Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part I: Transcriptomic Study

Matsen, Janet B.; Yang, Song; Stein, Lisa Y.; Beck, David; Kalyuzhnaya, Marina G.

doi:10.3389/fmicb.2013.00040

Title: Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part I: Transcriptomic Study

Journal Article · Tue Jan 01 00:00:00 EST 2013 · Frontiers in Microbiology

DOI:https://doi.org/10.3389/fmicb.2013.00040· OSTI ID:1628079

Matsen, Janet B. ^[1]; Yang, Song ^[1]; Stein, Lisa Y. ^[2]; Beck, David ^[3]; Kalyuzhnaya, Marina G. ^[4]

Univ. of Washington, Seattle, WA (United States). Dept. of Chemical Engineering
Univ. of Alberta, Edmonton, AB (Canada). Dept. of Biological Sciences
Univ. of Washington, Seattle, WA (United States). Dept. of Chemical Engineering; Univ. of Washington, Seattle, WA (United States). eScience Inst.
Univ. of Washington, Seattle, WA (United States). Dept. of Microbiology

Methane utilizing bacteria (methanotrophs) are important in both environmental and biotechnological applications, due to their ability to convert methane to multicarbon compounds. However, systems-level studies of methane metabolism have not been carried out in methanotrophs. In this work we have integrated genomic and transcriptomic information to provide an overview of central metabolic pathways for methane utilization in Methylosinus trichosporium OB3b, a model alphaproteobacterial methanotroph. Particulate methane monooxygenase, PQQ-dependent methanol dehydrogenase, the H4MPT-pathway, and NAD-dependent formate dehydrogenase are involved in methane oxidation to CO2. All genes essential for operation of the serine cycle, the ethylmalonyl-CoA (EMC) pathway, and the citric acid (TCA) cycle were expressed. PEP-pyruvate-oxaloacetate interconversions may have a function in regulation and balancing carbon between the serine cycle and the EMC pathway. A set of transaminases may contribute to carbon partitioning between the pathways. Metabolic pathways for acquisition and/or assimilation of nitrogen and iron are discussed.

View Accepted Manuscript (DOE)

Cite

Export

Save

Research Organization:: Univ. of Washington, Seattle, WA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

Grant/Contract Number:: SC0005154

OSTI ID:: 1628079

Journal Information:: Frontiers in Microbiology, Vol. 4; ISSN 1664-302X

Publisher:: Frontiers Research FoundationCopyright Statement

Country of Publication:: United States

Language:: English

References (81)

