Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus

[EN] Populations of plant RNA viruses are highly polymorphic in infected plants, which may allow rapid within-host evolution. To understand tobacco etch potyvirus (TEV) evolution, longitudinal samples from experimentally evolved populations in the natural host tobacco and from the alternative host p...

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Autores: Cuevas, Jose M., Willemsen, A, Hillung, Julia, Zwart, Mark Peter, Elena Fito, Santiago Fco
Formato: artículo
Fecha de publicación:2015
País:España
Recursos:Universitat Politècnica de València (UPV)
Repositorio:RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia
Idioma:inglés
OAI Identifier:oai:riunet.upv.es:10251/81359
Acesso em linha:https://riunet.upv.es/handle/10251/81359
Access Level:acceso abierto
Palavra-chave:Adaptation
Experimental evolution
Evolution of virulence
Next generation sequencing
Population dynamics
Potyvirus
Virus
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network_acronym_str ES
network_name_str España
repository_id_str
dc.title.none.fl_str_mv Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
title Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
spellingShingle Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
Cuevas, Jose M.
Adaptation
Experimental evolution
Evolution of virulence
Next generation sequencing
Population dynamics
Potyvirus
Virus
title_short Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
title_full Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
title_fullStr Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
title_full_unstemmed Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
title_sort Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA Virus
dc.creator.none.fl_str_mv Cuevas, Jose M.
Willemsen, A
Hillung, Julia
Zwart, Mark Peter
Elena Fito, Santiago Fco
author Cuevas, Jose M.
author_facet Cuevas, Jose M.
Willemsen, A
Hillung, Julia
Zwart, Mark Peter
Elena Fito, Santiago Fco
author_role author
author2 Willemsen, A
Hillung, Julia
Zwart, Mark Peter
Elena Fito, Santiago Fco
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Generalitat Valenciana
Ministerio de Economía, Industria y Competitividad
European Commission
Ministerio de Ciencia e Innovación
Repositorio Institucional de la Universitat Politècnica de València Riunet
dc.subject.none.fl_str_mv Adaptation
Experimental evolution
Evolution of virulence
Next generation sequencing
Population dynamics
Potyvirus
Virus
topic Adaptation
Experimental evolution
Evolution of virulence
Next generation sequencing
Population dynamics
Potyvirus
Virus
description [EN] Populations of plant RNA viruses are highly polymorphic in infected plants, which may allow rapid within-host evolution. To understand tobacco etch potyvirus (TEV) evolution, longitudinal samples from experimentally evolved populations in the natural host tobacco and from the alternative host pepper were phenotypically characterized and genetically analyzed. Temporal and compartmental variabilities of TEV populations were quantified using high throughput Illumina sequencing and population genetic approaches. Of the two viral phenotypic traits measured, virulence increased in the novel host but decreased in the original one, and viral load decreased in both hosts, though to a lesser extent in the novel one. Dynamics of population genetic diversity were also markedly different among hosts. Population heterozygosity increased in the ancestral host, with a dominance of synonymous mutations fixed, whereas it did not change or even decreased in the new host, with an excess of nonsynonymous mutations. All together, these observations suggest that directional selection is the dominant evolutionary force in TEV populations evolving in a novel host whereas either diversifying selection or random genetic drift may play a fundamental role in the natural host. To better understand these evolutionary dynamics, we developed a computer simulation model that incorporates the effects of mutation, selection, and drift. Upon parameterization with empirical data from previous studies, model predictions matched the observed patterns, thus reinforcing our idea that the empirical patterns of mutation accumulation represent adaptive evolution.
publishDate 2015
dc.date.none.fl_str_mv 2015
2015-05-01
dc.type.none.fl_str_mv journal article
http://purl.org/coar/resource_type/c_6501
VoR
http://purl.org/coar/version/c_970fb48d4fbd8a85
dc.type.openaire.fl_str_mv info:eu-repo/semantics/article
format article
dc.identifier.none.fl_str_mv https://riunet.upv.es/handle/10251/81359
url https://riunet.upv.es/handle/10251/81359
dc.language.none.fl_str_mv Inglés
eng
language_invalid_str_mv Inglés
language eng
dc.relation.none.fl_str_mv Ministerio de Ciencia e Innovación http://dx.doi.org/10.13039/501100004837 BFU2009-06993 Biologia Evolutiva Y De Sistemas De La Emergencia De Fitovirus De Rna
European Commission https://doi.org/10.13039/501100000780 FP7 611640 Technological Evolution of Synergy Between Physicochemical and Living Systems
Ministerio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 BFU2012-30805 EVOLUTIONARY SYSTEMS VIROLOGY: EPISTASIS AND THE RUGGEDNESS OF ADAPTIVE LANDSCAPES, MUTATIONS IN REGULATORY SEQUENCES, AND THE HOST DETERMINANTS OF VIRAL FITNESS
