Distribution and Genetic diversity of Prune dwarf virus (PDV) in Peach Growing Areas in Bursa and Bilecik Provinces

Abstract

Prune dwarf virus (PDV) is one of the important viral pathogens of stone fruits. In this study, PDV infection was investigated extensively for the first time in Bursa and Bilecik provinces, which have large peach production areas of Turkey. Four hundred-sixty peach leaves showing viral symptoms were subjected to DAS-ELISA test and 19 samples (%4.13) were found to be infected with PDV. As a result of RT-PCR studies, 862 bp length nucleotide sequences of the coat protein region of the virus genome were obtained and compared with reference isolates in the GenBank. Sequence comparisons showed 87.77-97.56% nucleotide identity. The genetic relationship was determined by phylogenetic analysis of Turkey and world isolates of PDV. The results of the study showed that there was no phylogenetic relationship between geographic origin and PDV isolates from different Prunus species. As a result of this study, nucleotide sequences of the coat protein regions of PDV isolates from peach were obtained for the first time in our country.

Keywords

• Bursa,Bilecik,peach,PDV,infection

Bursa ve Bilecik İlleri Şeftali Yetiştiriciliği Yapılan Alanlarda Prune dwarf virus (PDV) Yaygınlığı ve Genetik Çeşitliliği

Öz

Prune dwarf virus (PDV), sert çekirdekli meyve ağaçlarının önemli viral patojenleri arasında yer almaktadır. Bu çalışmada Türkiye’nin önemli şeftali üretiminin yapıldığı Bursa ve Bilecik illerinde ilk kapsamlı PDV enfeksiyonu araştırılmıştır. 460 viral simptom şüphesi ile toplanan şeftali yaprağı DAS-ELISA testine tabi tutulmuş ve 19 örneğin (%4.13) PDV ile enfekteli olduğu tespit edilmiştir. Yapılan RT-PCR çalışmaları sonucunda virüsün kılıf protein bölgesine ait 862 bp uzunluğunda nükleotid dizileri elde edilmiş, elde edilen diziler GenBank’ta kayıtlı Türkiye ve dünya PDV referans izolatları ile karşılaştırılmıştır. Yapılan BLASTn analizi sonucunda PDV şeftali Türkiye izolatları, referans PDV sekans verileri ile nükleotid düzeyinde %87.77-97.56 arasında benzerlik göstermiştir. Nükleotid dizi bilgisi elde edilen izolatların filogenetik analiz çalışmaları ile, dünya ve Türkiye izolatları ile ilişkisi belirlenmiştir. Araştırma bulguları coğrafik orijin ve farklı Prunus türlerinden izole edilen PDV izolatları arasında herhangi bir filogenetik ilişkinin olmadığını göstermiştir. Çalışma sonucunda ilk kez ülkemizde şeftali PDV izolatlarının kılıf protein bölgesine ait nükleotid dizileri elde edilmiştir. 

Anahtar Kelimeler

• Bursa,Bilecik,şeftali,PDV,enfeksiyon

Kaynakça

1. Çağlayan Yıldızgördü, K., & Hurigil, H. (1996). Virus Diseases of Peach Trees in Hatay Province. Journal of Turkish Phytopathology, 25, 65-69.
2. Çevik, B., Yardimci, N., & Çulal Kılıç, H. (2011). Detection of Viruses Infecting Stone Fruits in Western Mediterranean Region of Turkey. Plant Pathology Journal, 27, 44-52.
3. Gümüş, M., Paylan, I. C., Matic, S., Myrta, A., Sipahioglu, H. M., & Erkan, S. (2007). Occurrence and Distribution of Stone Fruit Viruses and Viroids In Commercial Plantings Of Prunus Species In Western Anatolia. Turkey. Journal of Plant Pathology, 89, 265-268.
4. Hadidi, A., Barba, M., Candresse, T., & Jelkmann, W. (2011). Virus and Virus-like Diseases of Pome and Stone Fruits. APS Press, USA.
5. İkinci, A., & Polat, İ. (2018). Yield and Quality Performance of Some Peach Varieties Grown Under Sanliurfa Ecological Conditions. African Journal of Agricultural Research, 13(2), 47-53.
6. Kamenova, I., Borisova, A., & Popov, A. (2019). Incidence and genetic diversity of Prune dwarf virus in sweet and sour cherry in Bulgaria. Biotechnology & Biotechnological Equipment, 33(1), 980-987.
7. Li, R., Mock, R., Huang, Q., Abad, J., Hartung, J., & Kinard, G. (2008). A reliable and inexpensive method of nucleic acid extraction for the PCR-based detection of diverse plant pathogens. Journal of Virolological. Methods, 154, 48-55.
8. Mandic, B., Matic, S., Rwahnih, M. A. L., Jelkman, W., & Myrta, A. (2007). Viruses of sweet and sour cherry in Serbia. Journal of Plant Pathology, 89, 103-108.

