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http://dx.doi.org/10.5423/PPJ.OA.07.2014.0063

Genetic Diversity in the Coat Protein Genes of Prune dwarf virus Isolates from Sweet Cherry Growing in Turkey  

Ozturk, Yusuf (Ministry of Food Agriculture and Livestock, Egirdir Fruit Research Station)
Cevik, Bayram (Department of Plant Protection, Faculty of Agriculture, Suleyman Demirel University)
Publication Information
The Plant Pathology Journal / v.31, no.1, 2015 , pp. 41-49 More about this Journal
Abstract
Sweet cherry is an important fruit crop with increasing economical value in Turkey and the world. A number of viruses cause diseases and economical losses in sweet cherry. Prune dwarf virus (PDV), is one of the most common viruses of stone fruits including sweet cherry in the world. In this study, PDV was detected from 316 of 521 sweet cherry samples collected from 142 orchards in 10 districts of Isparta province of Turkey by double antibody sandwich-enzyme linked immunosorbent assay (DAS-ELISA). The presence of PDV in ELISA positive samples was confirmed in 37 isolates by reverse transcription- polymerase chain reaction (RT-PCR) method. A genomic region of 862 bp containing the coat protein (CP) gene of PDV was re-amplified from 21 selected isolates by RT-PCR. Amplified DNA fragments of these isolates were purified and sequenced for molecular characterization and determining genetic diversity of PDV. Sequence comparisons showed 84-99% to 81-100% sequence identity at nucleotide and amino acid level, respectively, of the CP genes of PDV isolates from Isparta and other parts of the world. Phylogenetic analyses of the CP genes of PDV isolates from different geographical origins and diverse hosts revealed that PDV isolates formed different phylogenetic groups. While isolates were not grouped solely based on their geographical origins or hosts, some association between phylogenetic groups and geographical origins or hosts were observed.
Keywords
coat protein gene; Prune dwarf virus (PDV); phylogenetic analysis; sequencing; sweet cherry;
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1 Anonymous, 2014. http://faostat.fao.org
2 Aneliya, B. 2005. Preliminary Results of The Study on The Spread Of Apple Chlorotic Leaf Spot Virus (ACLSV) In Different Fruit Tree Species In Kyustendil Region of Bulgaria. Not. Bot. Horti. Agrobo. 33:82-86.
3 Akbas, B., Degirmenci, K., Ciftci, O., Kaya, A., Yurtmen, M., Uzunogullari, N., Celik, N. and Turkolmez, S. 2011. Update on Plumpox virus distribution in Turkey. Phytopathol. Mediterr. 50:75-83.
4 Brunt, H. A., Crabtree, K., Dallawitz, M. J., Gibbs, A. J. and Watson, L. 1996. Viruses of plants. CAB International, Cambridge, UK.
5 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.
6 Boom, R., Sol, C. J. A., Salimans, M. M. M., Jansen, C. L., Wertheim Van Dillen, P. M. E. and Van Der Noordaa, J. 1990. Rapid and Simple Method for Purification of Nucleic Acids. J. Clin. Microbiol. 28:495-503.
7 Clark, M. F. and Adams, A. N. 1977. Characteristics of the micro plate method of Enzyme Linked Immunosorbent Assay for the detection of plant viruses. J. Gen. Virol. 34:475-48.   DOI   ScienceOn
8 Caglayan Yildizgordu, K. and Hurigil, H. 1996. Virus Diseases of Peach Trees in Hatay Province. J. Turk. Phytopathol. 25:65-69.
9 Cevik, B., Yardimci, N. and Culal Kilic, H. 2011. Detection of Viruses Infecting Stone Fruits in Western Mediterranean Region of Turkey. Plant Pathol. J. 27:44-52.   DOI   ScienceOn
10 Diekmann, M. and Putter, C. A. J. 1996. FAO/IPGRI technical guidelines for the safe movement of germplasm. In: Stone fruits, eds. by M. Diekmann, pp. 109-111. C. A. J. FAO Publication Division, Rome, Italy.
11 Elibuyuk, I. O. 2003. Natural Spread of Plum Pox Virus in Ankara, Turkey. J. Phytopathol. 151:617-619.   DOI   ScienceOn
12 Ismaeil, F., Myrta, A., Abou Ghanem-Sabanadzovic, N., Al Chaabi, S., Chik Darwich, A. and Savino, V. 2003. Viruses of Stone Fruit Trees in Syria. In: Virus and virus-like diseases of stone fruits, with particular reference to the Mediterranean region, eds. by A. Myrta, B. Di Terlizzi, V. Savino, pp. 37-38. Options Mediterraneennes, Bari, Italy.
