Skip to main content

Genetic Diversity of Potato Virus Y in Belarus

Cytology and Genetics volume 55, pages 290–297 (2021)Cite this article

Abstract

The composition of Potato virus Y strains found on the territory of Belarus, as well as the molecular variability of their genomes, was studied. The presence of strains PVYNTN (genotype A) and PVYNW (genotypes A and B) was shown. The degree of the identity between individual genome regions of the studied isolates ranges from 100 to 97.33%. Nucleotides that are under purifying selection were revealed in the sequences.

This is a preview of subscription content, access via your institution.

Access options

Buy single article

Instant access to the full article PDF.

USD 39.95

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Fig. 1.
Fig. 2.

REFERENCES

  1. Altschul, S.F., Gish, W., Miller, W., Myers, E.W., and Lipman, D.J., Basic local alignment search tool, J. Mol. Biol., 1990, vol. 215, pp. 403–410.

    CAS  Article  Google Scholar 

  2. Chare, E.R. and Holmes, E.C., Selection pressures in the capsid genes of plant RNA viruses reflect mode of transmission, J. Gen. Virol., 2004, 2004, pp. 3149–3157.

    Article  Google Scholar 

  3. Chikh Ali, M., Maoka, T., and Natsuaki, K.T., The occurrence and characterization of new recombinant isolates of PVY displaying shared properties of PVYNW and PVYNTN, J. Phytopathol., 2007, vol. 155, pp. 409–415. https://doi.org/10.1111/j.1439-0434.2007.01251.x

    CAS  Article  Google Scholar 

  4. Chikh Ali, M., Maoka, T., Natsuaki, K.T., and Natsuaki, T., The simultaneous differentiation of Potato virus Y strains including the newly described strain PVY(NTN-NW) by multiplex PCR assay, J. Virol. Methods, 2010a, vol. 165 (1): 15–20. https://doi.org/10.1016/j.jviromet.2009.12.010

    CAS  Article  PubMed  Google Scholar 

  5. Chikh Ali, M., Maoka, T., Natsuaki, T., and Natsuaki, K.T., PVYNTN-NW, a novel recombinant strain of Potato virus Y predominating in potato fields in Syria, Plant Pathol., 2010b, vol. 59, pp. 31–41. https://doi.org/10.1111/j.1365-3059.2009.02174.x

    CAS  Article  Google Scholar 

  6. Chikh-Ali, M., Alruwaili, H., Vander Pol, D., and Karasev, A.V., Molecular characterization of recombinant strains of Potato virus Y from Saudi Arabia, Plant Dis., 2016, vol. 100, no. 2, pp. 292–297. https://doi.org/10.1094/pdis-05-15-0562-re

    CAS  Article  PubMed  Google Scholar 

  7. Chikh-Ali, M., Tran, L.T., Price, W.J., and Karasev, A.V., Effects of the age-related resistance to Potato virus Y in potato on the systemic spread of the virus, incidence of the potato tuber necrotic ringspot disease, tuber yield, and translocation rates into progeny tubers, Plant Dis., 2019, vol. 104, no. 1, pp. 269–275. https://doi.org/10.1094/PDIS-06-19-1201-RE

    Article  PubMed  Google Scholar 

  8. Drummond, A., Pybus, O.G., and Rambaut, A., Inference of viral evolutionary rates from molecular sequences, Adv. Parasitol., 2003, vol. 54, pp. 331–358.

    Article  Google Scholar 

  9. Fox, A., Collins, L.E., Macarthur, R., Blackburn, L.F., and Northing, P., New aphid vectors and efficiency of transmission of Potato virus A and strains of Potato virus Y in the UK, Plant Pathol., 2017, vol. 66, no. 2, pp. 325–335. https://doi.org/10.1111/ppa.12561

    CAS  Article  Google Scholar 

  10. Fuentes, S., Jones, R.A.C., Matsuoka, H., Ohshima, K., Kreuze, J., and Gibbs, A.J., Potato virus Y; the Andean connection, Virus Evol., 2019, vol. 5, no. 2. https://doi.org/10.1093/ve/vez037

  11. Glais, L., Tribodet, M., and Kerlan, C., Genomic variability in Potato potyvirus Y (PVY): evidence that PVYNW and PVYNTN variants are single to multiple recombinants between PVYO and PVYN isolates, Arch. Virol., 2002, vol. 147, no. 2, pp. 363–378. https://doi.org/10.1007/s705-002-8325-0