9. Manzoor, M., F. Anwar, N. Saari., & M. Ashraf, (2012). Variations of antioxidant characteristics and mineral contents in pulp and peel of different apple (Malus domestica Borkh.) cultivars from Pakistan. Molecules, 17(1), 390-407.
10. Mink, G. I. (1993). Pollen and seed-transmitted viruses and viroids. Annual Review of Phytopathology, 31(1), 375-402.
11. Boulila, M. (2009). Molecular characterization of an almond isolate of Prune dwarf virus in Tunisia: putative recombination breakpoints in the partial sequences of the coat protein-encoding gene in isolates from different geographic origin. Phytopathologia Mediterranea, 48(3), 411-421.
12. Myrta, A., & Savino, V. (2008). Virus and virus-like diseases of cherry in the Mediterranean Region. Acta Horticulturae, 795, 891-896.
13. Németh, M. V. (1984). Virus, Mycoplasma, and Rickettsia Diseases of Fruit Trees. M. Nijhoff/Dr. W. Junk Press, Netherlands.
14. Öztürk, Y., & Çevik, B. (2015). Genetic diversity in the coat protein genes of prune dwarf virus isolates from sweet cherry growing in Turkey. The Plant Pathology Journal, 31(1), 41-49.
15. Pallas, V., Aparicio, F., Herranz, M. C., Amari, K., Sanchez-Pina, M. A., Myrta, A., & Sanchez-Navarro, J. A. (2012). Ilarviruses of Prunus spp.: a continued concern for fruit trees. Phytopathology, 102(12), 1108-1120.
16. Predajňa, L., Sihelská, N., Benediková, D., Šoltys, K., Candresse, T., & Glasa, M. (2017). Molecular characterization of Prune dwarf virus cherry isolates from Slovakia shows their substantial variability and reveals recombination events in PDV RNA3. European Journal of Plant Pathology, 147(4), 877-885.
17. Seçmen, S., Aydın, E., Macit, İ., Soysal, D., & Demirsoy, H. (2018). Şeftalilerde merkezi lider terbiye sisteminin büyüme, verim ve kalite üzerine etkileri. Anadolu Tarım Bilimleri Dergisi, 33(1), 1-5.
18. Sutic, D. D., Ford, R. E., & Tosic, M. T. (1999). Handbook of Plant Virus Diseases. CRC Press. USA.
19. Tamura, K., Stecher, G., Peterson, D., Filipski, A., & Kumar, S. (2013). MEGA6: molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution, 30(12), 2725-2729.
20. TÜİK. (2018). Bitkisel üretim istatistikleri. https://biruni.tuik.gov.tr/medas/?kn=92&locale=tr. Erişim tarihi: 20 Aralık 2019.
21. Ulubas Serce, C., Ertunc, F. & Öztürk, A. (2009). Identification and genomic variability of Prune dwarf virus variants ınfecting stone fruit trees in Turkey. Journal of Phytopathology, 157, 298-305.
22. Ulubas, C., & Ertunc, F. (2004). RT-PCR Detection and molecular characterization of Prunus necrotic ringspot virus ısolates occurring in Turkey. Journal of Phytopathology, 152, 498-502.
23. Vašková, D., Petrzik, K., & Špak, J. (2000). Molecular variability of the capsid protein of the prune dwarf virus. European Journal of Plant Pathology, 106(6), 573-580.
24. Youssef, S. A., Shalaby, A. A., Mazyad, H. M. & Hadidi, A. (2002). Detection and identification of prune dwarf virus and plum pox virus by standard and multiplex RT-PCR probe capture hybridization (RT-PCR-ELISA). Journal of Plant Pathology, 84, 113-119.