Complete Genome Sequence of the Opitutaceae Bacterium Strain TAV5, a Potential Facultative Methylotroph of the Wood-Feeding Termite Reticulitermes flavipes

Kotak, Malini; Isanapong, Jantiya; Goodwin, Lynne A.; Bruce, David; Chen, Amy; Han, Cliff S.; Huntemann, Marcel; Ivanova, Natalia; Land, Miriam L.; Nolan, Matt; Pati, Amrita; Woyke, Tanja; Rodrigues, Jorge L. M.

doi:10.1128/genomeA.00060-15

Title: Complete Genome Sequence of the Opitutaceae Bacterium Strain TAV5, a Potential Facultative Methylotroph of the Wood-Feeding Termite Reticulitermes flavipes

Abstract

The Opitutaceae bacterium strain TAV5, a member of the phylum Verrucomicrobia, was isolated from the wood-feeding termite hindgut. Here, we report here its complete genome sequence, which contains a chromosome and a plasmid of 7,317,842 bp and 99,831 bp, respectively. In conclusion, genomic analysis reveals genes for methylotrophy, lignocellulose degradation, and ammonia and sulfate assimilation.

Authors:

Kotak, Malini ^[1]; Isanapong, Jantiya ^[2]; Goodwin, Lynne A. ^[3]; Bruce, David ^[3]; Chen, Amy ^[4]; Han, Cliff S. ^[3]; Huntemann, Marcel ^[4]; Ivanova, Natalia ^[4]; Land, Miriam L. ^[5]; Nolan, Matt ^[4]; Pati, Amrita ^[4]; Woyke, Tanja ^[4]; Rodrigues, Jorge L. M. ^[6]

University of Texas, Arlington, Texas (United States) Department of Biology.
King Mongkutâs University of Technology North Bangkok, Bangkok (Thailand)
Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Univ. of California, Davis, CA (United States) Department of Land, Water and Air Resources.

Publication Date:: Thu Mar 05 00:00:00 EST 2015

Research Org.:: Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

Sponsoring Org.:: USDOE; Work for Others (WFO)

OSTI Identifier:: 1265376

Grant/Contract Number:: AC05-00OR22725

Resource Type:: Accepted Manuscript

Journal Name:: Genome Announcements

Additional Journal Information:: Journal Volume: 3; Journal Issue: 2; Journal ID: ISSN 2169-8287

Publisher:: American Society for Microbiology

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES; 60 APPLIED LIFE SCIENCES

Citation Formats


                    Kotak, Malini, Isanapong, Jantiya, Goodwin, Lynne A., Bruce, David, Chen, Amy, Han, Cliff S., Huntemann, Marcel, Ivanova, Natalia, Land, Miriam L., Nolan, Matt, Pati, Amrita, Woyke, Tanja, and Rodrigues, Jorge L. M. Complete Genome Sequence of the Opitutaceae Bacterium Strain TAV5, a Potential Facultative Methylotroph of the Wood-Feeding Termite Reticulitermes flavipes.  United States: N. p., 2015. 
Web.  doi:10.1128/genomeA.00060-15.

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                    Kotak, Malini, Isanapong, Jantiya, Goodwin, Lynne A., Bruce, David, Chen, Amy, Han, Cliff S., Huntemann, Marcel, Ivanova, Natalia, Land, Miriam L., Nolan, Matt, Pati, Amrita, Woyke, Tanja, & Rodrigues, Jorge L. M. Complete Genome Sequence of the Opitutaceae Bacterium Strain TAV5, a Potential Facultative Methylotroph of the Wood-Feeding Termite Reticulitermes flavipes.  United States.  https://doi.org/10.1128/genomeA.00060-15

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                    Kotak, Malini, Isanapong, Jantiya, Goodwin, Lynne A., Bruce, David, Chen, Amy, Han, Cliff S., Huntemann, Marcel, Ivanova, Natalia, Land, Miriam L., Nolan, Matt, Pati, Amrita, Woyke, Tanja, and Rodrigues, Jorge L. M. Thu .  
"Complete Genome Sequence of the Opitutaceae Bacterium Strain TAV5, a Potential Facultative Methylotroph of the Wood-Feeding Termite Reticulitermes flavipes".  United States.  https://doi.org/10.1128/genomeA.00060-15.  https://www.osti.gov/servlets/purl/1265376.

