Draft Genome Sequence of Methylomicrobium buryatense Strain 5G, a Haloalkaline-Tolerant Methanotrophic Bacterium
Abstract
Robust growth of the gammaproteobacterium Methylomicrobium buryatense strain 5G on methane makes it an attractive system for CH4-based biocatalysis. Here we present a draft genome sequence of the strain that will provide a valuable framework for metabolic engineering of the core pathways for the production of valuable chemicals from methane.
- Authors:
-
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- Russian Academy of Sciences, Pushchino (Russia). GK Skryabin Institute of Biochemistry and Physiology of Microorganisms
- Univ. of Washington, Seattle, WA (United States)
- Los Alamos National Lab. (LANL), Los Alamos, NM (United States); USDOE Joint Genome Institute (JGI), Los Alamos, NM (United States)
- Université de Strasbourg (France)
- Iowa State Univ., Ames, IA (United States)
- Univ. of Calgary, AB (Canada)
- Radboud University Nijmegen (Netherlands)
- Univ. of North Carolina, Charlotte, NC (United States)
- Univ. of Bonn (Germany)
- University of East Anglia, Norwich (United Kingdom)
- Kyoto Univ. (Japan)
- Univ. of Michigan, Ann Arbor, MI (United States)
- University of Tromsø (Norway)
- Univ. of Alberta, Edmonton, AB (Canada)
- Publication Date:
- Research Org.:
- USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division; National Science Foundation (NSF); Natural Sciences and Engineering Research Council of Canada (NSERC); Russian Foundation for Basic Research (RFBR)
- OSTI Identifier:
- 1629097
- Grant/Contract Number:
- AC02-05CH11231
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Genome Announcements
- Additional Journal Information:
- Journal Volume: 1; Journal Issue: 4; Journal ID: ISSN 2169-8287
- Publisher:
- American Society for Microbiology
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES
Citation Formats
Khmelenina, Valentina N., Beck, David C., Munk, Christine, Davenport, Karen, Daligault, Hajnalka, Erkkila, Tracy, Goodwin, Lynne, Gu, Wei, Lo, Chien-Chi, Scholz, Matthew, Teshima, Hazuki, Xu, Yan, Chain, Patrick, Bringel, Francoise, Vuilleumier, Stéphane, DiSpirito, Alan, Dunfield, Peter, Jetten, Mike S. M., Klotz, Martin G., Knief, Claudia, Murrell, J. Colin, Op den Camp, Huub J. M., Sakai, Yasuyoshi, Semrau, Jeremy, Svenning, Mette, Stein, Lisa Y., Trotsenko, Yuri A., and Kalyuzhnaya, Marina G. Draft Genome Sequence of Methylomicrobium buryatense Strain 5G, a Haloalkaline-Tolerant Methanotrophic Bacterium. United States: N. p., 2013.
Web. doi:10.1128/genomea.00053-13.
Khmelenina, Valentina N., Beck, David C., Munk, Christine, Davenport, Karen, Daligault, Hajnalka, Erkkila, Tracy, Goodwin, Lynne, Gu, Wei, Lo, Chien-Chi, Scholz, Matthew, Teshima, Hazuki, Xu, Yan, Chain, Patrick, Bringel, Francoise, Vuilleumier, Stéphane, DiSpirito, Alan, Dunfield, Peter, Jetten, Mike S. M., Klotz, Martin G., Knief, Claudia, Murrell, J. Colin, Op den Camp, Huub J. M., Sakai, Yasuyoshi, Semrau, Jeremy, Svenning, Mette, Stein, Lisa Y., Trotsenko, Yuri A., & Kalyuzhnaya, Marina G. Draft Genome Sequence of Methylomicrobium buryatense Strain 5G, a Haloalkaline-Tolerant Methanotrophic Bacterium. United States. https://doi.org/10.1128/genomea.00053-13
Khmelenina, Valentina N., Beck, David C., Munk, Christine, Davenport, Karen, Daligault, Hajnalka, Erkkila, Tracy, Goodwin, Lynne, Gu, Wei, Lo, Chien-Chi, Scholz, Matthew, Teshima, Hazuki, Xu, Yan, Chain, Patrick, Bringel, Francoise, Vuilleumier, Stéphane, DiSpirito, Alan, Dunfield, Peter, Jetten, Mike S. M., Klotz, Martin G., Knief, Claudia, Murrell, J. Colin, Op den Camp, Huub J. M., Sakai, Yasuyoshi, Semrau, Jeremy, Svenning, Mette, Stein, Lisa Y., Trotsenko, Yuri A., and Kalyuzhnaya, Marina G. Thu .
