Search Menu
DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information
Search Scholarly Publications

Title: Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland

Abstract

ABSTRACT Microbial carbon degradation and methanogenesis in wetland soils generate a large proportion of atmospheric methane, a highly potent greenhouse gas. Despite their potential to mitigate greenhouse gas emissions, knowledge about methane-consuming methanotrophs is often limited to lower-resolution single-gene surveys that fail to capture the taxonomic and metabolic diversity of these microorganisms in soils. Here our objective was to use genome-enabled approaches to investigate methanotroph membership, distribution, and in situ activity across spatial and seasonal gradients in a freshwater wetland near Lake Erie. 16S rRNA gene analyses demonstrated that members of the methanotrophic Methylococcales were dominant, with the dominance largely driven by the relative abundance of four taxa, and enriched in oxic surface soils. Three methanotroph genomes from assembled soil metagenomes were assigned to the genus Methylobacter and represented the most abundant methanotrophs across the wetland. Paired metatranscriptomes confirmed that these Old Woman Creek (OWC) Methylobacter members accounted for nearly all the aerobic methanotrophic activity across two seasons. In addition to having the capacity to couple methane oxidation to aerobic respiration, these new genomes encoded denitrification potential that may sustain energy generation in soils with lower dissolved oxygen concentrations. We further show that Methylobacter members that were closely related tomore » the OWC members were present in many other high-methane-emitting freshwater and soil sites, suggesting that this lineage could participate in methane consumption in analogous ecosystems. This work contributes to the growing body of research suggesting that Methylobacter may represent critical mediators of methane fluxes in freshwater saturated sediments and soils worldwide. IMPORTANCE Here we used soil metagenomics and metatranscriptomics to uncover novel members within the genus Methylobacter . We denote these closely related genomes as members of the lineage OWC Methylobacter . Despite the incredibly high microbial diversity in soils, here we present findings that unexpectedly showed that methane cycling was primarily mediated by a single genus for both methane production (“ Candidatus Methanothrix paradoxum”) and methane consumption (OWC Methylobacter ). Metatranscriptomic analyses revealed that decreased methanotrophic activity rather than increased methanogenic activity possibly contributed to the greater methane emissions that we had previously observed in summer months, findings important for biogeochemical methane models. Although members of this Methylococcales order have been cultivated for decades, multi-omic approaches continue to illuminate the methanotroph phylogenetic and metabolic diversity harbored in terrestrial and marine ecosystems.« less

Authors:
ORCiD logo; ; ; ; ; ; ; ; ; ; ; ;
Publication Date:
Research Org.:
The Ohio State Univ., Columbus, OH (United States); Univ. of California, Oakland, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER); National Science Foundation (NSF)
OSTI Identifier:
1481031
Alternate Identifier(s):
OSTI ID: 1612814
Grant/Contract Number:  
SC0018022; AC02-05CH11231; DGE1343012
Resource Type:
Published Article
Journal Name:
mBio (Online)
Additional Journal Information:
Journal Name: mBio (Online) Journal Volume: 9 Journal Issue: 6; Journal ID: ISSN 2150-7511
Publisher:
American Society for Microbiology
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; microbiology; denitrification; metagenomics; metatranscriptomics; methane; methanotrophs; soil microbiology

