International Journal of Innovative Approaches in Agricultural Research
Abbreviation: IJIAAR | ISSN (Online): 2602-4772 | DOI: 10.29329/ijiaar

Original article    |    Open Access
International Journal of Innovative Approaches in Agricultural Research 2022, Vol. 6(2) 90-102

Detection and the Prevalence of Prune Dwarf Virus (PDV) in Important Cherry Plantations of the Eastern Mediterranean Region by DAS-ELISA and RT-PCR Analyzes

Peli̇n Gündoğan, Mona Gazel & Kadri̇ye Çağlayan

pp. 90 - 102   |  DOI: https://doi.org/10.29329/ijiaar.2022.451.3

Published online: June 30, 2022  |   Number of Views: 71  |  Number of Download: 71


Abstract

In this study, the prevalence of PDV, which infects cherry (Prunus avium L.) trees and is among the important viral pathogens in Adana, Kahramanmaraş and Osmaniye provinces where cherry is extensively produced in the Eastern Mediterranean region of Turkey, was investigated. A total of 173 cherry leaf samples with and without symptoms collected from Adana, Kahramanmaraş and Osmaniye provinces were tested by DAS-ELISA and RT-PCR methods. PDV was not detected in all samples tested by the DAS-ELISA method. As a result of the tests performed with RT-PCR, 874 bp long nucleotide sequences belonging to the coat protein gene region of the 15 samples were obtained and found positive. After the sequences were obtained, they were compared with the sequences from Turkey and the sequences of PDV reference isolates registered in GenBank. As a result of BLASTn analysis, it was determined that the Turkish PDV cherry isolates showed similarity between 89.58-99.32% at the nucleotide level with the PDV reference sequence. Phylogenetic analysis of the nucleotide sequences of the obtained isolates was performed and their relationship with PDV cherry isolates in the world and Turkey was determined.

Keywords: Prunus avium L., cherry, DAS-ELISA, RT-PCR, PDV, Sequence analysis


How to Cite this Article

APA 6th edition
Gundogan, P., Gazel, M. & Caglayan, K. (2022). Detection and the Prevalence of Prune Dwarf Virus (PDV) in Important Cherry Plantations of the Eastern Mediterranean Region by DAS-ELISA and RT-PCR Analyzes . International Journal of Innovative Approaches in Agricultural Research, 6(2), 90-102. doi: 10.29329/ijiaar.2022.451.3

Harvard
Gundogan, P., Gazel, M. and Caglayan, K. (2022). Detection and the Prevalence of Prune Dwarf Virus (PDV) in Important Cherry Plantations of the Eastern Mediterranean Region by DAS-ELISA and RT-PCR Analyzes . International Journal of Innovative Approaches in Agricultural Research, 6(2), pp. 90-102.

Chicago 16th edition
Gundogan, Peli̇n, Mona Gazel and Kadri̇ye Caglayan (2022). "Detection and the Prevalence of Prune Dwarf Virus (PDV) in Important Cherry Plantations of the Eastern Mediterranean Region by DAS-ELISA and RT-PCR Analyzes ". International Journal of Innovative Approaches in Agricultural Research 6 (2):90-102. doi:10.29329/ijiaar.2022.451.3.