"Draft Genome Sequence of Methylomicrobium buryatense Strain 5G, a Haloalkaline-Tolerant Methanotrophic Bacterium". United States. https://doi.org/10.1128/genomea.00053-13. https://www.osti.gov/servlets/purl/1629097.
@article{osti_1629097,
title = {Draft Genome Sequence of Methylomicrobium buryatense Strain 5G, a Haloalkaline-Tolerant Methanotrophic Bacterium},
author = {Khmelenina, Valentina N. and Beck, David C. and Munk, Christine and Davenport, Karen and Daligault, Hajnalka and Erkkila, Tracy and Goodwin, Lynne and Gu, Wei and Lo, Chien-Chi and Scholz, Matthew and Teshima, Hazuki and Xu, Yan and Chain, Patrick and Bringel, Francoise and Vuilleumier, Stéphane and DiSpirito, Alan and Dunfield, Peter and Jetten, Mike S. M. and Klotz, Martin G. and Knief, Claudia and Murrell, J. Colin and Op den Camp, Huub J. M. and Sakai, Yasuyoshi and Semrau, Jeremy and Svenning, Mette and Stein, Lisa Y. and Trotsenko, Yuri A. and Kalyuzhnaya, Marina G.},
abstractNote = {Robust growth of the gammaproteobacterium Methylomicrobium buryatense strain 5G on methane makes it an attractive system for CH4-based biocatalysis. Here we present a draft genome sequence of the strain that will provide a valuable framework for metabolic engineering of the core pathways for the production of valuable chemicals from methane.},
doi = {10.1128/genomea.00053-13},
journal = {Genome Announcements},
number = 4,
volume = 1,
place = {United States},
year = {Thu Jun 27 00:00:00 EDT 2013},
month = {Thu Jun 27 00:00:00 EDT 2013}
}
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Works referenced in this record:
Environmental, genomic and taxonomic perspectives on methanotrophic Verrucomicrobia : Perspectives on methanotrophic
journal, March 2009
- Op den Camp, Huub J. M.; Islam, Tajul; Stott, Matthew B.
- Environmental Microbiology Reports, Vol. 1, Issue 5
Methanotrophs and copper
journal, July 2010
- Semrau, Jeremy D.; DiSpirito, Alan A.; Yoon, Sukhwan
- FEMS Microbiology Reviews, Vol. 34, Issue 4
The microbial methane cycle: Editorial
journal, October 2009
- Murrell, J. Colin; Jetten, Mike S. M.
- Environmental Microbiology Reports, Vol. 1, Issue 5
Biotechnological Potential of Aerobic Methylotrophic Bacteria: A Review of Current State and Future Prospects
journal, September 2005
- Trotsenko, Yu. A.; Doronina, N. V.; Khmelenina, V. N.
- Applied Biochemistry and Microbiology, Vol. 41, Issue 5
Genetic Systems for Moderately Halo(alkali)philic Bacteria of the Genus Methylomicrobium
book, January 2011
- Ojala, David S.; Beck, David A. C.; Kalyuzhnaya, Marina G.
- Methods in Methane Metabolism, Part B: Methanotrophy
Taxonomic Characterization of New Alkaliphilic and Alkalitolerant Methanotrophs from Soda Lakes of the Southeastern Transbaikal Region and description of Methylomicrobium buryatense sp.nov.
journal, January 2001
- Kaluzhnaya, Marina; Khmelenina, Valentina; Eshinimaev, Bulat
- Systematic and Applied Microbiology, Vol. 24, Issue 2
Classification of halo(alkali)philic and halo(alkali)tolerant methanotrophs provisionally assigned to the genera Methylomicrobium and Methylobacter and emended description of the genus Methylomicrobium
journal, March 2008
- Kalyuzhnaya, M. G.; Khmelenina, V.; Eshinimaev, B.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 58, Issue 3
ALLPATHS: De novo assembly of whole-genome shotgun microreads
journal, February 2008
- Butler, J.; MacCallum, I.; Kleber, M.
