Molecular analysis of prune dwarf virus reveals divergence within non-Turkish and Turkish viral populations

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dc.authorid0000-0002-5836-8030en_US
dc.contributor.authorSantosa, Adyatma Irawan
dc.contributor.authorÇelik, Ali
dc.contributor.authorGlasa, Miroslav
dc.contributor.authorSerçe, Çiğdem Ulubaş
dc.contributor.authorErtunç, Filiz
dc.date.accessioned2023-08-11T09:03:57Z
dc.date.available2023-08-11T09:03:57Z
dc.date.issued2023en_US
dc.departmentBAİBÜ, Ziraat Fakültesi, Bitki Koruma Bölümüen_US
dc.descriptionAIS was supported by the grant (3612/UN1/PN/PN/PT.01.03/2022) from the Faculty of Agriculture, Universitas Gadjah Mada. MG was supported by the grant (VEGA 2/0030/20) from the Scientific Grant Agency of the Ministry of Education and Slovak Academy of Sciences.en_US
dc.description.abstractPrune dwarf virus (PDV) infection affects the production of stone fruits (Prunus spp.) around the world, including in Turkey. In this study, we analyzed the available nucleotide (nt) and amino acid (aa) sequences of P1, P2, movement protein (MP), and coat protein (CP) genes to assess the molecular variability and structure of non-Turkish and Turkish PDV populations. Global isolates were clustered into three major groups in nt-based phylogenetic trees of MP and CP. Comparison of geographically different isolates showed that the MP aa sequences were more conserved than the CP aa sequences. The major aa changes in MP and CP showed the most effect on group 3 isolates. MP and CP-based analyses revealed the lowest number of variable sites (S), total number of mutations (eta), average number of nt differences between sequences (k), and nt diversity (per site) (pi) values in group 3 isolates, indicating high genomic similarities. The Turkish isolates manifested the highest S and eta, and the second highest k and pi values were observed in the comparison with CP, confirmed the high intra-group divergence of the Turkish isolates belonging to the three phylogroups. A stronger purifying selection pressure was observed in the MP region than in the CP region. Neutrality tests deduced negative values for all the MP and CP phylogroups and positive values for the P1, P2, Bulgarian, and Polish populations. MP and CP comparisons showed the divergence of the three phylogroups, as revealed by the results of the K-S*, K-ST*, Z*, and S-nn permutation statistical tests. The fixation index (F-ST) values suggested that non-Turkish PDV isolates had a higher genetic distance compared with Turkish isolates from group 3 and the Turkish isolates from the other two groups.en_US
dc.description.sponsorshipFaculty of Agriculture, Universitas Gadjah Mada [3612/UN1/PN/PN/PT.01.03/2022]; Scientific Grant Agency of the Ministry of Education and Slovak Academy of Sciences [VEGA 2/0030/20]en_US
dc.identifier.citationSantosa, A. I., Çelik, A., Glasa, M., Ulubaş Serçe, Ç., & Ertunç, F. (2023). Molecular analysis of prune dwarf virus reveals divergence within non-Turkish and Turkish viral populations. Journal of Plant Pathology, 1-12.en_US
dc.identifier.doi10.1007/s42161-023-01412-2
dc.identifier.issn1125-4653
dc.identifier.issn2239-7264
dc.identifier.scopus2-s2.0-85160637203en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.urihttp://dx.doi.org/10.1007/s42161-023-01412-2
dc.identifier.urihttps://hdl.handle.net/20.500.12491/11495
dc.identifier.wosWOS:000999638100005en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.institutionauthorÇelik, Ali
dc.language.isoenen_US
dc.publisherSpringeren_US
dc.relation.ispartofJournal of Plant Pathologyen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectIdentity Percentagesen_US
dc.subjectIlarvirusen_US
dc.subjectGenetic Linkageen_US
dc.subjectMolecular Variationen_US
dc.subjectPopulation Structureen_US
dc.subjectSelection Pressureen_US
dc.titleMolecular analysis of prune dwarf virus reveals divergence within non-Turkish and Turkish viral populationsen_US
dc.typeArticleen_US

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