Genomic characterization of methanomicrobiales reveals three classes of methanogens

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dc.contributorVirginia Techen
dc.contributor.authorAnderson, Iain J.en
dc.contributor.authorUlrich, Luke E.en
dc.contributor.authorLupa, Boguslawen
dc.contributor.authorSusanti, Dwien
dc.contributor.authorPorat, Irisen
dc.contributor.authorHooper, Sean D.en
dc.contributor.authorLykidi, Athanasiosen
dc.contributor.authorSieprawska-Lupa, Magdalenaen
dc.contributor.authorDharmarajan, Lakshmien
dc.contributor.authorGoltsman, Eugeneen
dc.contributor.authorLapidus, Allaen
dc.contributor.authorSaunders, Elizabethen
dc.contributor.authorHan, Cliffen
dc.contributor.authorLand,Miriamen
dc.contributor.authorLucas, Susanen
dc.contributor.authorMukhopadhyay, Biswariupen
dc.contributor.authorWhitman, William B.en
dc.contributor.authorWoese, Carlen
dc.contributor.authorBristow, Jamesen
dc.contributor.authorKyrpides, Nikosen
dc.date.accessed2014-04-19en
dc.date.accessioned2014-06-17T20:12:04Zen
dc.date.available2014-06-17T20:12:04Zen
dc.date.issued2009-06-04en
dc.description.abstractBackground: Methanomicrobiales is the least studied order of methanogens. While these organisms appear to be more closely related to the Methanosarcinales in ribosomal-based phylogenetic analyses, they are metabolically more similar to Class I methanogens. Methodology/Principal Findings: In order to improve our understanding of this lineage, we have completely sequenced the genomes of two members of this order, Methanocorpusculum labreanum Z and Methanoculleus marisnigri JR1, and compared them with the genome of a third, Methanospirillum hungatei JF-1. Similar to Class I methanogens, Methanomicrobiales use a partial reductive citric acid cycle for 2-oxoglutarate biosynthesis, and they have the Eha energy-converting hydrogenase. In common with Methanosarcinales, Methanomicrobiales possess the Ech hydrogenase and at least some of them may couple formylmethanofuran formation and heterodisulfide reduction to transmembrane ion gradients. Uniquely, M. labreanum and M. hungatei contain hydrogenases similar to the Pyrococcus furiosus Mbh hydrogenase, and all three Methanomicrobiales have anti-sigma factor and anti-anti-sigma factor regulatory proteins not found in other methanogens. Phylogenetic analysis based on seven core proteins of methanogenesis and cofactor biosynthesis places the Methanomicrobiales equidistant from Class I methanogens and Methanosarcinales. Conclusions/Significance: Our results indicate that Methanomicrobiales, rather than being similar to Class I methanogens or Methanomicrobiales, share some features of both and have some unique properties. We find that there are three distinct classes of methanogens: the Class I methanogens, the Methanomicrobiales (Class II), and the Methanosarcinales (Class III).en
dc.description.sponsorshipThis work was performed under the auspices of the US Department of Energy’s Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory under Contract No. DE-AC02-05CH11231, Lawrence Livermore National Laboratory under Contract No. DE-AC52-07NA27344, and Los Alamos National Laboratory under Contract No. DE-AC02-06NA25396. L. E. U. was supported by grant number GM72285 from the National Institutes of Health. B. L., I. P., M. S.-L., and W. B. W. were supported by DOE contract number DE-FG02-97ER20269. D. S., L. D., and B. M. were supported by NASA Astrobiology, Exobiology, and Evolutionary Biology grant NNG05GP24G. M. L. was supported by the Department of Energy under contract DE-AC05-000R22725.en
dc.identifier.citationAnderson I, Ulrich LE, Lupa B, Susanti D, Porat I, et al. (2009) Genomic Characterization of Methanomicrobiales Reveals Three Classes of Methanogens. PLoS ONE 4(6): e5797. doi:10.1371/journal.pone.0005797en
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0005797en
dc.identifier.issn1932-6203en
dc.identifier.urihttp://hdl.handle.net/10919/48972en
dc.identifier.urlhttp://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0005797en
dc.language.isoen_USen
dc.publisherPublic Library of Scienceen
dc.rightsIn Copyrighten
dc.rights.urihttp://rightsstatements.org/vocab/InC/1.0/en
dc.subjectArchaean biology}}Biosynthesisen
dc.subjectCitric acid cycleen
dc.subjectComparative genomicsen
dc.subjectDehydrogenasesen
dc.subjectMethanogensen
dc.subjectOperonsen
dc.subjectPhylogenetic analysisen
dc.titleGenomic characterization of methanomicrobiales reveals three classes of methanogensen
dc.title.serialPLoS ONEen
dc.typeArticle - Refereeden

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