First complete sequences and genetic variation of plum pox virus T strain in Prunus dulcis and Prunus cerasus
Yükleniyor...
Dosyalar
Tarih
2023
Dergi Başlığı
Dergi ISSN
Cilt Başlığı
Yayıncı
Springer Heidelberg
Erişim Hakkı
info:eu-repo/semantics/closedAccess
Özet
The complete genome of plum pox virus strain T isolates from five different Prunus spp., including almond (P. dulcis) and sour cherry (P. ceracus) isolates, was fully sequenced using the primer pairs designed in this study. The five isolates were aligned with other 50 PPV-T isolates whose complete genome sequences were available in GenBank and then subjected to phylogenetic and diversity analyses. Recombination analysis showed no significant signal detected in the five newly sequenced isolates while confirming four recombinant isolates reported in a previous study. Nucleotide and amino acid phylogenetic trees clustered the tested isolates into three major groups: Balkan 1, 2, and 3. Strain T isolates shared high nucleotide and amino acid identities among them. Diversity analysis applied different parameters to found that the sequences of P3 and 6K1 genes were more conserved over other genes. In accordance, the highly variable P1 and CP genes were found to experience weaker purifying pressures, ? = 0.127 and 0.219, respectively, than other genes. The three neutrality tests gave negative values to all genes, suggesting that strain T populations have expanding or bottleneck selections. Genetic make-up of the only known sour cherry isolate is highly identical to isolates from other Prunus spp. Therefore, this study has updated our knowledge of T strain diversity in new hosts and provided a clear picture of genetic variation and host relationships.
Açıklama
This study was funded by the General Directorate of Agricultural Research and Policies, Directorate of Central Plant Protection Research Institute, and the Head of Rural Service Department, Ankara Metropolitan Municipality. The authors also would like to thank the Ankara Directorate of Provincial Agriculture and Forestry and the Republic of Turkey Ministry of Agriculture and Forestry for their assistance during field surveys.
Anahtar Kelimeler
Diversity and Polymorphism Analyses, Neutrality Tests, Phylogenetic Analysis, Recombination Analysis, RT-PCR
Kaynak
3 Biotech
WoS Q Değeri
Q3
Scopus Q Değeri
Q2
Cilt
13
Sayı
10
Künye
Akbaş, B., Morca, A. F., Coşkan, S., Santosa, A. I., Çulal-Kılıç, H., & Çelik, A. (2023). First complete sequences and genetic variation of plum pox virus T strain in Prunus dulcis and Prunus cerasus. 3 Biotech, 13(10), 332.