    CAS  Article  PubMed  Google Scholar 

  12. Green, K.J., Brown, C.J., Gray, S.M., and Karasev, A.V., Phylogenetic study of recombinant strains of Potato virus Y, Virology, 2017, vol. 507, pp. 40-52. https://doi.org/10.1016/j.virol.2017.03.018

    CAS  Article  PubMed  Google Scholar 

  13. Han, S., Gao, Y., Fan, G., Zhang, W., Qiu, C., Zhang, S., Bai, Y., Zhang, J., and Spetz, C., A novel recombined Potato virus Y isolate in China, Plant Pathol. J., 2017, vol. 33, no. 4, pp. 382–392. https://doi.org/10.5423/PPJ.OA.09.2016.0189

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  14. Hosseini, H., Mehrvar, M., Zakiaghl, M., and Siampour, M., Comparative genetic diversity of potato virus Y populations based on coat protein gene, Acta Virol., 2017, vol. 61, no. 2, pp. 161–174. https://doi.org/10.4149/av_2017_02_05

    CAS  Article  PubMed  Google Scholar 

  15. Hussain, A., Arif, M., Hano, A., Hussain, B., Ali, M., and Jaffar, S., A review on aphid-borne virus (potato Virus Y), J. Entomol. Zool. Stud., 2016, vol. 4, pp. 189–192. https://doi.org/10.13140/RG.2.1.1661.7844

    Article  Google Scholar 

  16. Kerlan, C., Tribodet, M., and Guillet, M., Variability of potato virus Y in potato crops in France, J. Phytopathol., 2001, vol. 147, pp. 643–651. https://doi.org/10.1046/j.1439-0434.1999.00441.x

    Article  Google Scholar 

  17. Kosakovsky Pond, S.L. and Frost, S.D.W., Datamonkey: rapid detection of selection pressure on individual sites of codon alidnments, Bioinformatics, 2005a, vol. 21, pp. 2531–2533.

    Article  Google Scholar 

  18. Kosakovsky Pond, S.L. and Frost, S.D.W., Not so different after all: a comparison of methods for detecting amino acid sites under selection, Mol. Biol. Evol., 2005b, vol. 22, no. 5, pp. 1208–1222. https://doi.org/10.1093/molbev/msi105

    CAS  Article  PubMed  Google Scholar 

  19. Kosakovsky Pond, S.L., Frost, S.D.W., Grossman, Z., Gravenor, M.B., Richman, D., and Leigh Brown, A.J., Adaptation to different human populations by HIV-1 revealed by codon-based analyses, 2006a, vol. 2, no. 6, pp. 530–538.

  20. Kosakovsky Pond, S.L., Posada, D., Gravenor, M.B., Woelk, C.H., and Frost, S.D., GARD: a genetic algorithm for recombination detection, in Bioinformatics (Oxford, England), 2006b, vol. 22, no. 24, pp. 3096–3098. https://doi.org/10.1093/bioinformatics/btl474

  21. Kumar, S., Stecher, G., Li, M., Knyaz, C., and Tamura, K., MEGA X: molecular evolutionary genetics analysis across computing platforms, Mol. Biol. Evol., 2018, vol. 35, no. 6, pp. 1547–1549. https://doi.org/10.1093/molbev/msy096

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  22. Lacomme, C., Glais, L., Bellstedt, D., Dupuis, B., Karasev, A., and Jacquot, E., Potato virus Y: biodiversity, pathogenicity, epidemiology and management, 2017. https://doi.org/10.1007/978-3-319-58860-5

  23. MacKenzie, T.D.B., Lavoie, J., Nie, X., and Singh, M., Differential spread of Potato virus Y (PVY) strains O, N:O and NTN in the field: implications for the rise of recombinant PVY strains in New Brunswick, Canada, Am. J. Potato Res., 2018, vol. 95, no. 3, pp. 301–310. https://doi.org/10.1007/s12230-018-9632-6

    Article  Google Scholar 

  24. Menghwar, S., Different techniques for diagnostic of potato viruses: a brief review, World J. Biol. Biotecnol., 2016, vol. 1, pp. 123–128. https://doi.org/10.33865/wjb.001.03.0011

    Article  Google Scholar 

  25. Menzel, W., Jelkmann, W., and Maiss, E., Detection of four apple viruses by multiplex RT-PCR assays with coamplification of plant mRNA as internal control, J. Virol. Methods, 2002, vol. 99, pp. 81–92.

