Molecular analysis of prune dwarf virus reveals divergence within non-Turkish and Turkish viral populations
Yükleniyor...
Tarih
2023
Dergi Başlığı
Dergi ISSN
Cilt Başlığı
Yayıncı
Springer
Erişim Hakkı
info:eu-repo/semantics/closedAccess
Özet
Prune 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.
Açıklama
AIS 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.
Anahtar Kelimeler
Identity Percentages, Ilarvirus, Genetic Linkage, Molecular Variation, Population Structure, Selection Pressure
Kaynak
Journal of Plant Pathology
WoS Q Değeri
Q2
Scopus Q Değeri
Q2
Cilt
Sayı
Künye
Santosa, 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.