Citation Formats

Smith, Garrett J., Angle, Jordan C., Solden, Lindsey M., Borton, Mikayla A., Morin, Timothy H., Daly, Rebecca A., Johnston, Michael D., Stefanik, Kay C., Wolfe, Richard, Gil, Bohrer, Wrighton, Kelly C., Bailey, ed., Vanessa, and Jansson, ed., Janet K. Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland. United States: N. p., 2018. Web. doi:10.1128/mBio.00815-18.
Copy to clipboard
Smith, Garrett J., Angle, Jordan C., Solden, Lindsey M., Borton, Mikayla A., Morin, Timothy H., Daly, Rebecca A., Johnston, Michael D., Stefanik, Kay C., Wolfe, Richard, Gil, Bohrer, Wrighton, Kelly C., Bailey, ed., Vanessa, & Jansson, ed., Janet K. Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland. United States. https://doi.org/10.1128/mBio.00815-18
Copy to clipboard
Smith, Garrett J., Angle, Jordan C., Solden, Lindsey M., Borton, Mikayla A., Morin, Timothy H., Daly, Rebecca A., Johnston, Michael D., Stefanik, Kay C., Wolfe, Richard, Gil, Bohrer, Wrighton, Kelly C., Bailey, ed., Vanessa, and Jansson, ed., Janet K. Tue . "Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland". United States. https://doi.org/10.1128/mBio.00815-18.
Copy to clipboard
@article{osti_1481031,
title = {Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland},
author = {Smith, Garrett J. and Angle, Jordan C. and Solden, Lindsey M. and Borton, Mikayla A. and Morin, Timothy H. and Daly, Rebecca A. and Johnston, Michael D. and Stefanik, Kay C. and Wolfe, Richard and Gil, Bohrer and Wrighton, Kelly C. and Bailey, ed., Vanessa and Jansson, ed., Janet K.},
abstractNote = {ABSTRACT Microbial carbon degradation and methanogenesis in wetland soils generate a large proportion of atmospheric methane, a highly potent greenhouse gas. Despite their potential to mitigate greenhouse gas emissions, knowledge about methane-consuming methanotrophs is often limited to lower-resolution single-gene surveys that fail to capture the taxonomic and metabolic diversity of these microorganisms in soils. Here our objective was to use genome-enabled approaches to investigate methanotroph membership, distribution, and in situ activity across spatial and seasonal gradients in a freshwater wetland near Lake Erie. 16S rRNA gene analyses demonstrated that members of the methanotrophic Methylococcales were dominant, with the dominance largely driven by the relative abundance of four taxa, and enriched in oxic surface soils. Three methanotroph genomes from assembled soil metagenomes were assigned to the genus Methylobacter and represented the most abundant methanotrophs across the wetland. Paired metatranscriptomes confirmed that these Old Woman Creek (OWC) Methylobacter members accounted for nearly all the aerobic methanotrophic activity across two seasons. In addition to having the capacity to couple methane oxidation to aerobic respiration, these new genomes encoded denitrification potential that may sustain energy generation in soils with lower dissolved oxygen concentrations. We further show that Methylobacter members that were closely related to the OWC members were present in many other high-methane-emitting freshwater and soil sites, suggesting that this lineage could participate in methane consumption in analogous ecosystems. This work contributes to the growing body of research suggesting that Methylobacter may represent critical mediators of methane fluxes in freshwater saturated sediments and soils worldwide. IMPORTANCE Here we used soil metagenomics and metatranscriptomics to uncover novel members within the genus Methylobacter . We denote these closely related genomes as members of the lineage OWC Methylobacter . Despite the incredibly high microbial diversity in soils, here we present findings that unexpectedly showed that methane cycling was primarily mediated by a single genus for both methane production (“ Candidatus Methanothrix paradoxum”) and methane consumption (OWC Methylobacter ). Metatranscriptomic analyses revealed that decreased methanotrophic activity rather than increased methanogenic activity possibly contributed to the greater methane emissions that we had previously observed in summer months, findings important for biogeochemical methane models. Although members of this Methylococcales order have been cultivated for decades, multi-omic approaches continue to illuminate the methanotroph phylogenetic and metabolic diversity harbored in terrestrial and marine ecosystems.},
doi = {10.1128/mBio.00815-18},
journal = {mBio (Online)},
number = 6,
volume = 9,
place = {United States},
year = {2018},
month = {11}
}
Copy to clipboard
Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
https://doi.org/10.1128/mBio.00815-18
Copyright Statement
Other availability
Search WorldCat Search WorldCat to find libraries that may hold this journal
Citation Metrics:
Cited by: 7 works
Citation information provided by
Web of Science
Save / Share:
Export Metadata
Save to My Library
You must Sign In or Create an Account in order to save documents to your library.