Batch fermentation kinetics of sugar beet molasses byZymomonas mobilis Park, S. C.; Baratti, J. Biotechnology and Bioengineering, Vol. 38, Issue 3 https://doi.org/10.1002/bit.260380312	journal	July 1991
Enhanced release of rosmarinic acid fromColeus blumei permeabilized by dimethyl sulfoxide (DMSO) while preserving cell viability and growth Park, Chang-Ho; Martinez, Blanca C. Biotechnology and Bioengineering, Vol. 40, Issue 4 https://doi.org/10.1002/bit.260400403	journal	August 1992
Alternative carboxylation reactions in type II Methylotrophs and the localization of carboxylase activities in the intra-cytoplasmic membranes Naguib, M. Zeitschrift für allgemeine Mikrobiologie, Vol. 19, Issue 5 https://doi.org/10.1002/jobm.3630190505	journal	January 1979
Crystal structure of the hydroxylase component of methane monooxygenase from Methylosinus trichosporium OB3b Elango, Nates An; Radhakrishnan, Ramaswamy; Froland, Wayne A. Protein Science, Vol. 6, Issue 3 https://doi.org/10.1002/pro.5560060305	journal	March 1997
Initial Velocity, Spectral, and pH Studies of the Serine-Glyoxylate Aminotransferase from Hyphomicrobiuim methylovorum Karsten, William E.; Ohshiro, Takashi; Izumi, Yoshikazu Archives of Biochemistry and Biophysics, Vol. 388, Issue 2 https://doi.org/10.1006/abbi.2001.2294	journal	April 2001
[1-14C] Acetate assimilation by obligate methylotrophs, Pseudomonas methanica and Methylosinus trichosporium Patel, R. N.; Hoare, S. Louise; Hoare, D. S. Antonie van Leeuwenhoek, Vol. 45, Issue 3 https://doi.org/10.1007/bf00443287	journal	January 1979
Relations and functions of dye-linked formaldehyde dehydrogenase from Hyphomicrobium zavarzinii revealed by sequence determination and analysis Schwartz, Arnold C.; Gockel, Gaby; Gro�, Julia Archives of Microbiology, Vol. 182, Issue 6 https://doi.org/10.1007/s00203-004-0730-0	journal	October 2004
Purification and properties of a heme-containing aldehyde dehydrogenase from Methylosinus trichosporium Patel, Ramesh N.; Hou, Ching T.; Derelanko, P. Archives of Biochemistry and Biophysics, Vol. 203, Issue 2 https://doi.org/10.1016/0003-9861(80)90223-4	journal	September 1980
Copper methanobactin: a molecule whose time has come Balasubramanian, Ramakrishnan; Rosenzweig, Amy C. Current Opinion in Chemical Biology, Vol. 12, Issue 2 https://doi.org/10.1016/j.cbpa.2008.01.043	journal	April 2008
Insights into the obligate methanotroph Methylococcus capsulatus Kelly, Donovan P.; Anthony, Christopher; Murrell, J. Colin Trends in Microbiology, Vol. 13, Issue 5 https://doi.org/10.1016/j.tim.2005.03.003	journal	May 2005
Phosphoenolpyruvate carboxylase: three-dimensional structure and molecular mechanisms Kai, Yasushi; Matsumura, Hiroyoshi; Izui, Katsura Archives of Biochemistry and Biophysics, Vol. 414, Issue 2 https://doi.org/10.1016/s0003-9861(03)00170-x	journal	June 2003
Regulation of expression of methane monooxygenases by copper ions Murrell, J. Colin; McDonald, Ian R.; Gilbert, Bettina Trends in Microbiology, Vol. 8, Issue 5, p. 221-225 https://doi.org/10.1016/s0966-842x(00)01739-x	journal	May 2000
Crystal Structures of C4 Form Maize and Quaternary Complex of E. coli Phosphoenolpyruvate Carboxylases Matsumura, Hiroyoshi; Xie, Yong; Shirakata, Shunsuke Structure, Vol. 10, Issue 12 https://doi.org/10.1016/s0969-2126(02)00913-9	journal	December 2002
The Metal Centers of Particulate Methane Monooxygenase from Methylosinus trichosporium OB3b ^† ^‡ Hakemian, Amanda S.; Kondapalli, Kalyan C.; Telser, Joshua Biochemistry, Vol. 47, Issue 26 https://doi.org/10.1021/bi800598h	journal	July 2008
Methane oxidation by an extremely acidophilic bacterium of the phylum Verrucomicrobia Dunfield, Peter F.; Yuryev, Anton; Senin, Pavel Nature, Vol. 450, Issue 7171 https://doi.org/10.1038/nature06411	journal	November 2007
Oxidation of methane by a biological dicopper centre Balasubramanian, Ramakrishnan; Smith, Stephen M.; Rawat, Swati Nature, Vol. 465, Issue 7294 https://doi.org/10.1038/nature08992	journal	April 2010
