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Molecular analysis of the complete genome of an unusual virus detected in sweet cherry (Prunus avium) in Bulgaria

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Abstract

A new bi-cistronic virus, tentatively named Cherry virus Trakiya (CVT), likely belonging to the order Picornavirales was detected by next-generation sequencing (NGS) analysis of total RNA extracts from symptomatic (stunting, abnormal buds, leaf abnormality and fruit reduction) sweet cherry growing in the Southern Central region of Bulgaria. The CVT genome consists of 8614 nucleotides (nts), excluding a poly(A) tail at the 3′ end. The genome encodes two open reading frames (ORFs) with non-coding regions (NCRs) at the 5′-, the 3′- end and an intergenic NCR. ORF1 encodes the putative coat protein (CP) consisting of 802 deduced amino acid (aa) residues with a predicted Mr of 88 kDa. ORF2 encodes the putative replicase complex and consists of 1843 aa, Mr 210 kDa. Within the replicase complex conserved domains for helicase and for the RNA-dependent RNA polymerase (RDRP) were identified including the signature GDD motif associated with the polymerase. A reverse transcription - polymerase chain reaction (RT-PCR) test targeting the CP coding region with primers BUC-1657F/BUC-2095R was developed (443 bp product), validated and used to screen healthy controls and infected samples. The virus was detected in leaves from symptomatic cherry trees and also in young fruits from symptomatic trees. Up to now the virus was never detected in any asymptomatic cherry trees. Previously no detection of this unusual virus in sweet cherry has been reported and no definitive association of CVT with any disease has been established.

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Acknowledgements

The research conducted in the lab of Dr. Delano James was supported by funding from the Canadian Food Inspection Agency’s Plant Research and Strategies Technology Development Program. The part of study, carried out in the Laboratory of Virology of Fruit Growing Institute-Plovdiv, Bulgaria, was partially supported by Agriculture Academy of Bulgaria, contract POZM 215/2016 “Early decline of the fruit trees – aetiology, factors and possibility of control”.

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Authors and Affiliations

  1. Department of Plant Protection, Laboratory of Virology, Fruit Growing Institute, 12 Ostromila str., 4004, Plovdiv, Bulgaria

    Snezhana Milusheva

  2. Sidney Laboratory – Centre for Plant Health, Candian Food Inspection Agency, North Saanich, British Columbia, Canada

    James Phelan & Delano James

  3. Faculty of Plant Protection, Department of Phytopathology, Agricultural University, 12 Mendeleev str., 4000, Plovdiv, Bulgaria

    Neshka Piperkova

  4. Department of Plant Biotechnology, Fruit Growing Institute, 12 Ostromila str., 4004, Plovdiv, Bulgaria

    Viktorija Nikolova

  5. Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tzar Assen str., 4000, Plovdiv, Bulgaria

    Mariyana Gozmanova

Authors
  1. Snezhana Milusheva
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  2. James Phelan
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  3. Neshka Piperkova
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  4. Viktorija Nikolova
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  5. Mariyana Gozmanova
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  6. Delano James
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Corresponding author

Correspondence to Snezhana Milusheva.

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The work described is original paper and is not under simultaneous consideration for publication elsewhere. Only preliminary data were reported as a short abstract on 24th International Conference on Virus and Other Graft Transmissible Diseases on Fruit Crops, June, 2017, Thessaloniki, Greece.

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All authors declare that they have no conflict of interest.

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There were no studies described in this article that were performed with human participants or animals.

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Milusheva, S., Phelan, J., Piperkova, N. et al. Molecular analysis of the complete genome of an unusual virus detected in sweet cherry (Prunus avium) in Bulgaria. Eur J Plant Pathol 153, 197–207 (2019). https://doi.org/10.1007/s10658-018-1555-z

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  • DOI: https://doi.org/10.1007/s10658-018-1555-z

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