Works referenced in this record:

Metatranscriptomic Analysis of Arctic Peat Soil Microbiota
journal, July 2014

  • Tveit, Alexander T.; Urich, Tim; Svenning, Mette M.
  • Applied and Environmental Microbiology, Vol. 80, Issue 18
  • DOI: 10.1128/AEM.01030-14

Organic carbon transformations in high-Arctic peat soils: key functions and microorganisms
journal, September 2012

  • Tveit, Alexander; Schwacke, Rainer; Svenning, Mette M.
  • The ISME Journal, Vol. 7, Issue 2
  • DOI: 10.1038/ismej.2012.99

A novel family of functional operons encoding methane/ammonia monooxygenase-related proteins in gammaproteobacterial methanotrophs: Novel monooxygenase in Gamma-MOB
journal, February 2011

XoxF Acts as the Predominant Methanol Dehydrogenase in the Type I Methanotroph Methylomicrobium buryatense
journal, February 2016

  • Chu, Frances; Lidstrom, Mary E.
  • Journal of Bacteriology, Vol. 198, Issue 8
  • DOI: 10.1128/JB.00959-15

The Na + -Translocating NADH:Quinone Oxidoreductase Enhances Oxidative Stress in the Cytoplasm of Vibrio cholerae
journal, June 2016

  • Muras, Valentin; Dogaru-Kinn, Paul; Minato, Yusuke
  • Journal of Bacteriology, Vol. 198, Issue 17
  • DOI: 10.1128/JB.00342-16

Mixotrophy drives niche expansion of verrucomicrobial methanotrophs
journal, August 2017

  • Carere, Carlo R.; Hards, Kiel; Houghton, Karen M.
  • The ISME Journal, Vol. 11, Issue 11
  • DOI: 10.1038/ismej.2017.112

The active methanotrophic community in a wetland from the High Arctic: Methanotrophs in the High Arctic
journal, February 2011

Draft Genomes of Gammaproteobacterial Methanotrophs Isolated from Terrestrial Ecosystems: TABLE 1
journal, June 2015

  • Hamilton, Richard; Kits, K. Dimitri; Ramonovskaya, Victoria A.
  • Genome Announcements, Vol. 3, Issue 3
  • DOI: 10.1128/genomeA.00515-15

New roles in hemicellulosic sugar fermentation for the uncultivated Bacteroidetes family BS11
journal, December 2016

  • Solden, Lindsey M.; Hoyt, David W.; Collins, William B.
  • The ISME Journal, Vol. 11, Issue 3
  • DOI: 10.1038/ismej.2016.150

Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2
journal, February 2012

Nitrifying and denitrifying pathways of methanotrophic bacteria
journal, November 2011

  • Stein, Lisa Y.; Klotz, Martin G.
  • Biochemical Society Transactions, Vol. 39, Issue 6
  • DOI: 10.1042/BST20110712

Methane Oxidation and Production Activity in Soils from Natural and Agricultural Ecosystems
journal, January 2001

  • Chan, A. S. K.; Parkin, T. B.
  • Journal of Environment Quality, Vol. 30, Issue 6
  • DOI: 10.2134/jeq2001.1896

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
journal, August 2017

  • Bowers, Robert M.; Kyrpides, Nikos C.; Stepanauskas, Ramunas
  • Nature Biotechnology, Vol. 35, Issue 8
  • DOI: 10.1038/nbt.3893

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
journal, May 2010

  • Trapnell, Cole; Williams, Brian A.; Pertea, Geo
  • Nature Biotechnology, Vol. 28, Issue 5
  • DOI: 10.1038/nbt.1621

Methylobacter tundripaludum sp. nov., a methane-oxidizing bacterium from Arctic wetland soil on the Svalbard islands, Norway (78  N)
journal, January 2006

  • Wartiainen, I.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 56, Issue 1
  • DOI: 10.1099/ijs.0.63728-0

Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla
journal, September 2012

Crenothrix are major methane consumers in stratified lakes
journal, June 2017

  • Oswald, Kirsten; Graf, Jon S.; Littmann, Sten
  • The ISME Journal, Vol. 11, Issue 9
  • DOI: 10.1038/ismej.2017.77

The Expanded Diversity of Methylophilaceae from Lake Washington through Cultivation and Genomic Sequencing of Novel Ecotypes
journal, July 2014

Community-wide analysis of microbial genome sequence signatures
journal, January 2009

  • Dick, Gregory J.; Andersson, Anders F.; Baker, Brett J.
  • Genome Biology, Vol. 10, Issue 8
  • DOI: 10.1186/gb-2009-10-8-r85

Methanogenesis in oxygenated soils is a substantial fraction of wetland methane emissions
journal, November 2017

Methylotrophy in a Lake: from Metagenomics to Single-Organism Physiology
journal, May 2011

  • Chistoserdova, Ludmila
  • Applied and Environmental Microbiology, Vol. 77, Issue 14
  • DOI: 10.1128/AEM.00314-11

Draft Genome Sequence of Uncultured Upland Soil Cluster Gammaproteobacteria Gives Molecular Insights into High-Affinity Methanotrophy
journal, April 2017

  • Edwards, Collin R.; Onstott, Tullis C.; Miller, Jennifer M.
  • Genome Announcements, Vol. 5, Issue 17
  • DOI: 10.1128/genomeA.00047-17

Production and Consumption of Nitric Oxide by Three Methanotrophic Bacteria
journal, September 2000

EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data
journal, May 2011

  • Miller, Christopher S.; Baker, Brett J.; Thomas, Brian C.
  • Genome Biology, Vol. 12, Issue 5
  • DOI: 10.1186/gb-2011-12-5-r44

Draft Genome Sequences of Gammaproteobacterial Methanotrophs Isolated from Lake Washington Sediment: TABLE 1 
journal, March 2015

  • Kalyuzhnaya, Marina G.; Lamb, Andrew E.; McTaggart, Tami L.
  • Genome Announcements, Vol. 3, Issue 2
  • DOI: 10.1128/genomeA.00103-15

Oxygen effects on methane production and oxidation in humid tropical forest soils
journal, August 2005

Oxygen-limited metabolism in the methanotroph Methylomicrobium buryatense 5GB1C
journal, January 2017

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
journal, March 2010

Seasonal Variation in Abundance and Diversity of Bacterial Methanotrophs in Five Temperate Lakes
journal, February 2017

The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks
journal, November 2013

  • Yilmaz, Pelin; Parfrey, Laura Wegener; Yarza, Pablo
  • Nucleic Acids Research, Vol. 42, Issue D1
  • DOI: 10.1093/nar/gkt1209

Diverse electron sources support denitrification under hypoxia in the obligate methanotroph Methylomicrobium album strain BG8
journal, October 2015

  • Kits, K. Dimitri; Campbell, Dustin J.; Rosana, Albert R.
  • Frontiers in Microbiology, Vol. 6
  • DOI: 10.3389/fmicb.2015.01072

The cytochrome bd respiratory oxygen reductases
journal, November 2011

  • Borisov, Vitaliy B.; Gennis, Robert B.; Hemp, James
  • Biochimica et Biophysica Acta (BBA) - Bioenergetics, Vol. 1807, Issue 11
  • DOI: 10.1016/j.bbabio.2011.06.016

IMG: the integrated microbial genomes database and comparative analysis system
journal, December 2011

  • Markowitz, V. M.; Chen, I. -M. A.; Palaniappan, K.
  • Nucleic Acids Research, Vol. 40, Issue D1
  • DOI: 10.1093/nar/gkr1044

Investigation of XoxF methanol dehydrogenases reveals new methylotrophic bacteria in pelagic marine and freshwater ecosystems
journal, August 2015

  • Ramachandran, Arthi; Walsh, David A.
  • FEMS Microbiology Ecology, Vol. 91, Issue 10
  • DOI: 10.1093/femsec/fiv105