CCL5 derived from tumor-associated macrophages promotes prostate cancer stem cells and metastasis via activating β-catenin/STAT3 signaling Huang, Renlun; Wang, Shengqi; Wang, Neng Cell Death & Disease, Vol. 11, Issue 4 https://doi.org/10.1038/s41419-020-2435-y	journal	April 2020
Microbial growth on C1 compounds. 5. Enzyme activities in extracts of Pseudomonas AM1 Large, Pj; Quayle, Jr Biochemical Journal, Vol. 87, Issue 2 https://doi.org/10.1042/bj0870386	journal	May 1963
The structure and function of methanol dehydrogenase and related quinoproteins containing pyrrolo-quinoline quinone Anthony, C.; Ghosh, M.; Blake, C. C. F. Biochemical Journal, Vol. 304, Issue 3 https://doi.org/10.1042/bj3040665	journal	December 1994
Copper-dependent reciprocal transcriptional regulation of methane monooxygenase genes in Methylococcus capsulatus and Methylosinus trichosporium Nielsen, Allan K.; Gerdes, Kenn; Murrell, J. Colin Molecular Microbiology, Vol. 25, Issue 02 https://doi.org/10.1046/j.1365-2958.1997.4801846.x	journal	July 1997
Peroxisomal alanine : glyoxylate aminotransferase (AGT1) is a photorespiratory enzyme with multiple substrates in Arabidopsis thaliana: AGT1, a peroxisomal photorespiratory transaminase Liepman, Aaron H.; Olsen, Laura J. The Plant Journal, Vol. 25, Issue 5 https://doi.org/10.1046/j.1365-313x.2001.00961.x	journal	March 2001
Demonstration of the ethylmalonyl-CoA pathway by using 13C metabolomics Peyraud, R.; Kiefer, P.; Christen, P. Proceedings of the National Academy of Sciences, Vol. 106, Issue 12 https://doi.org/10.1073/pnas.0810932106	journal	March 2009
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation Letunic, I.; Bork, P. Bioinformatics, Vol. 23, Issue 1 https://doi.org/10.1093/bioinformatics/btl529	journal	October 2006
Clustal W and Clustal X version 2.0 Larkin, M. A.; Blackshields, G.; Brown, N. P. Bioinformatics, Vol. 23, Issue 21, p. 2947-2948 https://doi.org/10.1093/bioinformatics/btm404	journal	September 2007
PAnnBuilder: an R package for assembling proteomic annotation data Li, Hong; Ding, Guohui; Xie, Lu Bioinformatics, Vol. 25, Issue 8 https://doi.org/10.1093/bioinformatics/btp100	journal	February 2009
Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels Schulz, Marcel H.; Zerbino, Daniel R.; Vingron, Martin Bioinformatics, Vol. 28, Issue 8 https://doi.org/10.1093/bioinformatics/bts094	journal	February 2012
MUSCLE: multiple sequence alignment with high accuracy and high throughput Edgar, R. C. Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797 https://doi.org/10.1093/nar/gkh340	journal	March 2004
MaGe: a microbial genome annotation system supported by synteny results Vallenet, D. Nucleic Acids Research, Vol. 34, Issue 1 https://doi.org/10.1093/nar/gkj406	journal	January 2006
Purification and Properties of Glutamine Synthetase from Methylococcus capsulatus (Bath) Murrell, J. C.; Dalton, H. Microbiology, Vol. 129, Issue 4 https://doi.org/10.1099/00221287-129-4-1187	journal	April 1983
Membrane fatty acids as phenotypic markers in the polyphasic taxonomy of methylotrophs within the Proteobacteria Guckert, J. B.; Ringelberg, D. B.; White, D. C. Journal of General Microbiology, Vol. 137, Issue 11 https://doi.org/10.1099/00221287-137-11-2631	journal	November 1991
Sequence analysis of pqq genes required for biosynthesis of pyrroloquinoline quinone in Methylobacterium extorquens AM1 and the purification of a biosynthetic intermediate Toyama, H.; Chistoserdova, L.; Lidstrom, M. E. Microbiology, Vol. 143, Issue 2 https://doi.org/10.1099/00221287-143-2-595	journal	February 1997
Enrichment, Isolation and Some Properties of Methane-utilizing Bacteria Whittenbury, R.; Phillips, K. C.; Wilkinson, J. F. Journal of General Microbiology, Vol. 61, Issue 2 https://doi.org/10.1099/00221287-61-2-205	journal	May 1970
Alternative Carbon Assimilation Pathways in Methane-utilizing Bacteria Lawrence, A. J.; Quayle, J. R. Journal of General Microbiology, Vol. 63, Issue 3 https://doi.org/10.1099/00221287-63-3-371	journal	November 1970
