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Bolu ilinde Plum pox virus’un belirlenmesi ve kısmi moleküler karakterizasyonu

Year 2020, Volume: 60 Issue: 4, 59 - 68, 31.12.2020
https://doi.org/10.16955/bitkorb.719732

Abstract

Plum pox virus (PPV), sert çekirdekli meyvelerde verim, kalite ve ekonomik kayıplara sebep olan Şarka hastalığının etmenidir. PPV, Avrupa başta olmak üzere dünya çapında tespit edilmiştir. Türkiye’de bugüne kadar yapılan çalışmalarda etmenin varlığı farklı bölgelerde sınırlı olarak tespit edilmiştir. Bolu ilinde şu ana kadar PPV’nin tespitine ilişkin herhangi bir kayıt bulunmamaktadır. Bolu ilinde 2016-2019 yılları arasında yapılan sürveyler neticesinde 306 örnek toplanmıştır. PPV’nin varlığını tespit etmek amacıyla ilk olarak DAS-ELISA ile örnekler analiz edilmiş, sadece üç adet şeftali örneğinin PPV ile enfekteli olduğu belirlenmiştir. Enfekteli örnekler daha sonra üniversal primerler (P1/P2) kullanılarak RT-PCR ile test edilmiş ve DAS-ELISA sonuçları doğrulanmıştır. Ayrıca PPV’nin ırka spesifik primerleri ile ırk düzeyinde de teşhisleri yapılmıştır. Irk düzeyinde yapılan bu teşhislerde örneklerin PPV-M (Marcus) ırkı ile enfekteli olduğu belirlenmiştir. Moleküler çalışmalar sonucunda üç izolatın kısmi kılıf protein bölgesine ait 243 nükleotidlik dizileri elde edilerek NCBI’a kaydedilmiştir. Ayrıca 38 temsili PPV sekans dizisi ile yapılan filogenetik analiz (Neighbour-Joining) sonucunda, BLAST analizinde olduğu gibi Bolu izolatlarının PPV-M izolatları ile kümelenerek diğer PPV ırklarından ayrıldığı görülmüştür. Yapılan bu çalışma ile elde edilen PPV izolatları Bolu ili için ilk kayıt niteliğindedir. Sonuç olarak, Bolu ilinde daha kapsamlı sürveylerin yapılması ve elde edilen izolatlarının tam genom dizileri elde edilerek genetik varyasyonlarının belirlenmesinin gerekliliği ortaya çıkmıştır. Enfekteli bulunan ağaçların ise tamamı imha edilmiştir.

References

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Determination and partial molecular characterization of Plum pox virus in Bolu province

Year 2020, Volume: 60 Issue: 4, 59 - 68, 31.12.2020
https://doi.org/10.16955/bitkorb.719732

Abstract

Plum pox virus (PPV), the causal agent of Sharka disease, causes yield, quality, and economic losses in stone fruits. PPV has been reported worldwide, especially in Europe. In studies to date, the presence of the virus has been identified as being restricted in different regions of Turkey. However, there is no record of PPV in Bolu province so far. Hence, surveys were carried out in Bolu province between 2016-2019, and a total of 306 samples were collected. To determine the presence of PPV, the samples were first tested by DAS-ELISA, and only three peach samples were found to be infected. DAS-ELISA results of infected samples were confirmed by RT-PCR using universal primers (P1/P2), then infected samples were identified at the strain level using strain-specific primers. The samples were found to be infected with the PPV-M (Marcus) strain and 243-bp long nucleotide sequences containing the partial coat protein gene of three isolates were deposited to NCBI. Phylogenetic analysis (Neighbor-Joining) generated by 38 representative PPV sequences indicated that Bolu isolates were clustered with PPV-M isolates and separated from other strains, as in BLAST analysis. To our knowledge, this is the first report of PPV in Bolu. This study reveals the necessity to carry out more extensive surveys to prevent the PPV dissemination in Bolu and to identify the complete genomes of the obtained isolates to determine their genetic variation. All the PPV-infected trees were destroyed as a consequence.