Quantitative Proteomic Analysis of Metabolic Regulation by Copper Ions in Methylococcus capsulatus (Bath)
journal, September 2004

  • Kao, Wei-Chun; Chen, Yet-Ran; Yi, Eugene C.
  • Journal of Biological Chemistry, Vol. 279, Issue 49
  • DOI: 10.1074/jbc.M408013200

A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
journal, August 2018

  • Parks, Donovan H.; Chuvochina, Maria; Waite, David W.
  • Nature Biotechnology, Vol. 36, Issue 10
  • DOI: 10.1038/nbt.4229

Environmental drivers of methane fluxes from an urban temperate wetland park
journal, November 2014

  • Morin, T. H.; Bohrer, G.; Frasson, R. P. d. M.
  • Journal of Geophysical Research: Biogeosciences, Vol. 119, Issue 11
  • DOI: 10.1002/2014JG002750

ProtTest: selection of best-fit models of protein evolution
journal, January 2005

Highly efficient methane biocatalysis revealed in a methanotrophic bacterium
journal, December 2013

  • Kalyuzhnaya, M. G.; Yang, S.; Rozova, O. N.
  • Nature Communications, Vol. 4, Issue 1
  • DOI: 10.1038/ncomms3785

The small genome of an abundant coastal ocean methylotroph
journal, July 2008

Determining total emissions and environmental drivers of methane flux in a Lake Erie estuarine marsh
journal, April 2018

Microbial oxidation as a methane sink beneath the West Antarctic Ice Sheet
journal, July 2017

  • Michaud, Alexander B.; Dore, John E.; Achberger, Amanda M.
  • Nature Geoscience, Vol. 10, Issue 8
  • DOI: 10.1038/ngeo2992

Stable Isotope Probing Analysis of the Diversity and Activity of Methanotrophic Bacteria in Soils from the Canadian High Arctic
journal, July 2010

  • Martineau, C.; Whyte, L. G.; Greer, C. W.
  • Applied and Environmental Microbiology, Vol. 76, Issue 17
  • DOI: 10.1128/AEM.03094-09

The Expanding World of Methylotrophic Metabolism
journal, October 2009

Rare earth metals are essential for methanotrophic life in volcanic mudpots: Rare earth metals essential for methanotrophic life
journal, September 2013

  • Pol, Arjan; Barends, Thomas R. M.; Dietl, Andreas
  • Environmental Microbiology, Vol. 16, Issue 1
  • DOI: 10.1111/1462-2920.12249

PQQ-dependent methanol dehydrogenases: rare-earth elements make a difference
journal, May 2014

  • Keltjens, Jan T.; Pol, Arjan; Reimann, Joachim
  • Applied Microbiology and Biotechnology, Vol. 98, Issue 14
  • DOI: 10.1007/s00253-014-5766-8

Distribution and Rate of Methane Oxidation in Sediments of the Florida Everglades †
journal, January 1990

Culturable psychrotolerant methanotrophic bacteria in landfill cover soil
journal, November 2013

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees
journal, April 2016

  • Letunic, Ivica; Bork, Peer
  • Nucleic Acids Research, Vol. 44, Issue W1
  • DOI: 10.1093/nar/gkw290

Metagenomic Binning Recovers a Transcriptionally Active Gammaproteobacterium Linking Methanotrophy to Partial Denitrification in an Anoxic Oxygen Minimum Zone
journal, February 2017

  • Padilla, Cory C.; Bertagnolli, Anthony D.; Bristow, Laura A.
  • Frontiers in Marine Science, Vol. 4
  • DOI: 10.3389/fmars.2017.00023

High-resolution sequencing reveals unexplored archaeal diversity in freshwater wetland soils: Freshwater wetland archaeal diversity
journal, March 2017

  • Narrowe, Adrienne B.; Angle, Jordan C.; Daly, Rebecca A.
  • Environmental Microbiology, Vol. 19, Issue 6
  • DOI: 10.1111/1462-2920.13703

