Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea

Borrel, Guillaume; Adam, Panagiotis S.; McKay, Luke J.; Chen, Lin-Xing; Sierra-García, Isabel Natalia; Sieber, Christian M.  K.; Letourneur, Quentin; Ghozlane, Amine; Andersen, Gary L.; Li, Wen-Jun; Hallam, Steven J.; Muyzer, Gerard; de Oliveira, Valéria Maia; Inskeep, William P.; Banfield, Jillian F.; Gribaldo, Simonetta

doi:10.1038/s41564-019-0363-3

Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea

Journal Article · Mon Mar 04 00:00:00 EST 2019 · Nature Microbiology

DOI:https://doi.org/10.1038/s41564-019-0363-3· OSTI ID:1545147

^[1]; Adam, Panagiotis S. ^[2]; ^[3]; Chen, Lin-Xing ^[4]; Sierra-García, Isabel Natalia ^[5]; Sieber, Christian M. K. ^[6]; Letourneur, Quentin ^[1]; Ghozlane, Amine ^[1]; Andersen, Gary L. ^[4]; ^[7]; ^[8]; ^[9]; de Oliveira, Valéria Maia ^[5]; ^[3]; ^[4]; ^[1]

Institut Pasteur, Paris (France)
Institut Pasteur, Paris (France); Université Paris Diderot, Paris (France)
Montana State Univ., Bozeman, MT (United States)
Univ. of California, Berkeley, CA (United States)
Univ. of Campinas (UNICAMP), Sao Paulo (Brazil)
Univ. of California, Berkeley, CA (United States); USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
Sun Yat-Sen Univ., Guangzhou, (China)
Univ. of British Columbia, Vancouver, BC (Canada)
Univ. of Amsterdam (Netherlands)

Methanogenesis is an archaic metabolism of key ecological relevance, with direct impact on the evolution of Earth's climate. Recent findings indicate that the diversity of methane metabolisms and their derivations have probably been vastly underestimated. In this work, by probing thousands of publicly available metagenomes for homologues of methyl-coenzyme M reductase complex (MCR), we have obtained ten metagenome-assembled genomes (MAGs) belonging to potential methanogenic, anaerobic methanotrophic and short-chain alkane-oxidizing archaea. Five of these MAGs represent under-sampled (Verstraetearchaeota, Methanonatronarchaeia, ANME-1 and GoM-Arc1) or previously genomically undescribed (ANME-2c) archaeal lineages. The remaining five MAGs correspond to lineages that are only distantly related to previously known methanogens and span the entire archaeal phylogeny. Comprehensive comparative annotation substantially expands the metabolic diversity and energy conservation systems of MCR-bearing archaea. It also suggests the potential existence of a yet uncharacterized type of methanogenesis linked to short-chain alkane/fatty acid oxidation in a previously undescribed class of archaea ('Candidatus Methanoliparia'). We redefine a common core of marker genes specific to methanogenic, anaerobic methanotrophic and short-chain alkane-oxidizing archaea, and propose a possible scenario for the evolutionary and functional transitions that led to the emergence of such metabolic diversity.

View Accepted Manuscript (DOE)

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1545147

Journal Information:: Nature Microbiology, Journal Name: Nature Microbiology Journal Issue: 4 Vol. 4; ISSN 2058-5276

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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