- Genome Research, Vol. 18, Issue 5
Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
journal, February 2008
- Zerbino, D. R.; Birney, E.
- Genome Research, Vol. 18, Issue 5
Base-Calling of Automated Sequencer Traces Using Phred. II. Error Probabilities
journal, March 1998
- Ewing, Brent; Green, Phil
- Genome Research, Vol. 8, Issue 3
Base-Calling of Automated Sequencer Traces Using Phred. I. Accuracy Assessment
journal, March 1998
- Ewing, Brent; Hillier, LaDeana; Wendl, Michael C.
- Genome Research, Vol. 8, Issue 3
Consed: A Graphical Tool for Sequence Finishing
journal, March 1998
- Gordon, David; Abajian, Chris; Green, Phil
- Genome Research, Vol. 8, Issue 3
Genes involved in the copper-dependent regulation of soluble methane monooxygenase of Methylococcus capsulatus (Bath): cloning, sequencing and mutational analysis
journal, July 2003
- Csaki, R.
- Microbiology, Vol. 149, Issue 7
Genome Sequence of the Arctic Methanotroph Methylobacter tundripaludum SV96
journal, July 2011
- Svenning, Mette M.; Hestnes, Anne Grethe; Wartiainen, Ingvild
- Journal of Bacteriology, Vol. 193, Issue 22
Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)
journal, September 2004
- Ward, Naomi; Larsen, Øivind; Sakwa, James
- PLoS Biology, Vol. 2, Issue 10
Model of the molecular basis for hydroxylamine oxidation and nitrous oxide production in methanotrophic bacteria: N-metabolism gene inventory in methanotrophic bacteria
journal, July 2011
- Campbell, Mark A.; Nyerges, Györgyi; Kozlowski, Jessica A.
- FEMS Microbiology Letters, Vol. 322, Issue 1
Diversity and evolution of bioenergetic systems involved in microbial nitrogen compound transformations
journal, February 2013
- Simon, Jörg; Klotz, Martin G.
- Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1827, Issue 2
Taxonomic Characterization of New Alkaliphilic and Alkalitolerant Methanotrophs from Soda Lakes of the Southeastern Transbaikal Region and description of Methylomicrobium buryatense sp.nov.
journal, January 2001
- Kaluzhnaya, Marina; Khmelenina, Valentina; Eshinimaev, Bulat
- Systematic and Applied Microbiology, Vol. 24, Issue 2
Classification of halo(alkali)philic and halo(alkali)tolerant methanotrophs provisionally assigned to the genera Methylomicrobium and Methylobacter and emended description of the genus Methylomicrobium
journal, March 2008
- Kalyuzhnaya, M. G.; Khmelenina, V.; Eshinimaev, B.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 58, Issue 3
Genes involved in the copper-dependent regulation of soluble methane monooxygenase of Methylococcus capsulatus (Bath): cloning, sequencing and mutational analysis
journal, July 2003
- Csaki, R.
- Microbiology, Vol. 149, Issue 7
Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
journal, February 2008
- Zerbino, D. R.; Birney, E.
- Genome Research, Vol. 18, Issue 5
ALLPATHS: De novo assembly of whole-genome shotgun microreads
journal, February 2008
- Butler, J.; MacCallum, I.; Kleber, M.
- Genome Research, Vol. 18, Issue 5
Base-Calling of Automated Sequencer Traces Using Phred. I. Accuracy Assessment
journal, March 1998
- Ewing, Brent; Hillier, LaDeana; Wendl, Michael C.
- Genome Research, Vol. 8, Issue 3
Consed: A Graphical Tool for Sequence Finishing
journal, March 1998
- Gordon, David; Abajian, Chris; Green, Phil
- Genome Research, Vol. 8, Issue 3
Methanotrophs and copper
journal, July 2010
- Semrau, Jeremy D.; DiSpirito, Alan A.; Yoon, Sukhwan
- FEMS Microbiology Reviews, Vol. 34, Issue 4
Complete Genome Sequence of the Aerobic Marine Methanotroph Methylomonas methanica MC09
journal, November 2011
- Boden, R.; Cunliffe, M.; Scanlan, J.