Homologous expression of soluble methane monooxygenase genes in Methylosinus trichosporium OB3b Lloyd, John S.; Finch, Ruth; Dalton, Howard Microbiology, Vol. 145, Issue 2 https://doi.org/10.1099/13500872-145-2-461	journal	February 1999
Role of multiple gene copies in particulate methane monooxygenase activity in the methane-oxidizing bacterium Methylococcus capsulatus Bath Stolyar, S.; Costello, A. M.; Peeples, T. L. Microbiology, Vol. 145, Issue 5 https://doi.org/10.1099/13500872-145-5-1235	journal	May 1999
Functional investigation of methanol dehydrogenase-like protein XoxF in Methylobacterium extorquens AM1 Schmidt, S.; Christen, P.; Kiefer, P. Microbiology, Vol. 156, Issue 8 https://doi.org/10.1099/mic.0.038570-0	journal	May 2010
Identification of proteins involved in formaldehyde metabolism by Rhodobacter sphaeroides Wilson, S. M.; Gleisten, M. P.; Donohue, T. J. Microbiology, Vol. 154, Issue 1 https://doi.org/10.1099/mic.0.2007/011346-0	journal	January 2008
Pathways of ammonia assimilation in obligate methane utilizers Shishkina, Valentina N.; Trotsenko, Y. A. FEMS Microbiology Letters, Vol. 5, Issue 3 https://doi.org/10.1111/j.1574-6968.1979.tb03276.x	journal	March 1979
Multiple enzymic lesions in obligate methanotrophic bacteria Shishkina, Valentina N.; Trotsenko, Y. A. FEMS Microbiology Letters, Vol. 13, Issue 3 https://doi.org/10.1111/j.1574-6968.1982.tb08264.x	journal	March 1982
nifHgenes in the obligate methane oxidizing bacteria Oakley, Christopher J.; Colin Murrell, J. FEMS Microbiology Letters, Vol. 49, Issue 1 https://doi.org/10.1111/j.1574-6968.1988.tb02681.x	journal	January 1988
Evidence that participate methane monooxygenase and ammonia monooxygenase may be evolutionarily related Holmes, Andrew J.; Costello, Andria; Lidstrom, Mary E. FEMS Microbiology Letters, Vol. 132, Issue 3 https://doi.org/10.1111/j.1574-6968.1995.tb07834.x	journal	October 1995
Effect of oxygen level on simultaneous nitrogenase and sMMO expression and activity in Methylosinus trichosporium OB3b and its sMMOC mutant, PP319: aerotolerant N2 fixation in PP319 Kim, Hyung J.; Graham, David W. FEMS Microbiology Letters, Vol. 201, Issue 2 https://doi.org/10.1111/j.1574-6968.2001.tb10746.x	journal	July 2001
Characterization of the pyrophosphate-dependent 6-phosphofructokinase from Methylococcus capsulatus Bath Reshetnikov, Alexander S.; Rozova, Olga N.; Khmelenina, Valentina N. FEMS Microbiology Letters, Vol. 288, Issue 2 https://doi.org/10.1111/j.1574-6968.2008.01366.x	journal	November 2008
Methanotrophs and copper Semrau, Jeremy D.; DiSpirito, Alan A.; Yoon, Sukhwan FEMS Microbiology Reviews, Vol. 34, Issue 4 https://doi.org/10.1111/j.1574-6976.2010.00212.x	journal	July 2010
An assay for screening microbial cultures for chalkophore production Yoon, Sukhwan; Kraemer, Stephan M.; DiSpirito, Alan A. Environmental Microbiology Reports, Vol. 2, Issue 2 https://doi.org/10.1111/j.1758-2229.2009.00125.x	journal	April 2010
Methanobactin, a Copper-Acquisition Compound from Methane-Oxidizing Bacteria Kim, H. J. Science, Vol. 305, Issue 5690 https://doi.org/10.1126/science.1098322	journal	September 2004
C1 Transfer Enzymes and Coenzymes Linking Methylotrophic Bacteria and Methanogenic Archaea Chistoserdova, L. Science, Vol. 281, Issue 5373 https://doi.org/10.1126/science.281.5373.99	journal	July 1998
Poly-3-Hydroxybutyrate Metabolism in the Type II Methanotroph Methylocystis parvus OBBP Pieja, Allison J.; Sundstrom, Eric R.; Criddle, Craig S. Applied and Environmental Microbiology, Vol. 77, Issue 17, p. 6012-6019 https://doi.org/10.1128/aem.00509-11	journal	July 2011
Complete Sequence Analysis of Two Methanotroph-Specific repABC -Containing Plasmids from Methylocystis sp. Strain SC2 Dam, Bomba; Kube, Michael; Dam, Somasri Applied and Environmental Microbiology, Vol. 78, Issue 12 https://doi.org/10.1128/aem.00628-12	journal	June 2012
Microbial oxidation of gaseous hydrocarbons: epoxidation of C2 to C4 n-alkenes by methylotrophic bacteria Hou, C. T.; Patel, R.; Laskin, A. I. Applied and Environmental Microbiology, Vol. 38, Issue 1 https://doi.org/10.1128/aem.38.1.127-134.1979	journal	July 1979