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
journal, January 2014

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
journal, April 2012

Abundant carbon substrates drive extremely high sulfate reduction rates and methane fluxes in Prairie Pothole Wetlands
journal, February 2017

  • Dalcin Martins, Paula; Hoyt, David W.; Bansal, Sheel
  • Global Change Biology, Vol. 23, Issue 8
  • DOI: 10.1111/gcb.13633

Methylacidiphilum fumariolicum SolV, a thermoacidophilic ‘Knallgas’ methanotroph with both an oxygen-sensitive and -insensitive hydrogenase
journal, December 2016

  • Mohammadi, Sepehr; Pol, Arjan; van Alen, Theo A.
  • The ISME Journal, Vol. 11, Issue 4
  • DOI: 10.1038/ismej.2016.171

Bacteriohemerythrin bolsters the activity of the particulate methane monooxygenase (pMMO) in Methylococcus capsulatus (Bath)
journal, June 2012

Patterns in Wetland Microbial Community Composition and Functional Gene Repertoire Associated with Methane Emissions
journal, May 2015

  • He, Shaomei; Malfatti, Stephanie A.; McFarland, Jack W.
  • mBio, Vol. 6, Issue 3
  • DOI: 10.1128/mBio.00066-15

The thermodynamic ladder in geomicrobiology
journal, March 2011

  • Bethke, C. M.; Sanford, R. A.; Kirk, M. F.
  • American Journal of Science, Vol. 311, Issue 3
  • DOI: 10.2475/03.2011.01

Three decades of global methane sources and sinks
journal, September 2013

  • Kirschke, Stefanie; Bousquet, Philippe; Ciais, Philippe
  • Nature Geoscience, Vol. 6, Issue 10
  • DOI: 10.1038/ngeo1955

Draft Genome Sequences of Gammaproteobacterial Methanotrophs Isolated from Marine Ecosystems: TABLE 1 
journal, January 2016

  • Flynn, James D.; Hirayama, Hisako; Sakai, Yasuyoshi
  • Genome Announcements, Vol. 4, Issue 1
  • DOI: 10.1128/genomeA.01629-15

Wetland invasion by Typha×glauca increases soil methane emissions
journal, January 2017

Lanthanide-dependent cross-feeding of methane-derived carbon is linked by microbial community interactions
journal, December 2016

  • Krause, Sascha M. B.; Johnson, Timothy; Samadhi Karunaratne, Yasodara
  • Proceedings of the National Academy of Sciences, Vol. 114, Issue 2
  • DOI: 10.1073/pnas.1619871114

Fast gapped-read alignment with Bowtie 2
journal, March 2012

  • Langmead, Ben; Salzberg, Steven L.
  • Nature Methods, Vol. 9, Issue 4
  • DOI: 10.1038/nmeth.1923

Attribution of changes in global wetland methane emissions from pre-industrial to present using CLM4.5-BGC
journal, March 2016

A phylogenomic profile of hemerythrins, the nonheme diiron binding respiratory proteins
journal, January 2008

  • Bailly, Xavier; Vanin, Stefano; Chabasse, Christine
  • BMC Evolutionary Biology, Vol. 8, Issue 1
  • DOI: 10.1186/1471-2148-8-244

A new view of the tree of life
journal, April 2016

Activation of Methanogenesis in Arid Biological Soil Crusts Despite the Presence of Oxygen
journal, May 2011

A Bacterial Hemerythrin Domain Regulates the Activity of a Vibrio cholerae Diguanylate Cyclase
journal, October 2012

  • Schaller, Ruth A.; Ali, Syed Khalid; Klose, Karl E.
  • Biochemistry, Vol. 51, Issue 43
  • DOI: 10.1021/bi3011797

XoxF encoding an alternative methanol dehydrogenase is widespread in coastal marine environments
journal, June 2015

  • Taubert, Martin; Grob, Carolina; Howat, Alexandra M.
  • Environmental Microbiology, Vol. 17, Issue 10
  • DOI: 10.1111/1462-2920.12896