References
  1. Anonymous (2022). Turkish Statistical Institute (TUIK). Crop Production Data. (www.tuik.gov.tr) (Access date: 24.03.2022) [Google Scholar]
  2. Azeri, T. (1994). Detection of virus diseases of stone fruits in Aegean region of Turkey.   Proceedings of 9th Congress of Mediterranean Phytopathological Union. p 511-513. Kuşadası, Aydın. [Google Scholar]
  3. Borisova, A., Kamenova, I., Borovinova, M. (2013). Viral and fungal diseases of stone fruit species in Kyustendil region. Journal of Mountain Agriculture on the Balkans, vol. 16, 1, 164-182. [Google Scholar]
  4. Boulila, M. (2010). Molecular characterization of an almond isolate of Prune dwarf virus in Tunisia: putative recombination breakpoints in the partial sequences of the coat proteinencoding gene in isolates from different geographic origin. Phytopathol. Mediterr. 48:411-421. [Google Scholar]
  5. Brunt, H.A., Crabtree, K., Dallawitz, M.J., Gibbs, A.J., Watson, L. (1996). Viruses of plants. CAB Internation, Wallingford. [Google Scholar]
  6. Clark, M.F., Adams, A.N. (1977). Characteristics of the microplate method of Enzyme Linked Immunosorbent Assay for the detection of plant viruses. Journal of General Virology, 34, 475-48. [Google Scholar]
  7. Clark, M.F. (1981). Immunosorbent assay plant pathology. Annu. Rev. Phytopathol. 19: 83-106. [Google Scholar]
  8. Gazel, M., Çağlayan, K. (1998). Diagnosis of virus diseases in Prunus species of Hatay region by ELISA and biological methods. Turkey 8th Phytopathology Congress. Ankara University, Faculty of Agriculture, Department of Plant Protection, Ankara, 322-325. (In Turkish) [Google Scholar]
  9. Çağlayan Yıldızgördü, K., Hurigil, M. (1996). Virus Diseases of Peach Trees in Hatay Province. The Journal of Turkish Phytopathology, 25 (1-2), 65-69. [Google Scholar]
  10. Çağlayan, K., Gazel, M., Ulubaş, Ç. (2008). Phytosanitary Status Of Cherry Trees In The East Mediterranean Region Of Turkey. V. International Cherry Symposium. ActaHorticulture,795,919-924. [Google Scholar]
  11. Çağlayan, K., Ulubaş, Ç., Gazel, M., Kaya, K., Cengiz, F.C. (2011). Preliminary Findings on the Epidemiology of Plum Pox in Nutmeg Orchards. Turkey 4th Plant Protection Congress Proceedings, KSU, FP 106, 496s, Kahramanmaraş. (In Turkish) [Google Scholar]
  12. Dunez, J. (1988). Situation of Virus and Virus Like Diseases of Stone Fruits in the Mediterranean and Near East Region, 227-276. [Google Scholar]
  13. Fidan, Ü., Özdemir, S. (2000). Determination of viruses in cherry trees by DAS-ELISA. Plant Protection Research Institute, Bornova/İzmir. Final report Project Code No: BS/97/06/09/113. (In Turkish) [Google Scholar]
  14. Fulton, R. W. (1985). Prune dwarf virus. In: ICTVdB- The Universal Virus Database, version 3. ICTVdB Management, Columbia University, New York. [Google Scholar]
  15. Gazel, M., Tunç, B., Çağlayan, K. (2018). Detection and characterization of viruses that cause wood tissue deformation (Rugose Wood) in the vineyard areas of Hatay and Tekirdağ provinces by serological and molecular methods. Journal of Mustafa Kemal University Faculty of Agriculture 23: 181-187. (In Turkish) [Google Scholar]
  16. Herranz, M. C., Sanchez-Navarro, J. A., Aparicio, F. and Pallas, V. (2005). Simultaneous detection of six stone fruit viruses by non-isotopic molecular hybridization using a unique riboprobe or ‘polyprobe’. J. Virol. Methods 124:49-55. [Google Scholar]
  17. 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. [Google Scholar]
  18. Kara, Z., Dağ, B., Yorgancılar, M. (2012). Determination of the Potentials of Agricultural Products Produced in Doğanhisar District, Especially Lupine. Mevlana Development Agency, Konya. (In Turkish) [Google Scholar]
  19. Kunze, L. (1988). European Handbook of Plant Diseases, Blackwell Scientific Publications, Oxford. 15-17 pp. [Google Scholar]
  20. 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. [Google Scholar]