Kinetics of chlorinated hydrocarbon degradation by Methylosinus trichosporium OB3b and toxicity of trichloroethylene. Oldenhuis, R.; Oedzes, J. Y.; van der Waarde, J. J. Applied and Environmental Microbiology, Vol. 57, Issue 1 https://doi.org/10.1128/aem.57.1.7-14.1991	journal	January 1991
Methylosinus trichosporium OB3b Mutants Having Constitutive Expression of Soluble Methane Monooxygenase in the Presence of High Levels of Copper Phelps, Patricia A.; Agarwal, Sandeep K.; Speitel, Gerald E. Applied and Environmental Microbiology, Vol. 58, Issue 11 https://doi.org/10.1128/aem.58.11.3701-3708.1992	journal	January 1992
Degradation of Trichloroethylene by Methanol-Grown Cultures of Methylosinus trichosporium OB3b PP358 Fitch, M. W.; Speitel, G. E.; Georgiou, G. Applied and Environmental Microbiology, Vol. 62, Issue 3 https://doi.org/10.1128/aem.62.3.1124-1128.1996	journal	March 1996
Effect of Nitrogen Source on Growth and Trichloroethylene Degradation by Methane-Oxidizing Bacteria Chu, Kung-Hui; Alvarez-Cohen, Lisa Applied and Environmental Microbiology, Vol. 64, Issue 9 https://doi.org/10.1128/aem.64.9.3451-3457.1998	journal	September 1998
Molecular Analysis of the pmo (Particulate Methane Monooxygenase) Operons from Two Type II Methanotrophs Gilbert, Bettina; McDonald, Ian R.; Finch, Ruth Applied and Environmental Microbiology, Vol. 66, Issue 3 https://doi.org/10.1128/aem.66.3.966-975.2000	journal	March 2000
nifH Sequences and Nitrogen Fixation in Type I and Type II Methanotrophs Auman, A. J.; Speake, C. C.; Lidstrom, M. E. Applied and Environmental Microbiology, Vol. 67, Issue 9 https://doi.org/10.1128/aem.67.9.4009-4016.2001	journal	September 2001
The Divergent AmoC3 Subunit of Ammonia Monooxygenase Functions as Part of a Stress Response System in Nitrosomonas europaea Berube, P. M.; Stahl, D. A. Journal of Bacteriology, Vol. 194, Issue 13 https://doi.org/10.1128/jb.00133-12	journal	April 2012
Formate as the Main Branch Point for Methylotrophic Metabolism in Methylobacterium extorquens AM1 Crowther, G. J.; Kosaly, G.; Lidstrom, M. E. Journal of Bacteriology, Vol. 190, Issue 14, p. 5057-5062 https://doi.org/10.1128/jb.00228-08	journal	May 2008
Genome Sequence of the Methanotrophic Alphaproteobacterium Methylocystis sp. Strain Rockwell (ATCC 49242) Stein, L. Y.; Bringel, F.; DiSpirito, A. A. Journal of Bacteriology, Vol. 193, Issue 10 https://doi.org/10.1128/jb.00278-11	journal	March 2011
Complete Genome Sequence of the Aerobic Facultative Methanotroph Methylocella silvestris BL2 Chen, Y.; Crombie, A.; Rahman, M. T. Journal of Bacteriology, Vol. 192, Issue 14 https://doi.org/10.1128/jb.00506-10	journal	May 2010
Genome Sequence of the Obligate Methanotroph Methylosinus trichosporium Strain OB3b Stein, L. Y.; Yoon, S.; Semrau, J. D. Journal of Bacteriology, Vol. 192, Issue 24 https://doi.org/10.1128/jb.01144-10	journal	October 2010
Complete Genome Sequence of Methylocystis sp. Strain SC2, an Aerobic Methanotroph with High-Affinity Methane Oxidation Potential Dam, B.; Dam, S.; Kube, M. Journal of Bacteriology, Vol. 194, Issue 21 https://doi.org/10.1128/jb.01446-12	journal	October 2012
XoxF Is Required for Expression of Methanol Dehydrogenase in Methylobacterium extorquens AM1 Skovran, E.; Palmer, A. D.; Rountree, A. M. Journal of Bacteriology, Vol. 193, Issue 21 https://doi.org/10.1128/jb.05367-11	journal	August 2011
Utilization of acetate by Methanomonas emthanooxidans Wadzinski, A. M.; Ribbons, D. W. Journal of Bacteriology, Vol. 123, Issue 1 https://doi.org/10.1128/jb.123.1.380-381.1975	journal	July 1975
Whole-cell and membrane lipids of the methylotrophic bacterium Methylosinus trichosporium Weaver, T. L.; Patrick, M. A.; Dugan, P. R. Journal of Bacteriology, Vol. 124, Issue 2 https://doi.org/10.1128/jb.124.2.602-605.1975	journal	November 1975
