Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage

Dupont, Chris L.; Rusch, Douglas B.; Yooseph, Shibu; Lombardo, Mary-Jane; Alexander Richter, R.; Valas, Ruben; Novotny, Mark; Yee-Greenbaum, Joyclyn; Selengut, Jeremy D.; Haft, Dan H.; Halpern, Aaron L.; Lasken, Roger S.; Nealson, Kenneth; Friedman, Robert; Craig Venter, J.

doi:10.1038/ismej.2011.189

Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage

Journal Article · Wed Dec 14 23:00:00 EST 2011 · The ISME Journal

DOI:https://doi.org/10.1038/ismej.2011.189· OSTI ID:1623756

Dupont, Chris L. ^[1]; Rusch, Douglas B. ^[2]; Yooseph, Shibu ^[3]; Lombardo, Mary-Jane ^[3]; Alexander Richter, R. ^[3]; Valas, Ruben ^[3]; Novotny, Mark ^[3]; Yee-Greenbaum, Joyclyn ^[3]; Selengut, Jeremy D. ^[2]; Haft, Dan H. ^[2]; Halpern, Aaron L. ^[2]; Lasken, Roger S. ^[3]; Nealson, Kenneth ^[3]; Friedman, Robert ^[3]; Craig Venter, J. ^[3]

J. Craig Venter Inst., Inc., San Diego, CA (United States); DOE/OSTI
J. Craig Venter Inst., Inc., Rockville, MD (United States)
J. Craig Venter Inst., Inc., San Diego, CA (United States)

Bacteria in the 16S rRNA clade SAR86 are among the most abundant uncultivated constituents of microbial assemblages in the surface ocean for which little genomic information is currently available. Bioinformatic techniques were used to assemble two nearly complete genomes from marine metagenomes and single-cell sequencing provided two more partial genomes. Recruitment of metagenomic data shows that these SAR86 genomes substantially increase our knowledge of non-photosynthetic bacteria in the surface ocean. Phylogenomic analyses establish SAR86 as a basal and divergent lineage of c-proteobacteria, and the individual genomes display a temperature dependent distribution. Modestly sized at 1.25–1.7 Mbp, the SAR86 genomes lack several pathways for amino-acid and vitamin synthesis as well as sulfate reduction, trends commonly observed in other abundant marine microbes. SAR86 appears to be an aerobic chemoheterotroph with the potential for proteorhodopsin-based ATP generation, though the apparent lack of a retinal biosynthesis pathway may require it to scavenge exogenously-derived pigments to utilize proteorhodopsin. The genomes contain an expanded capacity for the degradation of lipids and carbohydrates acquired using a wealth of tonB-dependent outer membrane receptors. Like the abundant planktonic marine bacterial clade SAR11, SAR86 exhibits metabolic streamlining, but also a distinct carbon compound specialization, possibly avoiding competition.

View Accepted Manuscript (DOE)

Research Organization:: J. Craig Venter Inst., Inc., Rockville, MD (United States)

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

Grant/Contract Number:: FC02-02ER63453

OSTI ID:: 1623756

Journal Information:: The ISME Journal, Journal Name: The ISME Journal Journal Issue: 6 Vol. 6; ISSN 1751-7362

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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