References

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  • Brunt A.A., Crabtree K., Dallwitz M.J., Gibbs A.J., Watson L., Zurcher E.J., 1996. Plant viruses online: descriptions and lists from the VIDE database. Version: 16th January 1997. URL http://biology. anu. edu. au/Groups/MES/vide/refs. htm.
  • Buzkan N., Öztekin V., Demir M., Onura D., Ilgın M., 2006. SEKAMER Kayısı Koleksiyon Parselindeki Ağaçlarda Virüs Hastalıklarının Saptanması ve Çözüm Yolları. KSÜ. Fen ve Mühendislik Dergisi; 9(2), 2006.
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  • Cervera M.T., Riechmann J.L., Martín M.T., García J.A., 1993. 3′-terminal sequence of the plum pox virus PS and ǒ6 isolates: Evidence for RNA recombination within the potyvirus group. Journal of General Virology, 74(3), 329-334.
  • Ceylan A., Gürcan K., Akbulut M., Ghaderi M., 2014. Kayseri’de yüksek şarka enfeksiyonu. Erciyes Üniversitesi Fen Bilimleri Enstitüsü Fen Bilimleri Dergisi, 30(2), 80-85.
  • Chirkov S., Ivanov P., Sheveleva A., 2013. Detection and partial molecular characterization of atypical Plum pox virus isolates from naturally infected sour cherry. Archives of Virology, 158(6), 1383-1387.
  • Chirkov S., Sheveleva A., Ivanov P., Zakubanskiy A., 2018. Analysis of genetic diversity of Russian sour cherry Plum pox virus isolates provides evidence of a new strain. Plant Disease 102(3), 569-575.
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  • Çelik N., Kütük B.T., 2013. Antalya ilinde şarka virüs hastalığının belirlenmesi. Derim, 30(2), 1-10.
  • Dallot S., Glasa M., Jevremovic D., Kamenova I., Paunovic S., Labonne G., 2011. Mediterranean and central-eastern European countries host viruses of two different clades of Plum pox virus strain M. Archive of Virology, 156 (3), 539–542.
  • Değirmenci K., Morca A.F., Umar S., 2016. New Infection Areas of Plum pox virus (PPV) in Turkey. 3rd International Symposium on Plum pox virus, 9-13 May 2016 Antalya-Turkey. S:37.
  • Deligöz İ., Değirmenci K., Sökmen M., 2015. Samsun İlinde Sert Çekirdekli Meyve Türlerinde Şarka Hastalığı Etmeninin (Plum pox virus) Belirlenmesi. Anadolu Tarım Bilimleri Dergisi, 30 (3), 227-235.
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  • Dunez J., 1986. Preliminary observations on virus and virus like diseases of stone fruit trees in Mediterranean and near east countries. FAO Plant Protection Bulletin, 34: 43-48.
  • Dzhuvinov V.T., Bozhkova V.B., Milusheva S.A., Gercheva P.S., 2007. Investigation of Plum Pox Virus in Bulgaria for the past 70 years. Bulgarian Journal of Agricultural Science, 13(3), 265.
  • Elibuyuk İ.Ö., 2004. Current situation of sharka disease in Ankara, Turkey. Phytoparasitica, 32 (4), 417–420.
  • Elibüyük İ.Ö., 2005. Ankara’da Şeftali Ağaçlarında Görülen Şarka Hastalığı Üzerinde Araştırmalar. Tarım Bilimleri dergisi, 11(3), 236-243.
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  • Foissac X., Svanella-Dumas L., Dulucq M.J., Candresse T., Gentit P., Clark M.F., 2001. Polyvelent detection of fruit tree tricho, capillo and foveaviruses by nested RT-PCR using degenerated and inosine containing primers (PDO RT-PCR). Acta Horticulturae 550:37-43.
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  • Glasa M., Kudela O., Marie-Jeanne V., Labonne G., Dosba F., Quiot J.B., 2001. Characterization of A Natural Recombinant Plum Pox Virus Isolate Detected ın apricot ın Slovakia. XII. International Symposium On Apricot Culture and Decline, Avignon (France) September 10-14, 2001, Organized by INRA.
  • Glasa M., Palkovics L., Komínek P., Labonne G., Pittnerová S., Kúdela O., Candresse T., Šubr Z., 2004. Geographically and temporally distant natural recombinant isolates of plum pox virus (PPV) are genetically very similar and form a unique PPV subgroup, J. Genet. Virol., 85, 2671–2681.
  • Glasa M., Candresse T., 2008. Plum pox virus, Encyclopedia of Virology, 5 vols (B.W.J. Mahy and M.H.V. Van Regenmortel, Editors), Oxford: Elsevier pp. 238-242.
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There are 73 citations in total.

Details

Primary Language English
Journal Section Makaleler
Authors

Ali Ferhan Morca 0000-0002-7480-922X

Sevgi Coşkan

Faruk Öncü 0000-0002-6180-5166

Publication Date December 31, 2020
Submission Date April 17, 2020
Acceptance Date December 9, 2020
Published in Issue Year 2020 Volume: 60 Issue: 4

Cite

APA Morca, A. F., Coşkan, S., & Öncü, F. (2020). Determination and partial molecular characterization of Plum pox virus in Bolu province. Plant Protection Bulletin, 60(4), 59-68. https://doi.org/10.16955/bitkorb.719732
AMA Morca AF, Coşkan S, Öncü F. Determination and partial molecular characterization of Plum pox virus in Bolu province. Plant Protection Bulletin. December 2020;60(4):59-68. doi:10.16955/bitkorb.719732
Chicago Morca, Ali Ferhan, Sevgi Coşkan, and Faruk Öncü. “Determination and Partial Molecular Characterization of Plum Pox Virus in Bolu Province”. Plant Protection Bulletin 60, no. 4 (December 2020): 59-68. https://doi.org/10.16955/bitkorb.719732.
EndNote Morca AF, Coşkan S, Öncü F (December 1, 2020) Determination and partial molecular characterization of Plum pox virus in Bolu province. Plant Protection Bulletin 60 4 59–68.
IEEE A. F. Morca, S. Coşkan, and F. Öncü, “Determination and partial molecular characterization of Plum pox virus in Bolu province”, Plant Protection Bulletin, vol. 60, no. 4, pp. 59–68, 2020, doi: 10.16955/bitkorb.719732.
ISNAD Morca, Ali Ferhan et al. “Determination and Partial Molecular Characterization of Plum Pox Virus in Bolu Province”. Plant Protection Bulletin 60/4 (December 2020), 59-68. https://doi.org/10.16955/bitkorb.719732.
JAMA Morca AF, Coşkan S, Öncü F. Determination and partial molecular characterization of Plum pox virus in Bolu province. Plant Protection Bulletin. 2020;60:59–68.
MLA Morca, Ali Ferhan et al. “Determination and Partial Molecular Characterization of Plum Pox Virus in Bolu Province”. Plant Protection Bulletin, vol. 60, no. 4, 2020, pp. 59-68, doi:10.16955/bitkorb.719732.
Vancouver Morca AF, Coşkan S, Öncü F. Determination and partial molecular characterization of Plum pox virus in Bolu province. Plant Protection Bulletin. 2020;60(4):59-68.

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