Generalitat Valenciana https://doi.org/10.13039/501100003359 PROMETEOII%2F2014%2F021 Comparative systems biology of host-virus interactions
dc.rights.none.fl_str_mv open access
http://purl.org/coar/access_right/c_abf2
Reserva de todos los derechos
http://rightsstatements.org/vocab/InC/1.0/
dc.rights.openaire.fl_str_mv info:eu-repo/semantics/openAccess
rights_invalid_str_mv open access
http://purl.org/coar/access_right/c_abf2
Reserva de todos los derechos
http://rightsstatements.org/vocab/InC/1.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Oxford University Press (OUP)
publisher.none.fl_str_mv Oxford University Press (OUP)
dc.source.none.fl_str_mv reponame:RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia
instname:Universitat Politècnica de València (UPV)
instname_str Universitat Politècnica de València (UPV)
reponame_str RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia
collection RiuNet. Repositorio Institucional de la Universitat Politécnica de Valéncia
repository.name.fl_str_mv
repository.mail.fl_str_mv
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spelling Temporal Dynamics of Intrahost Molecular Evolution for a Plant RNA VirusCuevas, Jose M.Willemsen, AHillung, JuliaZwart, Mark PeterElena Fito, Santiago FcoAdaptationExperimental evolutionEvolution of virulenceNext generation sequencingPopulation dynamicsPotyvirusVirus[EN] Populations of plant RNA viruses are highly polymorphic in infected plants, which may allow rapid within-host evolution. To understand tobacco etch potyvirus (TEV) evolution, longitudinal samples from experimentally evolved populations in the natural host tobacco and from the alternative host pepper were phenotypically characterized and genetically analyzed. Temporal and compartmental variabilities of TEV populations were quantified using high throughput Illumina sequencing and population genetic approaches. Of the two viral phenotypic traits measured, virulence increased in the novel host but decreased in the original one, and viral load decreased in both hosts, though to a lesser extent in the novel one. Dynamics of population genetic diversity were also markedly different among hosts. Population heterozygosity increased in the ancestral host, with a dominance of synonymous mutations fixed, whereas it did not change or even decreased in the new host, with an excess of nonsynonymous mutations. All together, these observations suggest that directional selection is the dominant evolutionary force in TEV populations evolving in a novel host whereas either diversifying selection or random genetic drift may play a fundamental role in the natural host. To better understand these evolutionary dynamics, we developed a computer simulation model that incorporates the effects of mutation, selection, and drift. Upon parameterization with empirical data from previous studies, model predictions matched the observed patterns, thus reinforcing our idea that the empirical patterns of mutation accumulation represent adaptive evolution.The authors thank Francisca de la Iglesia and Paula Agudo for excellent technical assistance, our labmates for useful discussions and suggestions, and Dr Jose A. Daros for gifting us the pMTEV infectious clone. This work was supported by grants BFU2009-06993 and BFU2012-30805 from the Spanish Ministry of Economy and Competitiveness (MINECO), grant PROMETEOII/2014/021 from Generalitat Valenciana, and by the European Commission 7th Framework Programme (FP7-ICT-611640 FET Proactive: Evolving Living Technologies) EvoEvo project to S.F.E. J.M.C. was supported by a JAE-doc postdoctoral contract from CSIC. A.W. was supported by the EvoEvo project. J.H. was recipient of a predoctoral contract from MINECO. M.P.Z. was supported by a Juan de la Cierva postdoctoral contract from MINECO.Oxford University Press (OUP)Generalitat ValencianaMinisterio de Economía, Industria y CompetitividadEuropean CommissionMinisterio de Ciencia e InnovaciónRepositorio Institucional de la Universitat Politècnica de València Riunet20152015-05-01journal articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfapplication/pdfhttps://riunet.upv.es/handle/10251/81359reponame:RiuNet. Repositorio Institucional de la Universitat Politécnica de Valénciainstname:Universitat Politècnica de València (UPV)InglésengMinisterio de Ciencia e Innovación http://dx.doi.org/10.13039/501100004837 BFU2009-06993 Biologia Evolutiva Y De Sistemas De La Emergencia De Fitovirus De RnaEuropean Commission https://doi.org/10.13039/501100000780 FP7 611640 Technological Evolution of Synergy Between Physicochemical and Living SystemsMinisterio de Economía y Competitividad http://dx.doi.org/10.13039/501100003329 BFU2012-30805 EVOLUTIONARY SYSTEMS VIROLOGY: EPISTASIS AND THE RUGGEDNESS OF ADAPTIVE LANDSCAPES, MUTATIONS IN REGULATORY SEQUENCES, AND THE HOST DETERMINANTS OF VIRAL FITNESSGeneralitat Valenciana https://doi.org/10.13039/501100003359 PROMETEOII%2F2014%2F021 Comparative systems biology of host-virus interactionsopen accesshttp://purl.org/coar/access_right/c_abf2Reserva de todos los derechoshttp://rightsstatements.org/vocab/InC/1.0/info:eu-repo/semantics/openAccessoai:riunet.upv.es:10251/813592026-06-13T07:49:27Z
score 15.300719

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