Single-virus genomics reveals hidden cosmopolitan and abundant viruses

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 communit...

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Autores: Martínez Hernández, Francisco, Fornas, Óscar, Lluesma Gómez, Mónica, Bolduc, Benjamín, De la Cruz Peña, María José, Martínez Martínez, Joaquín, Antón Ruiz, Josefa Antonia, Gasol, Josep M., Rosselli, Riccardo, Rodríguez Valera, Francisco, Sullivan, Matthew B., Acinas, Silvia G., Martinez García, Manuel
Tipo de recurso: artículo
Fecha de publicación:2017
País:España
Institución:Universidad Miguel Hernández de Elche
Repositorio:REDIUMH. Depósito Digital de la UMH
OAI Identifier:oai:dspace.umh.es:11000/4836
Acceso en línea:http://hdl.handle.net/11000/4836
Access Level:acceso abierto
Palabra clave:579 - Microbiología
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spelling Single-virus genomics reveals hidden cosmopolitan and abundant virusesMartínez Hernández, FranciscoFornas, ÓscarLluesma Gómez, MónicaBolduc, BenjamínDe la Cruz Peña, María JoséMartínez Martínez, JoaquínAntón Ruiz, Josefa AntoniaGasol, Josep M.Rosselli, RiccardoRodríguez Valera, FranciscoSullivan, Matthew B.Acinas, Silvia G.Martinez García, Manuel579 - MicrobiologíaMicrobes 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 methodologiesThis work has been supported by Spanish Ministry of Economy and Competitiveness (refs CGL2013-40564-R and SAF2013-49267-EXP)Generalitat Valenciana (ref. ACOM/ 2015/133 and ACIF/2015/332)The USA National Science Foundation (OCE#1536989)The USA Department of Energy (DE-SC0010580),Gordon and Betty Moore Foundation (grants 3305, 3790, and 5334).The Ohio Supercomputer supported genesharing network high performance compute timeWork at BBMO was funded by Spanish project CT2015-70340-R. Work at CRGBIST and UPF was in part funded by the Spanish Ministry of Economy and Competitiveness, ‘Centro de Excelencia Severo Ochoa 2013-2017The Spanish Ministry of Economy and Competitiveness, ‘Centro de Excelencia Maria de Maeztu 2016-2019Departamentos de la UMH::Producción Vegetal y Microbiología2018201820172018info:eu-repo/semantics/articleapplication/pdf13application/pdfhttp://hdl.handle.net/11000/4836reponame:REDIUMH. Depósito Digital de la UMHinstname:Universidad Miguel Hernández de ElcheIngléshttps://doi.org/10.1038/ncomms15892info:eu-repo/semantics/openAccessoai:dspace.umh.es:11000/48362026-05-27T13:36:21Z
dc.title.none.fl_str_mv Single-virus genomics reveals hidden cosmopolitan and abundant viruses
title Single-virus genomics reveals hidden cosmopolitan and abundant viruses
spellingShingle Single-virus genomics reveals hidden cosmopolitan and abundant viruses
Martínez Hernández, Francisco
579 - Microbiología
title_short Single-virus genomics reveals hidden cosmopolitan and abundant viruses
title_full Single-virus genomics reveals hidden cosmopolitan and abundant viruses
title_fullStr Single-virus genomics reveals hidden cosmopolitan and abundant viruses
title_full_unstemmed Single-virus genomics reveals hidden cosmopolitan and abundant viruses
title_sort Single-virus genomics reveals hidden cosmopolitan and abundant viruses
dc.creator.none.fl_str_mv Martínez Hernández, Francisco
Fornas, Óscar
Lluesma Gómez, Mónica
Bolduc, Benjamín
De la Cruz Peña, María José
Martínez Martínez, Joaquín
Antón Ruiz, Josefa Antonia
Gasol, Josep M.
Rosselli, Riccardo
Rodríguez Valera, Francisco
Sullivan, Matthew B.
Acinas, Silvia G.
Martinez García, Manuel
author Martínez Hernández, Francisco
author_facet Martínez Hernández, Francisco
Fornas, Óscar
Lluesma Gómez, Mónica
Bolduc, Benjamín
De la Cruz Peña, María José
Martínez Martínez, Joaquín
Antón Ruiz, Josefa Antonia
Gasol, Josep M.
Rosselli, Riccardo
Rodríguez Valera, Francisco
Sullivan, Matthew B.
Acinas, Silvia G.
Martinez García, Manuel
author_role author
author2 Fornas, Óscar
Lluesma Gómez, Mónica
Bolduc, Benjamín
De la Cruz Peña, María José
Martínez Martínez, Joaquín
Antón Ruiz, Josefa Antonia
Gasol, Josep M.
Rosselli, Riccardo
Rodríguez Valera, Francisco
Sullivan, Matthew B.
Acinas, Silvia G.
Martinez García, Manuel
author2_role author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Departamentos de la UMH::Producción Vegetal y Microbiología
dc.subject.none.fl_str_mv 579 - Microbiología
topic 579 - Microbiología
description 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
publishDate 2017
dc.date.none.fl_str_mv 2017
2018
2018
2018
dc.type.none.fl_str_mv info:eu-repo/semantics/article
format article
dc.identifier.none.fl_str_mv http://hdl.handle.net/11000/4836
url http://hdl.handle.net/11000/4836
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv https://doi.org/10.1038/ncomms15892
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
13
application/pdf
dc.source.none.fl_str_mv reponame:REDIUMH. Depósito Digital de la UMH
instname:Universidad Miguel Hernández de Elche
instname_str Universidad Miguel Hernández de Elche
reponame_str REDIUMH. Depósito Digital de la UMH
collection REDIUMH. Depósito Digital de la UMH
repository.name.fl_str_mv
repository.mail.fl_str_mv
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