Single-virus genomics reveals hidden cosmopolitan and abundant viruses

Martinez-Hernandez, Francisco; Fornas, Oscar; Lluesma Gomez, Monica; Bolduc, Benjamin; de la Cruz Peña, Maria Jose; Martínez, Joaquín MartÃ­nez; Anton, Josefa; Gasol, Josep M.; Rosselli, Riccardo; Rodriguez-Valera, Francisco; Sullivan, Matthew B.; Acinas, Silvia G.; Martinez-Garcia, Manuel

doi:10.1038/ncomms15892

Title: Single-virus genomics reveals hidden cosmopolitan and abundant viruses

Journal Article · Fri Jun 23 00:00:00 EDT 2017 · Nature Communications

DOI: https://doi.org/10.1038/ncomms15892 · OSTI ID:1424950

Martinez-Hernandez, Francisco ^[1]; Fornas, Oscar ^[2]; Lluesma Gomez, Monica ^[3]; Bolduc, Benjamin ^[4]; de la Cruz Peña, Maria Jose ^[3]; Martínez, Joaquín MartÃnez ^[5]; Anton, Josefa ^[3]; Gasol, Josep M. ^[6]; Rosselli, Riccardo ^[7]; Rodriguez-Valera, Francisco ^[7]; Sullivan, Matthew B. ^[8]; Acinas, Silvia G. ^[6]; Martinez-Garcia, Manuel ^[3]

University of Alicante (Spain). Department of Physiology, Genetics, and Microbiology; University of Alicante, Spain
The Barcelona Institute for Science and Technology (BIST) (Spain). Centre for Genomic Regulation (CRG; Universitat Pompeu Fabra (UPF), Barcelona (Spain)
University of Alicante (Spain). Department of Physiology, Genetics, and Microbiology
The Ohio State Univ., Columbus, OH (United States). Department of Microbiology
Bigelow Laboratory for Ocean Sciences, East Boothbay, ME (United States)
Institut de Ciencies del Mar (ICM), Barcelona (Spain). Department of Marine Biology and Oceanography
Universidad Miguel Hernandez, San Juan (Spain). Evolutionary Genomics Group, Departamento de Produccion Vegetal y Microbiologia
The Ohio State Univ., Columbus, OH (United States). Department of Microbiology and Department of Civil, Environmental and Geodetic Engineering

Microbes drive ecosystems under constraints imposed by viruses. However, a lack of virus genome information hinders our ability to answer fundamental, biological questions concerning microbial communities. Here we apply single-virus genomics (SVGs) to assess whether portions of marine viral communities are missed by current techniques. The majority of the here-identified 44 viral single-amplified genomes (vSAGs) are more abundant in global ocean virome data sets than published metagenome-assembled viral genomes or isolates. This indicates that vSAGs likely best represent the dsDNA viral populations dominating the oceans. Species-specific recruitment patterns and virome simulation data suggest that vSAGs are highly microdiverse and that microdiversity hinders the metagenomic assembly, which could explain why their genomes have not been identified before. Altogether, SVGs enable the discovery of some of the likely most abundant and ecologically relevant marine viral species, such as vSAG 37-F6, which were overlooked by other methodologies.

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Research Organization:: Univ. of Arizona, Tucson, AZ (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23). Biological Systems Science Division

Grant/Contract Number:: SC0010580

OSTI ID:: 1424950

Journal Information:: Nature Communications, Journal Name: Nature Communications Vol. 8; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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Long-read viral metagenomics captures abundant and microdiverse viral populations and their niche-defining genomic islands Warwick-Dugdale, Joanna; Solonenko, Natalie; Moore, Karen PeerJ, Vol. 7 https://doi.org/10.7717/peerj.6800	journal	January 2019

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