Incidence and genetic diversity of raspberry bushy dwarf virus (RBDV) in Rubus spp. in Turkey

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dc.authoridcaglayan, kadriye/0000-0002-4381-4149
dc.authoridOrdek, Kivilcim/0000-0002-5776-6651
dc.authoridRoumi, Vahid/0000-0002-6496-2298
dc.authoridLamovsek, Janja/0000-0001-6358-4486
dc.contributor.authorCaglayan, Kadriye
dc.contributor.authorOrdek, Kivilcim
dc.contributor.authorGazel, Mona
dc.contributor.authorElci, Eminur
dc.contributor.authorRoumi, Vahid
dc.contributor.authorLamovsek, Janja
dc.contributor.authorPlesko, Irena Mavric
dc.date.accessioned2024-09-18T20:04:33Z
dc.date.available2024-09-18T20:04:33Z
dc.date.issued2023
dc.departmentHatay Mustafa Kemal Üniversitesien_US
dc.description.abstractRaspberry bushy dwarf virus (RBDV), recently renamed to Idaeovirus rubi, is one of the most common viruses infecting Rubus species worldwide but there is still a limited number of genome sequences available in the GenBank database and the majority of the sequences include partial sequences of RNA-1 and RNA-2. The distribution and incidence of RBDV in main raspberry and blackberry growing provinces in Turkey were monitored during 2015-2019 and 537 Rubus spp. samples were tested by both DAS-ELISA and RT-PCR. Among the tested samples, 36 samples tested positive for RBDV by DAS-ELISA and 67 samples by RT-PCR. There was relatively low nucleotide diversity among the Turkish isolates. Turkish isolates shared 93%-97.7%, 84.3%-98.9%, and 85%-99.2% nucleotide sequence identities with available sequences in the GenBank, in partial RNA-1, movement protein (MP) and coat protein (CP) genes, respectively. In the phylogenetic tree constructed for RNA-1, MP, and CP sequences, all Turkish raspberry isolates were clustered in a distinct clade. However, the blackberry isolates showed considerable variation in nucleotide sequences and were placed in three distinct groups. The divergent blackberry isolates showed high variability in MP (84.5%-89.3%) and CP (85.5%-89.7%) regions and were placed in a distinct group. The rest of blackberry isolates clustered together with sweet cherry RBDV isolates adjacent to the grapevine clade or together with raspberry isolates. The comparative analysis conducted on three RNA segments of RBDV highlighted the high sequence diversity of Turkish RBDV isolates. This study also emphasizes the importance of regular monitoring of RBDV infections in Turkey, with special regard to those Rubus spp. and grapevine accessions employed in conservation and selection programmes. In particular, the presence of new RBDV genetic variants and infection of Rubus species must be taken into account to choose a correct detection protocol and management strategy.en_US
dc.description.sponsorshipJavna Agencija za Raziskovalno Dejavnost RS [P4-0072, P4-0431]; Tuerkiye Bilimsel ve Teknolojik Aras,tirma Kurumu [213O042, 221O664]en_US
dc.description.sponsorshipJavna Agencija za Raziskovalno Dejavnost RS, Grant/Award Numbers: P4-0072, P4-0431; Tuerkiye Bilimsel ve Teknolojik Aras,tirma Kurumu, Grant/Award Numbers: 213O042, 221O664en_US
dc.identifier.doi10.1111/aab.12847
dc.identifier.endpage219en_US
dc.identifier.issn0003-4746
dc.identifier.issn1744-7348
dc.identifier.issue3en_US
dc.identifier.scopus2-s2.0-85163199963en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.startpage209en_US
dc.identifier.urihttps://doi.org/10.1111/aab.12847
dc.identifier.urihttps://hdl.handle.net/20.500.12483/8245
dc.identifier.volume183en_US
dc.identifier.wosWOS:001019076600001en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.language.isoenen_US
dc.publisherWileyen_US
dc.relation.ispartofAnnals of Applied Biologyen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectblackberryen_US
dc.subjectcoat proteinen_US
dc.subjectmovement proteinen_US
dc.subjectphylogenetic analysisen_US
dc.subjectraspberryen_US
dc.subjectraspberry bushy dwarf virusen_US
dc.subjectRNA-1en_US
dc.subjectvariabilityen_US
dc.titleIncidence and genetic diversity of raspberry bushy dwarf virus (RBDV) in Rubus spp. in Turkeyen_US
dc.typeArticleen_US

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