Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil
Autor(a) principal: | |
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Data de Publicação: | 2016 |
Outros Autores: | , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.3390/v8120330 http://hdl.handle.net/11449/159313 |
Resumo: | Citrus sudden death-associated virus (CSDaV) is a monopartite positive-sense single-stranded RNA virus that was suggested to be associated with citrus sudden death (CSD) disease in Brazil. Here, we report the first study of the genetic structure and molecular variability among 31 CSDaV isolates collected from both symptomatic and asymptomatic trees in CSD-affected areas. Analyses of partial nucleotide sequences of five domains of the CSDaV genomic RNA, including those encoding for the methyltransferase, the multi-domain region (MDR), the helicase, the RNA-dependent RNA polymerase and the coat protein, showed that the MDR coding region was the most diverse region assessed here, and a possible association between this region and virus adaption to different host or plant tissues is considered. Overall, the nucleotide diversity () was low for CSDaV isolates, but the phylogenetic analyses revealed the predominance of two main groups, one of which showed a higher association with CSD-symptomatic plants. Isolates obtained from CSD-symptomatic plants, compared to those obtained from asymptomatic plants, showed higher nucleotide diversity, nonsynonymous and synonymous substitution rates and number of amino acid changes on the coding regions located closer to the 5' end region of the genomic RNA. This work provides new insights into the genetic diversity of the CSDaV, giving support for further epidemiological studies. |
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Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazilcitrus sudden deathCSDaVplant virusMarafivirusdiversityCitrus sudden death-associated virus (CSDaV) is a monopartite positive-sense single-stranded RNA virus that was suggested to be associated with citrus sudden death (CSD) disease in Brazil. Here, we report the first study of the genetic structure and molecular variability among 31 CSDaV isolates collected from both symptomatic and asymptomatic trees in CSD-affected areas. Analyses of partial nucleotide sequences of five domains of the CSDaV genomic RNA, including those encoding for the methyltransferase, the multi-domain region (MDR), the helicase, the RNA-dependent RNA polymerase and the coat protein, showed that the MDR coding region was the most diverse region assessed here, and a possible association between this region and virus adaption to different host or plant tissues is considered. Overall, the nucleotide diversity () was low for CSDaV isolates, but the phylogenetic analyses revealed the predominance of two main groups, one of which showed a higher association with CSD-symptomatic plants. Isolates obtained from CSD-symptomatic plants, compared to those obtained from asymptomatic plants, showed higher nucleotide diversity, nonsynonymous and synonymous substitution rates and number of amino acid changes on the coding regions located closer to the 5' end region of the genomic RNA. This work provides new insights into the genetic diversity of the CSDaV, giving support for further epidemiological studies.National Institute of Science and Technology of Genomics for Citrus Improvement (INCT Citros)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Univ Estadual Paulista, Inst Biociencias Botucatu, BR-03178200 Sao Paulo, BrazilInst Agron, Ctr Citricultura Sylvio Moreira, Lab Biotecnol, BR-13490970 Cordeiropolis, SP, BrazilUniv Calif Davis, Dept Plant Pathol, Davis, CA 95616 USAUniv Estadual Paulista, Inst Biociencias Botucatu, BR-03178200 Sao Paulo, BrazilCNPq: 306230/2013-5FAPESP: 2008/57909-2Mdpi AgUniversidade Estadual Paulista (Unesp)Inst AgronUniv Calif DavisMatsumura, Emilyn Emy [UNESP]Della Coletta Filho, HelvecioDorta, Silvia de OliveiraNouri, ShahidehMachado, Marcos Antonio2018-11-26T15:37:56Z2018-11-26T15:37:56Z2016-12-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article17application/pdfhttp://dx.doi.org/10.3390/v8120330Viruses-basel. Basel: Mdpi Ag, v. 8, n. 12, 17 p., 2016.1999-4915http://hdl.handle.net/11449/15931310.3390/v8120330WOS:000392484600010WOS000392484600010.pdfWeb of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengViruses-basel1,805info:eu-repo/semantics/openAccess2023-10-10T06:08:10Zoai:repositorio.unesp.br:11449/159313Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462023-10-10T06:08:10Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil |
title |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil |
spellingShingle |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil Matsumura, Emilyn Emy [UNESP] citrus sudden death CSDaV plant virus Marafivirus diversity |
title_short |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil |
title_full |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil |
title_fullStr |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil |
title_full_unstemmed |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil |
title_sort |
Genetic Structure and Molecular Variability Analysis of Citrus sudden death-associated virus Isolates from Infected Plants Grown in Brazil |
author |
Matsumura, Emilyn Emy [UNESP] |
author_facet |
Matsumura, Emilyn Emy [UNESP] Della Coletta Filho, Helvecio Dorta, Silvia de Oliveira Nouri, Shahideh Machado, Marcos Antonio |
author_role |
author |
author2 |
Della Coletta Filho, Helvecio Dorta, Silvia de Oliveira Nouri, Shahideh Machado, Marcos Antonio |
author2_role |
author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) Inst Agron Univ Calif Davis |
dc.contributor.author.fl_str_mv |
Matsumura, Emilyn Emy [UNESP] Della Coletta Filho, Helvecio Dorta, Silvia de Oliveira Nouri, Shahideh Machado, Marcos Antonio |
dc.subject.por.fl_str_mv |
citrus sudden death CSDaV plant virus Marafivirus diversity |
topic |
citrus sudden death CSDaV plant virus Marafivirus diversity |
description |
Citrus sudden death-associated virus (CSDaV) is a monopartite positive-sense single-stranded RNA virus that was suggested to be associated with citrus sudden death (CSD) disease in Brazil. Here, we report the first study of the genetic structure and molecular variability among 31 CSDaV isolates collected from both symptomatic and asymptomatic trees in CSD-affected areas. Analyses of partial nucleotide sequences of five domains of the CSDaV genomic RNA, including those encoding for the methyltransferase, the multi-domain region (MDR), the helicase, the RNA-dependent RNA polymerase and the coat protein, showed that the MDR coding region was the most diverse region assessed here, and a possible association between this region and virus adaption to different host or plant tissues is considered. Overall, the nucleotide diversity () was low for CSDaV isolates, but the phylogenetic analyses revealed the predominance of two main groups, one of which showed a higher association with CSD-symptomatic plants. Isolates obtained from CSD-symptomatic plants, compared to those obtained from asymptomatic plants, showed higher nucleotide diversity, nonsynonymous and synonymous substitution rates and number of amino acid changes on the coding regions located closer to the 5' end region of the genomic RNA. This work provides new insights into the genetic diversity of the CSDaV, giving support for further epidemiological studies. |
publishDate |
2016 |
dc.date.none.fl_str_mv |
2016-12-01 2018-11-26T15:37:56Z 2018-11-26T15:37:56Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.3390/v8120330 Viruses-basel. Basel: Mdpi Ag, v. 8, n. 12, 17 p., 2016. 1999-4915 http://hdl.handle.net/11449/159313 10.3390/v8120330 WOS:000392484600010 WOS000392484600010.pdf |
url |
http://dx.doi.org/10.3390/v8120330 http://hdl.handle.net/11449/159313 |
identifier_str_mv |
Viruses-basel. Basel: Mdpi Ag, v. 8, n. 12, 17 p., 2016. 1999-4915 10.3390/v8120330 WOS:000392484600010 WOS000392484600010.pdf |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Viruses-basel 1,805 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
17 application/pdf |
dc.publisher.none.fl_str_mv |
Mdpi Ag |
publisher.none.fl_str_mv |
Mdpi Ag |
dc.source.none.fl_str_mv |
Web of Science reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
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1803045926415106048 |