Molecular analysis of the global population of potato virus S redefines its phylogeny, and has crop biosecurity implications

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dc.authorid0000-0002-0095-474X
dc.authorid0000-0002-5836-8030
dc.authorid0000-0002-2826-5444
dc.authorid0000-0003-3593-3102
dc.contributor.authorTopkaya, Şerife
dc.contributor.authorÇelik, Ali
dc.contributor.authorSantosa, Adyatma Irawan
dc.contributor.authorJones, Roger A. C.
dc.date.accessioned2023-08-17T11:50:45Z
dc.date.available2023-08-17T11:50:45Z
dc.date.issued2023en_US
dc.departmentBAİBÜ, Ziraat Fakültesi, Bitki Koruma Bölümüen_US
dc.descriptionTokat Gaziosmanpasa University provided funding for sample collection, testing and virus sequencing. This research received no external funding.en_US
dc.description.abstractIn 2020, 264 samples were collected from potato fields in the Turkish provinces of Bolu, Afyon, Kayseri and Nigde. RT-PCR tests, with primers which amplified its coat protein (CP), detected potato virus S (PVS) in 35 samples. Complete CP sequences were obtained from 14 samples. Phylogenetic analysis using non-recombinant sequences of (i) the 14 CP's, another 8 from Tokat province and 73 others from GenBank; and (ii) 130 complete ORF, RdRp and TGB sequences from GenBank, found that they fitted within phylogroups, PVSI, PVSII or PVSIII. All Turkish CP sequences were in PVSI, clustering within five subclades. Subclades 1 and 4 were in three to four provinces, whereas 2, 3 and 5 were in one province each. All four genome regions were under strong negative selection constraints (? = 0.0603-0.1825). Considerable genetic variation existed amongst PVSI and PVSII isolates. Three neutrality test methods showed PVSIII remained balanced whilst PVSI and PVSII underwent population expansion. The high fixation index values assigned to all PVSI, PVSII and PVSIII comparisons supported subdivision into three phylogroups. As it spreads more readily by aphid and contact transmission, and may elicit more severe symptoms in potato, PVSII spread constitutes a biosecurity threat for countries still free from it.en_US
dc.description.sponsorshipTokat Gaziosmanpasa Universityen_US
dc.identifier.citationTopkaya, Ş., Çelik, A., Santosa, A. I., & Jones, R. A. (2023). Molecular analysis of the global population of potato virus S redefines its phylogeny, and has crop biosecurity implications. Viruses, 15(5), 1104.en_US
dc.identifier.doi10.3390/v15051104
dc.identifier.endpage19en_US
dc.identifier.issn1999-4915
dc.identifier.issue5en_US
dc.identifier.pmid37243190en_US
dc.identifier.scopus2-s2.0-85160372718en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.startpage1en_US
dc.identifier.urihttp://dx.doi.org/10.3390/v15051104
dc.identifier.urihttps://hdl.handle.net/20.500.12491/11566
dc.identifier.volume15en_US
dc.identifier.wosWOS:000997778300001en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.institutionauthorÇelik, Ali
dc.language.isoenen_US
dc.publisherMDPIen_US
dc.relation.ispartofViruses-Baselen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectPotatoen_US
dc.subjectPVSen_US
dc.subjectTurkish Provincesen_US
dc.subjectAndean Strainen_US
dc.subjectSequenceen_US
dc.subjectDNAen_US
dc.titleMolecular analysis of the global population of potato virus S redefines its phylogeny, and has crop biosecurity implicationsen_US
dc.typeArticleen_US

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