Insights into Denitrification in Methylotenera mobilis from Denitrification Pathway and Methanol Metabolism Mutants
journal, March 2013

  • Mustakhimov, I.; Kalyuzhnaya, M. G.; Lidstrom, M. E.
  • Journal of Bacteriology, Vol. 195, Issue 10
  • DOI: 10.1128/JB.00069-13

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
  • DOI: 10.1128/JB.05380-11

Methanotrophic bacteria in cold seeps of the floodplains of northern rivers
journal, November 2013

Methane emissions from wetlands: biogeochemical, microbial, and modeling perspectives from local to global scales
journal, February 2013

  • Bridgham, Scott D.; Cadillo-Quiroz, Hinsby; Keller, Jason K.
  • Global Change Biology, Vol. 19, Issue 5
  • DOI: 10.1111/gcb.12131

SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information
journal, April 2014

  • Biasini, Marco; Bienert, Stefan; Waterhouse, Andrew
  • Nucleic Acids Research, Vol. 42, Issue W1
  • DOI: 10.1093/nar/gku340

Reconciliation between operational taxonomic units and species boundaries
journal, March 2017

  • Mysara, Mohamed; Vandamme, Peter; Props, Ruben
  • FEMS Microbiology Ecology, Vol. 93, Issue 4
  • DOI: 10.1093/femsec/fix029

pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
journal, October 2010

  • Matsen, Frederick A.; Kodner, Robin B.; Armbrust, E. Virginia
  • BMC Bioinformatics, Vol. 11, Issue 1
  • DOI: 10.1186/1471-2105-11-538

MUSCLE: multiple sequence alignment with high accuracy and high throughput
journal, March 2004

  • Edgar, R. C.
  • Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797
  • DOI: 10.1093/nar/gkh340

Molecular Ecology Techniques for the Study of Aerobic Methanotrophs
journal, December 2007

  • McDonald, I. R.; Bodrossy, L.; Chen, Y.
  • Applied and Environmental Microbiology, Vol. 74, Issue 5
  • DOI: 10.1128/AEM.02233-07

Insights into the phylogeny and coding potential of microbial dark matter
journal, July 2013

  • Rinke, Christian; Schwientek, Patrick; Sczyrba, Alexander
  • Nature, Vol. 499, Issue 7459
  • DOI: 10.1038/nature12352

Methylotrophs in natural habitats: current insights through metagenomics
journal, June 2015

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
journal, March 2012

  • Caporaso, J. Gregory; Lauber, Christian L.; Walters, William A.
  • The ISME Journal, Vol. 6, Issue 8
  • DOI: 10.1038/ismej.2012.8

Diversity of Aerobic Methanotrophic Bacteria in a Permafrost Active Layer Soil of the Lena Delta, Siberia
journal, July 2008

Isolation, purification and characterization of hemerythrin from Methylococcus capsulatus (Bath)
journal, August 2008

Methylotrophy in Freshwater Beggiatoa alba Strains
journal, July 2008

  • Jewell, T.; Huston, S. L.; Nelson, D. C.
  • Applied and Environmental Microbiology, Vol. 74, Issue 17
  • DOI: 10.1128/AEM.00379-08

Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment
journal, August 2013

  • Castelle, Cindy J.; Hug, Laura A.; Wrighton, Kelly C.
  • Nature Communications, Vol. 4, Issue 1
  • DOI: 10.1038/ncomms3120

Discovery of a novel methanogen prevalent in thawing permafrost
journal, February 2014

  • Mondav, Rhiannon; Woodcroft, Ben J.; Kim, Eun-Hae
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms4212

Metabolic and trophic interactions modulate methane production by Arctic peat microbiota in response to warming
journal, April 2015

  • Tveit, Alexander Tøsdal; Urich, Tim; Frenzel, Peter
  • Proceedings of the National Academy of Sciences, Vol. 112, Issue 19
  • DOI: 10.1073/pnas.1420797112
    Sort by:
    [ × clear filter / sort ]

    Similar Records in DOE PAGES and OSTI.GOV collections: