Phylogenetic and diversity analyses revealed that leek yellow stripe virus population consists of three types: S, L, and N

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dc.authorid0000-0002-4503-6344en_US
dc.authorid0000-0001-8227-3800en_US
dc.authorscopusid57206185072en_US
dc.authorscopusid23568179900en_US
dc.authorwosidAAC-3194-2022en_US
dc.authorwosid-en_US
dc.contributor.authorSantosa, Adyatma Irawan
dc.contributor.authorRanda-Zelyut, Filiz
dc.contributor.authorKaranfil, Ali
dc.contributor.authorKorkmaz, Savaş
dc.contributor.authorHartono, Sedyo
dc.contributor.authorErtunç, Filiz
dc.date.accessioned2023-09-07T06:11:38Z
dc.date.available2023-09-07T06:11:38Z
dc.date.issued2023en_US
dc.departmentFakülteler, Ziraat Fakültesi, Bitki Koruma Bölümü
dc.description.abstractPhylogenetic and evolutionary analyses were performed on the P1 and CP genes of global isolates to clarify the phylogrouping of leek yellow stripe virus (LYSV, genus Potyvirus), a pathogen affecting Allium spp. worldwide, into different types based on genetic variation and host species. The constructed phylogenetic trees divided the isolates into three major groups: S, L, and N. Low nucleotide (nt) and amino acid (aa) percent identities among the three groups were observed on full ORF (75.4–99.0 and 79.1–99.0), P1 (59.1–98.3 and 36.8–98.3), and CP (76.6–100 and 75.7–100) coding regions. The dN/dS values of P1 and CP confirmed that both genes are under strong negative (purifying) selection pressure. Neutrality tests on Eastern Asian isolates suggested that the ancestors of current LYSV isolates evolved with garlic while they were in Asia before spreading to other world regions through garlic propagative materials. Genetic differentiation and gene flow analysis showed extremely frequent gene flow from S group to L and N groups, and these phylogroups differentiated from each other over time. Host differences, inconsistent serological test results, substantial nt and aa variation, and phylogenetic and diversity analyses in this study supported previous reports that LYSV can be separated into three major evolutionary lineages: S, L, and N types.en_US
dc.identifier.citationSantosa, A. I., Randa-Zelyüt, F., Karanfil, A., Korkmaz, S., Hartono, S., & Ertunç, F. (2023). Phylogenetic and diversity analyses revealed that leek yellow stripe virus population consists of three types: S, L, and N. Virus Genes, 59(1), 121–131. https://doi.org/10.1007/s11262-022-01956-yen_US
dc.identifier.doi10.1007/s11262-022-01956-y
dc.identifier.endpage131en_US
dc.identifier.issn0920-8569
dc.identifier.issn1572-994X
dc.identifier.issue1en_US
dc.identifier.pmid36346570
dc.identifier.scopus2-s2.0-85141520767
dc.identifier.startpage121en_US
dc.identifier.urihttps://doi.org/10.1007/s11262-022-01956-y
dc.identifier.urihttps://hdl.handle.net/20.500.12428/4527
dc.identifier.volume59en_US
dc.identifier.wosWOS:000880236200001
dc.identifier.wosqualityQ4
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.institutionauthorKaranfil, Ali
dc.institutionauthorKorkmaz, Savaş
dc.language.isoen
dc.publisherSpringeren_US
dc.relation.ispartofVirus Genesen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectDiversity analysisen_US
dc.subjectMolecular identificationen_US
dc.subjectPhylogenetic analysisen_US
dc.subjectPopulation studyen_US
dc.subjectSelection pressureen_US
dc.titlePhylogenetic and diversity analyses revealed that leek yellow stripe virus population consists of three types: S, L, and N
dc.typeArticle

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