Reduced nicotinamide adenine dinucleotide-activated phosphoenolpyruvate carboxylase in Pseudomonas MA: potential regulation between carbon assimilation and energy production Newaz, S. S.; Hersh, L. B. Journal of Bacteriology, Vol. 124, Issue 2 https://doi.org/10.1128/jb.124.2.825-833.1975	journal	November 1975
Distribution of Tetrahydromethanopterin-Dependent Enzymes in Methylotrophic Bacteria and Phylogeny of Methenyl Tetrahydromethanopterin Cyclohydrolases Vorholt, Julia A.; Chistoserdova, Ludmila; Stolyar, Sergei M. Journal of Bacteriology, Vol. 181, Issue 18 https://doi.org/10.1128/jb.181.18.5750-5757.1999	journal	September 1999
Novel Formaldehyde-Activating Enzyme inMethylobacterium extorquens AM1 Required for Growth on Methanol Vorholt, Julia A.; Marx, Christopher J.; Lidstrom, Mary E. Journal of Bacteriology, Vol. 182, Issue 23 https://doi.org/10.1128/jb.182.23.6645-6650.2000	journal	January 2000
Characterization of Two Methanopterin Biosynthesis Mutants of Methylobacterium extorquens AM1 by Use of a Tetrahydromethanopterin Bioassay Rasche, Madeline E.; Havemann, Stephanie A.; Rosenzvaig, Mariana Journal of Bacteriology, Vol. 186, Issue 5 https://doi.org/10.1128/jb.186.5.1565-1570.2004	journal	March 2004
Biochemical Characterization of a Dihydromethanopterin Reductase Involved in Tetrahydromethanopterin Biosynthesis in Methylobacterium extorquens AM1 Caccamo, Marco A.; Malone, Courtney S.; Rasche, Madeline E. Journal of Bacteriology, Vol. 186, Issue 7 https://doi.org/10.1128/jb.186.7.2068-2073.2004	journal	April 2004
Analysis of Gene Islands Involved in Methanopterin-Linked C1 Transfer Reactions Reveals New Functions and Provides Evolutionary Insights Kalyuzhnaya, M. G.; Korotkova, N.; Crowther, G. Journal of Bacteriology, Vol. 187, Issue 13 https://doi.org/10.1128/jb.187.13.4607-4614.2005	journal	June 2005
Novel Dephosphotetrahydromethanopterin Biosynthesis Genes Discovered via Mutagenesis in Methylobacterium extorquens AM1 Chistoserdova, Ludmila; Rasche, Madeline E.; Lidstrom, Mary E. Journal of Bacteriology, Vol. 187, Issue 7 https://doi.org/10.1128/jb.187.7.2508-2512.2005	journal	April 2005
Methane-oxidizing microorganisms Higgins, I. J.; Best, D. J.; Hammond, R. C. Microbiological Reviews, Vol. 45, Issue 4 https://doi.org/10.1128/mr.45.4.556-590.1981	journal	December 1981
Methanotrophic bacteria. Hanson, R. S.; Hanson, T. E. Microbiological reviews, Vol. 60, Issue 2 https://doi.org/10.1128/mr.60.2.439-471.1996	journal	January 1996
Characterization of recombinant PPi-dependent 6-phosphofructokinases from Methylosinus trichosporium OB3b and Methylobacterium nodulans ORS 2060 Rozova, O. N.; Khmelenina, V. N.; Trotsenko, Y. A. Biochemistry (Moscow), Vol. 77, Issue 3 https://doi.org/10.1134/s0006297912030078	journal	March 2012
The Biochemistry of Methane Oxidation Hakemian, Amanda S.; Rosenzweig, Amy C. Annual Review of Biochemistry, Vol. 76, Issue 1 https://doi.org/10.1146/annurev.biochem.76.061505.175355	journal	June 2007
The Expanding World of Methylotrophic Metabolism Chistoserdova, Ludmila; Kalyuzhnaya, Marina G.; Lidstrom, Mary E. Annual Review of Microbiology, Vol. 63, Issue 1 https://doi.org/10.1146/annurev.micro.091208.073600	journal	October 2009
Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia Hou, Shaobin; Makarova, Kira S.; Saw, Jimmy HW Biology Direct, Vol. 3, Issue 1 https://doi.org/10.1186/1745-6150-3-26	journal	January 2008
Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath) Ward, Naomi; Larsen, Øivind; Sakwa, James PLoS Biology, Vol. 2, Issue 10 https://doi.org/10.1371/journal.pbio.0020303	journal	September 2004
How Half a Century of Research was Required to Understand Bacterial Growth on C ₁ and C ₂ Compounds; the Story of the Serine Cycle and the Ethylmalonyl-CoA Pathway Anthony, Christopher Science Progress, Vol. 94, Issue 2 https://doi.org/10.3184/003685011x13044430633960	journal	June 2011
Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part II. Metabolomics and 13C-Labeling Study Yang, Song; Matsen, Janet B.; Konopka, Michael Frontiers in Microbiology, Vol. 4 https://doi.org/10.3389/fmicb.2013.00070	journal	January 2013