13 Fonseca, F., Neto, J. D., Martins, V. and Nolasco, G. 2005. Genomic variability of Prune dwarf virus as affected by agricultural practice. Arch. Virol. 150:1607-1619.   DOI
14 Gumus, M., Paylan, I. C., Matic, S., Myrta, A., Sipahioglu, H. M. and Erkan, S. 2007. Occurrence and Distribution of Stone Fruit Viruses and Viroids In Commercial Plantings Of Prunus Species In Western Anatolia, Turkey. J. Plant Pathol. 89:265-268.
15 Halk, E. L. and Fulton, R. W. 1978. Stabilization and particle morphology of prune dwarf virus. Virology. 91:434-443.   DOI   ScienceOn
16 Kunze, L. 1988. Prune dwarf virus (PDV). In: European handbook of plant diseases, eds. by I.M. Smith, J. Dunez, R.A. Lelliott, D.H. Phillips and S.A. Archer, pp. 15-17. Blackwell Scientific Publications, Oxford, UK.
17 Li, R., Mock, R., Huang, Q., Abad, J., Hartung, J. and Kinard, G. 2008. A reliable and inexpensive method of nucleic acid extraction for the PCR-based detection of diverse plant pathogens. J. Virol. Methods. 154:48-55.   DOI   ScienceOn
18 Mandic, B., Matic, S., Rwahnih, M. A. L., Jelkman, W. and Myrta, A. 2007. Viruses of Sweet and Sour Cherry in Serbia. J. Plant Pathol. 89:103-108.
19 Myrta, A. and Savino, V. 2008. Virus and Virus-Like Diseases Of Cherry In The Mediterranean Region. Acta Hortic. 795:891-896.
20 Myrta, A., Di Terlizzi, B., Savino, V. and Martelli, G. P. 2003. Virus diseases affecting the Mediterranean stone fruit industry: a decade of surveys. In: Virus and virus-like diseases of stone fruits, with particular reference to the Mediterranean region, eds. by A. Myrta, B. Di Terlizzi, V. Savino, pp. 15-23. Options Mediterraneennes, Bari, Italy.
21 Nemeth, M. 1986. Virus, Mycoplasma and Rickettsia Diseases of Fruit Trees. Martinus Nijhoff Publishers, Dordrecht, The Netherlands, 840 pp.
22 Rampitsch, C. and Eastwell, K. C. 1997. The complete sequence of prune dwarf ilarvirus RNA 1. Arch. Virol. 142:1911-1918.   DOI   ScienceOn
23 Rott, M. E. and Jelkman, W. 2001. Characterization and Detection of Several Filamentous Viruses of Cherry: Adaption of an Alternative Cloning Method (DOP-PCR), and Modification of an RNA Extraction Protocol. Eur. J. Plant Pathol. 107: 411-420.   DOI   ScienceOn
24 Sertkaya, G., Caglayan, K. and Ulubas, C. 2004. Detection of Some Viruses of Stone Fruits In Mother Plant Blocks In Eastern Mediterranean Region Of Turkey. Acta Hortic. 657:127-132.
25 Sipahioglu, H. M., Myrta, A., Abou-Ghanem, N., Di Terlizzi, B. and Savino, V. 1999. Sanitary status of stone-fruit trees in East Anatolia (Turkey) with particular reference to apricot. EPPO Bull. 29:439-442.   DOI   ScienceOn
26 Sipahioglu, H. M., Usta, M. and Ocak, M. 2006. Use of dried high-phenolic laden host leaves for virus and viroid preservation and detection by PCR methods. J. Virol. Methods. 137:120-124.   DOI   ScienceOn
27 Vaskova, D., Petrzik, K. and Spak, J. 2000. Molecular variability of the capsid protein of the prune dwarf virus. Eur. J. Plant Pathol. 106:573-580.   DOI   ScienceOn
28 Sutic, D. D., Ford, R. E. and Tosic, M. T. 1999. Virus diseases of fruit trees, In: Handbook of plant virus diseases, CRC Press, Boca Raton, FL, USA.
29 Ulubas, C. and Ertunc, F. 2004. RT-PCR Detection and Molecular Characterization of Prunus necrotic ringspot virus Isolates Occurring in Turkey. J. Phytopathol. 152:498-502.   DOI   ScienceOn
30 Ulubas Serce, C., Ertunc, F. and Ozturk, A. 2009. Identification and Genomic Variability of Prune dwarf virus Variants Infecting Stone Fruit Trees in Turkey. J. Phytopathol. 157:298-305.   DOI   ScienceOn
31 Youssef, S. A., Shalaby, A. A., Mazyad, H. M. and 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). J. Plant Pathol. 84:113-119.