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@article{osti_1265376,

  title        = {Complete Genome Sequence of the Opitutaceae Bacterium Strain TAV5, a Potential Facultative Methylotroph of the Wood-Feeding Termite Reticulitermes flavipes},

  author       = {Kotak, Malini and Isanapong, Jantiya and Goodwin, Lynne A. and Bruce, David and Chen, Amy and Han, Cliff S. and Huntemann, Marcel and Ivanova, Natalia and Land, Miriam L. and Nolan, Matt and Pati, Amrita and Woyke, Tanja and Rodrigues, Jorge L. M.},

  abstractNote = {The Opitutaceae bacterium strain TAV5, a member of the phylum Verrucomicrobia, was isolated from the wood-feeding termite hindgut. Here, we report here its complete genome sequence, which contains a chromosome and a plasmid of 7,317,842 bp and 99,831 bp, respectively. In conclusion, genomic analysis reveals genes for methylotrophy, lignocellulose degradation, and ammonia and sulfate assimilation.},

  doi          = {10.1128/genomeA.00060-15},

  journal      = {Genome Announcements},

  number       = 2,

  volume       = 3,

  place        = {United States},

  year         = {Thu Mar 05 00:00:00 EST 2015},

  month        = {Thu Mar 05 00:00:00 EST 2015}

}

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Works referencing / citing this record:

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journal, December 2018

Too, Chin Chin; Keller, Alexander; Sickel, Wiebke
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Title: Complete Genome Sequence of the Opitutaceae Bacterium Strain TAV5, a Potential Facultative Methylotroph of the Wood-Feeding Termite Reticulitermes flavipes

Abstract

Citation Formats

Improved Prediction of Signal Peptides: SignalP 3.0 journal, July 2004

Environmental, genomic and taxonomic perspectives on methanotrophic Verrucomicrobia : Perspectives on methanotrophic journal, March 2009

tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence journal, March 1997

Rfam: an RNA family database journal, January 2003

Methane oxidation at 55 C and pH 2 by a thermoacidophilic bacterium belonging to the Verrucomicrobia phylum journal, January 2008

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

RNAmmer: consistent and rapid annotation of ribosomal RNA genes journal, April 2007

Symbiotic digestion of lignocellulose in termite guts journal, February 2014

The β-Ketoadipate Pathway And The Biology Of Self-Identity journal, October 1996

High-Quality Draft Genome Sequence of the Opitutaceae Bacterium Strain TAV1, a Symbiont of the Wood-Feeding Termite Reticulitermes flavipes journal, April 2012

New Strategies for Cultivation and Detection of Previously Uncultured Microbes journal, August 2004

Methane oxidation by an extremely acidophilic bacterium of the phylum Verrucomicrobia journal, November 2007

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

Methanotrophy below pH 1 by a new Verrucomicrobia species journal, November 2007

Development of an ecophysiological model for Diplosphaera colotermitum TAV2, a termite hindgut Verrucomicrobium journal, May 2013

tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence journal, March 1997

Microbial Community Structure in a Malaysian Tropical Peat Swamp Forest: The Influence of Tree Species and Depth journal, December 2018

Improved Prediction of Signal Peptides: SignalP 3.0
journal, July 2004

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journal, March 2009

tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
journal, March 1997

Rfam: an RNA family database
journal, January 2003

Methane oxidation at 55 C and pH 2 by a thermoacidophilic bacterium belonging to the Verrucomicrobia phylum
journal, January 2008

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

RNAmmer: consistent and rapid annotation of ribosomal RNA genes
journal, April 2007

Symbiotic digestion of lignocellulose in termite guts
journal, February 2014

The β-Ketoadipate Pathway And The Biology Of Self-Identity
journal, October 1996

High-Quality Draft Genome Sequence of the Opitutaceae Bacterium Strain TAV1, a Symbiont of the Wood-Feeding Termite Reticulitermes flavipes
journal, April 2012

New Strategies for Cultivation and Detection of Previously Uncultured Microbes
journal, August 2004

Methane oxidation by an extremely acidophilic bacterium of the phylum Verrucomicrobia
journal, November 2007

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

Methanotrophy below pH 1 by a new Verrucomicrobia species
journal, November 2007

Development of an ecophysiological model for Diplosphaera colotermitum TAV2, a termite hindgut Verrucomicrobium
journal, May 2013

tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
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journal, December 2018