  21. Morante-Carriel J., Selles-Marchart S., Martínez-Márquez A., JoséMartínez-Esteso M., Luque I.,  Bru-Martínez R. (2014). RNA isolation from loquat and other recalcitrant woody plants with high quality and yield. Analytical Biochemistry, Volume 452, Pages 46-53. [Google Scholar]
  22. Muhire, B. M., Varsani, A. ve Martin, D. P. (2014). SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS ONE, 9(9), e108277. [Google Scholar]
  23. Myrta, A., Savino, V. (2008). Virus And Virus-Lıke Diseases Of Cherry In The Mediterranean Region. Acta Horticulturae V. International Cherry Symposium, 795, 891-896. [Google Scholar]
  24. Nemeth, M. (1986). Virus, Mycoplasma and Rickettsia Diseases of Fruit Trees. Martinus Nijhoff Publishers, Dordrecht, The Netherlands, 47 p. [Google Scholar]
  25. Nyland, G., Gilmer, R.M., Moore, J.D. (1976). Prunus Ringspot Group, In: Virus Diseases and Noninfectious Disorders of Stone Fruits in North America. U.S. Dep. Agric. Handb, pp 104-132 . [Google Scholar]
  26. Öztürk Y., Çevik B. (2015). Genetic Diversity in the Coat Protein Genes of Prune dwarf virus Isolates from Sweet Cherry Growing in Turkey. Plant Pathol J. 2015 Mar; 31(1): 41–49. [Google Scholar]
  27. Öztürk, Y., Çevik, B., Kaymak, S. (2011). Detection of Plum dwarf virus (Prune dwarf virus, PDV) by Serological and Molecular Methods and Determination of Coat Protein Gene Sequences in Cherry Production Areas in Isparta Province. Proceedings of the 4th Plant Protection Congress of Turkey, 28-30June 2011, Kahramanmaraş, p.399. (In Turkish) [Google Scholar]
  28. Paylan, I. C. (2006). Research on the Determination of Virus Diseases in Cherry Production Areas in Izmir Province. Ege University Institute of Science and Technology, Master Thesis, 73s, İzmir. (In Turkish) [Google Scholar]
  29. Sánchez-Navarro, J. A., Aparicio, F., Rowhani, A., Pallás, V. (1998). Comparative analysis of ELISA, nonradioactive molecular hybridization and PCR for the detection of prunus necrotic ringspot virus in herbaceous and Prunus hosts. Plant Pathology, 47(6), 780-786. [Google Scholar]
  30. Sipahioğlu, H.M., Demir, S., Polat, B., Akköprü, A., Usta, M. (2004). Viral and Fungal Disease Factors Detected in Fruit Trees Cultivated in Van and its Surroundings. Yuzuncu Yıl University Journal of Agricultural Sciences, 14(2),133-139. (In Turkish) [Google Scholar]
  31. Smith, I. M., Dunez J., Phillips, D. H., Lelliot, R. A., Archer, S. A. (1998). European Handbook of Plant Diseases. Blackwell Scientific Pupl., 583 p. [Google Scholar]
  32. Tamura, K., Stecher, G., Kumar, S. (2021). MEGA11: Molecular Evolutionary Genetics Analysis Version 11. Molecular Biology and Evolution, Volume 38, Issue 7, July 2021, Pages 3022–3027.  [Google Scholar]
  33. Ulubaş Serçe, Ç., Candresse, T., Svanella-Dumas, L., Krizbai, L., Gazel, M., Çağlayan, K. (2009b). Further characterization of a new recombinant group of Plum pox virus isolates, PPV-T, found in orchards in the Ankara province of Turkey. Virus Research, 142(1-2), 121-126. [Google Scholar]
  34. Ulubaş Serçe, Ç., Ertunç, F., Oztürk, A. (2009a). Identification and genomic variability of Prune dwarf virus variants infecting stone fruit trees in Turkey. Journal of phytopathology, 157(5), 298-305. [Google Scholar]
  35. Ulubaş, Ç. (2003). Diagnosis and characterization of Ilarviruses infecting stone fruit trees by RT-PCR. Ankara University Institute of Science and Technology, PhD thesis, 95s, Ankara. (In Turkish) [Google Scholar]
  36. Uzunoğulları, N., Akçay, M. (2012). Investigation of Prune dwarf virus (Prune dwarf ilarvirus, PDV) that causes infection in cherry orchards in Bilecik and Bursa provinces. Plant Protection Bulletin, 52 (4), 367-374. (In Turkish) [Google Scholar]
  37. Vaskova, D., Petrzik, K., Karesova, R. (2000). Variability and molecular typing of the woody-tree infecting PNRSV. Archives Virology, 145, 699-709. [Google Scholar]