The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology

Hurwitz, Bonnie L.; Sullivan, Matthew B.

doi:10.1371/journal.pone.0057355

The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology

Journal Article · Thu Feb 28 04:00:00 EST 2013 · PLoS ONE

DOI:https://doi.org/10.1371/journal.pone.0057355· OSTI ID:1904076

Hurwitz, Bonnie L. ^[1]; Sullivan, Matthew B. ^[2]

Univ. of Arizona, Tucson, AZ (United States); OSTI
Univ. of Arizona, Tucson, AZ (United States)

Bacteria and their viruses (phage) are fundamental drivers of many ecosystem processes including global biogeochemistry and horizontal gene transfer. While databases and resources for studying function in uncultured bacterial communities are relatively advanced, many fewer exist for their viral counterparts. The issue is largely technical in that the majority (often 90%) of viral sequences are functionally ‘unknown’ making viruses a virtually untapped resource of functional and physiological information. Here, we provide a community resource that organizes this unknown sequence space into 27 K high confidence protein clusters using 32 viral metagenomes from four biogeographic regions in the Pacific Ocean that vary by season, depth, and proximity to land, and include some of the first deep pelagic ocean viral metagenomes. These protein clusters more than double currently available viral protein clusters, including those from environmental datasets. Further, a protein cluster guided analysis of functional diversity revealed that richness decreased (i) from deep to surface waters, (ii) from winter to summer, (iii) and with distance from shore in surface waters only. These data provide a framework from which to draw on for future metadata-enabled functional inquiries of the vast viral unknown.

View Accepted Manuscript (DOE)

Research Organization:: USDOE Joint Genome Institute (JGI), Berkeley, CA (United States)

Sponsoring Organization:: USDOE; National Science Foundation (NSF); Gordon and Betty Moore Foundation

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1904076

Journal Information:: PLoS ONE, Journal Name: PLoS ONE Journal Issue: 2 Vol. 8; ISSN 1932-6203

Publisher:: Public Library of ScienceCopyright Statement

Country of Publication:: United States

Language:: English

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Additional file 1 of Characterization and genomic analysis of the first Oceanospirillum phage, vB_OliS_GJ44, representing a novel siphoviral cluster Zhang, Wenjing; Liang, Yantao; Zheng, Kaiyang figshare https://doi.org/10.6084/m9.figshare.16650395	dataset	January 2021
Additional file 2 of Characterization and genomic analysis of the first Oceanospirillum phage, vB_OliS_GJ44, representing a novel siphoviral cluster Zhang, Wenjing; Liang, Yantao; Zheng, Kaiyang figshare https://doi.org/10.6084/m9.figshare.16650398.v1	dataset	January 2021
Additional file 1 of Giant viral signatures on the Greenland ice sheet Perini, Laura; Sipes, Katie; Zervas, Athanasios figshare https://doi.org/10.6084/m9.figshare.25853006.v1	dataset	January 2024
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Deep sequencing of the viral phoH gene reveals temporal variation, depth-specific composition, and persistent dominance of the same viral phoH genes in the Sargasso Sea Goldsmith, Dawn B.; Parsons, Rachel J.; Beyene, Damitu PeerJ, Vol. 3 https://doi.org/10.7717/peerj.997	journal	January 2015

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The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology

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