Estimation of the in vivo recombination rate for a plant RNA virus

Phylogenomic evidence suggested that recombination is an important evolutionary force for potyviruses, one of the larger families of plant RNA viruses. However, mixed-genotype potyvirus infections are marked by low levels of cellular coinfection, precluding template switching and recombination event...

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Detalhes bibliográficos
Autores: Tromas, Nicolas, Zwart, Mark P., Maïté, Poulain, Elena, Santiago F.
Formato: artículo
Fecha de publicación:2014
País:España
Recursos:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/93506
Acesso em linha:http://hdl.handle.net/10261/93506
Access Level:acceso abierto
Palavra-chave:experimental evolution
virus replication
Tobacco etch potyvirus
virus evolution
plant virus
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repository_id_str
spelling Estimation of the in vivo recombination rate for a plant RNA virusTromas, NicolasZwart, Mark P.Maïté, PoulainElena, Santiago F.experimental evolutionvirus replicationTobacco etch potyvirusvirus evolutionplant virusPhylogenomic evidence suggested that recombination is an important evolutionary force for potyviruses, one of the larger families of plant RNA viruses. However, mixed-genotype potyvirus infections are marked by low levels of cellular coinfection, precluding template switching and recombination events between virus genotypes during genomic RNA replication. To reconcile these conflicting observations, we evaluated the in vivo recombination rate (rg) of Tobacco etch virus (TEV; genus Potyvirus, family Potyviridae) by coinfecting plants with pairs of genotypes marked with engineered restriction sites as neutral markers. The recombination rate was then estimated using two different approaches: (i) a classical approach that assumed recombination between marked genotypes can occur in the whole virus population, rendering an estimate of rg=7.762×10-8 recombination events per nucleotide site per generation, and (ii) an alternative method that assumed recombination between marked genotypes can occur only in coinfected cells, rendering a much higher estimate of rg=3.427×10-5 recombination events per nucleotide site per generation. This last estimate is similar to the TEV mutation rate, suggesting that recombination should be at least as important as point mutation in creating variability. Finally, we compared our mutation and recombination rate estimates to those reported for animal RNA viruses. Our analysis suggested that high recombination rates may be an unavoidable consequence of selection for fast replication at the cost of low fidelity. © 2014 SGM.Peer ReviewedSociety for General Microbiology2014201420142014info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501http://hdl.handle.net/10261/93506reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglésinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/935062026-05-22T06:33:51Z
dc.title.none.fl_str_mv Estimation of the in vivo recombination rate for a plant RNA virus
title Estimation of the in vivo recombination rate for a plant RNA virus
spellingShingle Estimation of the in vivo recombination rate for a plant RNA virus
Tromas, Nicolas
experimental evolution
virus replication
Tobacco etch potyvirus
virus evolution
plant virus
title_short Estimation of the in vivo recombination rate for a plant RNA virus
title_full Estimation of the in vivo recombination rate for a plant RNA virus
title_fullStr Estimation of the in vivo recombination rate for a plant RNA virus
title_full_unstemmed Estimation of the in vivo recombination rate for a plant RNA virus
title_sort Estimation of the in vivo recombination rate for a plant RNA virus
dc.creator.none.fl_str_mv Tromas, Nicolas
Zwart, Mark P.
Maïté, Poulain
Elena, Santiago F.
author Tromas, Nicolas
author_facet Tromas, Nicolas
Zwart, Mark P.
Maïté, Poulain
Elena, Santiago F.
author_role author
author2 Zwart, Mark P.
Maïté, Poulain
Elena, Santiago F.
author2_role author
author
author
dc.subject.none.fl_str_mv experimental evolution
virus replication
Tobacco etch potyvirus
virus evolution
plant virus
topic experimental evolution
virus replication
Tobacco etch potyvirus
virus evolution
plant virus
description Phylogenomic evidence suggested that recombination is an important evolutionary force for potyviruses, one of the larger families of plant RNA viruses. However, mixed-genotype potyvirus infections are marked by low levels of cellular coinfection, precluding template switching and recombination events between virus genotypes during genomic RNA replication. To reconcile these conflicting observations, we evaluated the in vivo recombination rate (rg) of Tobacco etch virus (TEV; genus Potyvirus, family Potyviridae) by coinfecting plants with pairs of genotypes marked with engineered restriction sites as neutral markers. The recombination rate was then estimated using two different approaches: (i) a classical approach that assumed recombination between marked genotypes can occur in the whole virus population, rendering an estimate of rg=7.762×10-8 recombination events per nucleotide site per generation, and (ii) an alternative method that assumed recombination between marked genotypes can occur only in coinfected cells, rendering a much higher estimate of rg=3.427×10-5 recombination events per nucleotide site per generation. This last estimate is similar to the TEV mutation rate, suggesting that recombination should be at least as important as point mutation in creating variability. Finally, we compared our mutation and recombination rate estimates to those reported for animal RNA viruses. Our analysis suggested that high recombination rates may be an unavoidable consequence of selection for fast replication at the cost of low fidelity. © 2014 SGM.
publishDate 2014
dc.date.none.fl_str_mv 2014
2014
2014
2014
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
format article
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/93506
url http://hdl.handle.net/10261/93506
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Society for General Microbiology
publisher.none.fl_str_mv Society for General Microbiology
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15.811543

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