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dc.contributor.authorSwan, Brandon K.  Concept link
dc.contributor.authorChaffin, Mark D.  Concept link
dc.contributor.authorMartinez-Garcia, Manuel  Concept link
dc.contributor.authorMorrison, Hilary G.  Concept link
dc.contributor.authorField, Erin K.  Concept link
dc.contributor.authorPoulton, Nicole J.  Concept link
dc.contributor.authorMasland, E. Dashiell P.  Concept link
dc.contributor.authorHarris, Christopher C.  Concept link
dc.contributor.authorSczyrba, Alexander  Concept link
dc.contributor.authorChain, Patrick S. G.  Concept link
dc.contributor.authorKoren, Sergey  Concept link
dc.contributor.authorWoyke, Tanja  Concept link
dc.contributor.authorStepanauskas, Ramunas  Concept link
dc.date.accessioned2014-06-04T20:09:58Z
dc.date.available2014-06-04T20:09:58Z
dc.date.issued2014-04-17
dc.identifier.citationPLoS One 9 (2014): e95380en_US
dc.identifier.urihttps://hdl.handle.net/1912/6692
dc.descriptionThe work is made available under the Creative Commons CC0 public domain dedication. The definitive version was published in PLoS One 9 (2014): e95380, doi:10.1371/journal.pone.0095380.en_US
dc.description.abstractMarine Group I (MGI) Thaumarchaeota are one of the most abundant and cosmopolitan chemoautotrophs within the global dark ocean. To date, no representatives of this archaeal group retrieved from the dark ocean have been successfully cultured. We used single cell genomics to investigate the genomic and metabolic diversity of thaumarchaea within the mesopelagic of the subtropical North Pacific and South Atlantic Ocean. Phylogenetic and metagenomic recruitment analysis revealed that MGI single amplified genomes (SAGs) are genetically and biogeographically distinct from existing thaumarchaea cultures obtained from surface waters. Confirming prior studies, we found genes encoding proteins for aerobic ammonia oxidation and the hydrolysis of urea, which may be used for energy production, as well as genes involved in 3-hydroxypropionate/4-hydroxybutyrate and oxidative tricarboxylic acid pathways. A large proportion of protein sequences identified in MGI SAGs were absent in the marine cultures Cenarchaeum symbiosum and Nitrosopumilus maritimus, thus expanding the predicted protein space for this archaeal group. Identifiable genes located on genomic islands with low metagenome recruitment capacity were enriched in cellular defense functions, likely in response to viral infections or grazing. We show that MGI Thaumarchaeota in the dark ocean may have more flexibility in potential energy sources and adaptations to biotic interactions than the existing, surface-ocean cultures.en_US
dc.description.sponsorshipThis work was supported by NSF grants EF-826924 (R.S.), OCE-821374 (R.S.) and OCE-1232982 (R.S. and B.K.S.); the DOE JGI 2010 Microbes Program grant CSP77 (R.S. and M.E.S.); National Institutes of Health grant 1UH2DK083993 (H.G.M.). Work conducted by the U.S. Department of Energy Joint Genome Institute is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231. The contributions of S.K. were funded under Agreement No. HSHQDC-07-C-00020 awarded by the Department of Homeland Security (DHS) for the management and operation of the National Biodefense Analysis and Countermeasures Center (NBACC), a Federally Funded Research and Development Center.en_US
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dc.format.mimetypeapplication/pdf
dc.language.isoen_USen_US
dc.publisherPublic Library of Scienceen_US
dc.relation.urihttps://doi.org/10.1371/journal.pone.0095380
dc.rightsPublic Domain Dedication*
dc.rights.urihttp://creativecommons.org/publicdomain/zero/1.0/*
dc.titleGenomic and metabolic diversity of Marine Group I Thaumarchaeota in the mesopelagic of two subtropical gyresen_US
dc.typeArticleen_US
dc.identifier.doi10.1371/journal.pone.0095380


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