- Journal of Bacteriology, Vol. 193, Issue 24
Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)
journal, September 2004
- Ward, Naomi; Larsen, Øivind; Sakwa, James
- PLoS Biology, Vol. 2, Issue 10
Works referencing / citing this record:
A modular approach for high-flux lactic acid production from methane in an industrial medium using engineered Methylomicrobium buryatense 5GB1
journal, April 2018
- Garg, Shivani; Clomburg, James M.; Gonzalez, Ramon
- Journal of Industrial Microbiology & Biotechnology, Vol. 45, Issue 6
Bioconversion of methane to lactate by an obligate methanotrophic bacterium
journal, February 2016
- Henard, Calvin A.; Smith, Holly; Dowe, Nancy
- Scientific Reports, Vol. 6, Issue 1
A Mutagenic Screen Identifies a TonB-Dependent Receptor Required for the Lanthanide Metal Switch in the Type I Methanotroph “ Methylotuvimicrobium buryatense ” 5GB1C
journal, May 2019
- Groom, Joseph D.; Ford, Stephanie M.; Pesesky, Mitchell W.
- Journal of Bacteriology, Vol. 201, Issue 15
Bioreactor performance parameters for an industrially-promising methanotroph Methylomicrobium buryatense 5GB1
journal, November 2015
- Gilman, Alexey; Laurens, Lieve M.; Puri, Aaron W.
- Microbial Cell Factories, Vol. 14, Issue 1
Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1)
journal, November 2015
- de la Torre, Andrea; Metivier, Aisha; Chu, Frances
- Microbial Cell Factories, Vol. 14, Issue 1
Survey of methanotrophic diversity in various ecosystems by degenerate methane monooxygenase gene primers
journal, August 2017
- Ghashghavi, Mohammad; Jetten, Mike S. M.; Lüke, Claudia
- AMB Express, Vol. 7, Issue 1
Diversity and Habitat Preferences of Cultivated and Uncultivated Aerobic Methanotrophic Bacteria Evaluated Based on pmoA as Molecular Marker
journal, December 2015
- Knief, Claudia
- Frontiers in Microbiology, Vol. 6
Fatty Acid Biosynthesis Pathways in Methylomicrobium buryatense 5G(B1)
journal, January 2017
- Demidenko, Aleksandr; Akberdin, Ilya R.; Allemann, Marco
- Frontiers in Microbiology, Vol. 7
MxaY regulates the lanthanide-mediated methanol dehydrogenase switch in Methylomicrobium buryatense
journal, January 2016
- Chu, Frances; Beck, David A. C.; Lidstrom, Mary E.
- PeerJ, Vol. 4
Oxygen-limited metabolism in the methanotroph Methylomicrobium buryatense 5GB1C
journal, January 2017
- Gilman, Alexey; Fu, Yanfen; Hendershott, Melissa
- PeerJ, Vol. 5
Bioconversion of methane to lactate by an obligate methanotrophic bacterium
journal, February 2016
- Henard, Calvin A.; Smith, Holly; Dowe, Nancy
- Scientific Reports, Vol. 6, Issue 1
Draft Genome Sequence of the Moderately Halophilic Methanotroph Methylohalobius crimeensis Strain 10Ki
journal, June 2015
- Sharp, Christine E.; Smirnova, Angela V.; Kalyuzhnaya, Marina G.
- Genome Announcements, Vol. 3, Issue 3
Survey of methanotrophic diversity in various ecosystems by degenerate methane monooxygenase gene primers
journal, August 2017
- Ghashghavi, Mohammad; Jetten, Mike S. M.; Lüke, Claudia
- AMB Express, Vol. 7, Issue 1
Biogas Biocatalysis: Methanotrophic Bacterial Cultivation, Metabolite Profiling, and Bioconversion to Lactic Acid
journal, October 2018
- Henard, Calvin A.; Franklin, Tyler G.; Youhenna, Batool
- Frontiers in Microbiology, Vol. 9