rebecca A.; Tomb, Jean-Francois
  • Nature, Vol. 390, Issue 6658
  • DOI: 10.1038/37052

Multiple sequence alignment using partial order graphs
journal, March 2002


Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
journal, February 2008


IMG ER: a system for microbial genome annotation expert review and curation
journal, June 2009


En route to a genome-based classification of Archaea and Bacteria?
journal, June 2010


A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
journal, December 2009

  • Wu, Dongying; Hugenholtz, Philip; Mavromatis, Konstantinos
  • Nature, Vol. 462, Issue 7276
  • DOI: 10.1038/nature08656

GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes
journal, May 2010

  • Pati, Amrita; Ivanova, Natalia N.; Mikhailova, Natalia
  • Nature Methods, Vol. 7, Issue 6
  • DOI: 10.1038/nmeth.1457

Methanothermus sociabilis sp. nov., a Second Species within the Methanothermaceae Growing at 97°C
journal, July 1986

  • Lauerer, Gerta; Kristjansson, Jakob K.; Langworthy, Thomas A.
  • Systematic and Applied Microbiology, Vol. 8, Issue 1-2
  • DOI: 10.1016/S0723-2020(86)80156-4

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