Cited By (12)

Metabolic engineering of methanotrophs and its application to production of chemicals and biofuels from methane: Biofuel energy consumption-Economic growth relationship: An empirical investigation of Brazil Lee, Ok Kyung; Hur, Dong Hoon; Nguyen, Diep Thi Ngoc Biofuels, Bioproducts and Biorefining, Vol. 10, Issue 6 https://doi.org/10.1002/bbb.1678	journal	August 2016
Copper and cerium-regulated gene expression in Methylosinus trichosporium OB3b Gu, Wenyu; Semrau, Jeremy D. Applied Microbiology and Biotechnology, Vol. 101, Issue 23-24 https://doi.org/10.1007/s00253-017-8572-2	journal	October 2017
Highly efficient methane biocatalysis revealed in a methanotrophic bacterium Kalyuzhnaya, M. G.; Yang, S.; Rozova, O. N. Nature Communications, Vol. 4, Issue 1 https://doi.org/10.1038/ncomms3785	journal	December 2013
Short-chain alkanes fuel mussel and sponge Cycloclasticus symbionts from deep-sea gas and oil seeps Rubin-Blum, Maxim; Antony, Chakkiath Paul; Borowski, Christian Nature Microbiology, Vol. 2, Issue 8 https://doi.org/10.1038/nmicrobiol.2017.93	journal	June 2017
Ammonium induces differential expression of methane and nitrogen metabolism-related genes in M ethylocystis sp. strain SC2 : RNA-Seq of a methanotrophic bacterium Dam, Bomba; Dam, Somasri; Kim, Yongkyu Environmental Microbiology, Vol. 16, Issue 10 https://doi.org/10.1111/1462-2920.12367	journal	February 2014
A comparative transcriptome analysis of the novel obligate methanotroph Methylomonas sp. DH-1 reveals key differences in transcriptional responses in C1 and secondary metabolite pathways during growth on methane and methanol Nguyen, Anh Duc; Kim, Donghyuk; Lee, Eun Yeol BMC Genomics, Vol. 20, Issue 1 https://doi.org/10.1186/s12864-019-5487-6	journal	February 2019
The effect of methane and odd-chain fatty acids on 3-hydroxybutyrate (3HB) and 3-hydroxyvalerate (3HV) synthesis by a Methylosinus-dominated mixed culture Luangthongkam, Pawarisa; Strong, Peter James; Syed Mahamud, Syarifah Nuraqmar Bioresources and Bioprocessing, Vol. 6, Issue 1 https://doi.org/10.1186/s40643-019-0285-1	journal	December 2019
Rare Earth Elements Alter Redox Balance in Methylomicrobium alcaliphilum 20ZR Akberdin, Ilya R.; Collins, David A.; Hamilton, Richard Frontiers in Microbiology, Vol. 9 https://doi.org/10.3389/fmicb.2018.02735	journal	November 2018
Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part II. Metabolomics and 13C-Labeling Study Yang, Song; Matsen, Janet B.; Konopka, Michael Frontiers in Microbiology, Vol. 4 https://doi.org/10.3389/fmicb.2013.00070	journal	January 2013
Microbial enzymes that oxidize hydrocarbons Austin, Rachel N.; Callaghan, Amy V. Frontiers in Microbiology, Vol. 4 https://doi.org/10.3389/fmicb.2013.00338	journal	January 2013
Metatranscriptional Response of Chemoautotrophic Ifremeria nautilei Endosymbionts to Differing Sulfur Regimes Seston, Sherry L.; Beinart, Roxanne A.; Sarode, Neha Frontiers in Microbiology, Vol. 7 https://doi.org/10.3389/fmicb.2016.01074	journal	July 2016
Role of NAD+-Dependent Malate Dehydrogenase in the Metabolism of Methylomicrobium alcaliphilum 20Z and Methylosinus trichosporium OB3b Rozova, Olga; Khmelenina, Valentina; Bocharova, Ksenia Microorganisms, Vol. 3, Issue 1 https://doi.org/10.3390/microorganisms3010047	journal	February 2015

Similar Records

Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part II. Metabolomics and 13C-Labeling Study

Journal Article · Wed Apr 03 00:00:00 EDT 2013 · Frontiers in Microbiology · OSTI ID:1628079

Yang, Song; Matsen, Janet B.; Konopka, Michael; +6 more

Marker Exchange Mutagenesis of mxaF , Encoding the Large Subunit of the Mxa Methanol Dehydrogenase, in Methylosinus trichosporium OB3b

Journal Article · Mon Dec 28 00:00:00 EST 2015 · Applied and Environmental Microbiology · OSTI ID:1628079

Farhan Ul Haque, Muhammad; Gu, Wenyu; DiSpirito, Alan A.; +1 more

An Aminotransferase is Responsible for the Deamination of the N-terminal Leucine and Required for Formation of Oxazolone Ring A in Methanobactin of Methylosinus trichosporium OB3b

Journal Article · Fri Oct 21 00:00:00 EDT 2016 · Applied and Environmental Microbiology · OSTI ID:1628079

Gu, Wenyu; Baral, Bipin S.; DiSpirito, Alan A.; +1 more

Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Microbiology
methanotrophic proteobacteria
serine cycle
ethylmalonyl-CoA pathway in methanotrophs
TCA
gene expression

Title: Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part I: Transcriptomic Study

Citation Formats

References (81)

Cited By (12)

Similar Records

Related Subjects