    CAS  Article  Google Scholar 

  26. Naveed, K., Abbas, A., and Amrao, L., Potato virus Y: an evolving pathogen of potato worldwide, Pak. J. Phytopathol., 2017, vol. 29, pp. 187–191. https://doi.org/10.33866/phytopathol.029.01.0310

    Article  Google Scholar 

  27. Ogawa, T., Tomitaka, Y., Nakagawa, A., and Ohshima, K., Genetic structure of a population of Potato virus Y inducing potato tuber necrotic ringspot disease in Japan; comparison with North American and European populations, Virus Res., 2008, vol. 131, no. 2, pp. 199–212. https://doi.org/10.1016/j.virusres.2007.09.010

    CAS  Article  PubMed  Google Scholar 

  28. Pourrahim, R. and Farzadfar, S., Population analysis of Iranian Potato virus Y isolates using complete genome sequence, Plant Pathol. J., 2016, vol. 32, no. 1, pp. 33–46. https://doi.org/10.5423/PPJ.OA.07.2015.0144

    CAS  Article  PubMed  PubMed Central  Google Scholar 

  29. Revers, F. and García, J.A., Molecular biology of potyviruses, Adv. Virus Res., 2015, vol. 92, pp. 101–199. https://doi.org/10.1016/bs.aivir.2014.11.006

    CAS  Article  PubMed  Google Scholar 

  30. Singh, R.P., Valkonen, J.P., Gray, S.M., Boonham, N., Jones, R.A., Kerlan, C., and Schubert, J., Discussion paper: the naming of Potato virus Y strains infecting potato, Arch. Virol., 2008, vol. 153, no. 1, pp. 1–13. https://doi.org/10.1007/s00705-007-1059-1

    CAS  Article  PubMed  Google Scholar 

  31. Tamura, K. and Nei, M., Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees, Mol. Biol. Evol., 1993, vol. 10, pp. 512–526.

    CAS  PubMed  Google Scholar 

  32. Thompson, J.D., Higgins, D.G., and Gibson, T.J., CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice, Nucleic Acids Res., 1994, vol. 22, no. 22, pp. 4673–4680.

    CAS  Article  Google Scholar 

  33. Verma, R., Mishra, R., and Gaur, R., Potato virus Y genetic variability: a review, 2016, pp. 205–214. https://doi.org/10.1007/978-981-10-1406-2_12

  34. White, K.A., The polymerase slips and PIPO exists, EMBO Rep., 2015, vol. 16, no. 8, pp. 885–886. https://doi.org/10.15252/embr.201540871

    CAS  Article  PubMed  PubMed Central  Google Scholar 

Download references

Funding

The work was supported by the State Program “Science-Intensive Technologies and Equipment” for 2016–2020.

Author information

Authors and Affiliations

  1. Institute of Genetics and Cytology, National Academy of Sciences of Belarus, Minsk, Belarus

    P. V. Kuzmitskaya, T. M. Dzmitrieva, E. S. Karaleva & O. Yu. Urbanovich

  2. Scientific and Practical Center of the National Academy of Sciences of Belarus for Potato, Fruit, and Vegetable Growing, Samokhvalovichi, Minsk oblast, Belarus

    V. L. Makhanko & Yu. V. Gunko

Authors
  1. P. V. Kuzmitskaya
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. T. M. Dzmitrieva
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. E. S. Karaleva
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. O. Yu. Urbanovich
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. V. L. Makhanko
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Yu. V. Gunko
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to P. V. Kuzmitskaya.

Ethics declarations

The authors declare that they have no conflict of interests. This article does not contain any studies involving animals performed by any of the authors. This article does not contain any studies involving humans as subjects.

Additional information

Translated by D. Novikova

About this article

Verify currency and authenticity via CrossMark

Cite this article

Kuzmitskaya, P.V., Dzmitrieva, T.M., Karaleva, E.S. et al. Genetic Diversity of Potato Virus Y in Belarus. Cytol. Genet. 55, 290–297 (2021). https://doi.org/10.3103/S009545272103004X

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.3103/S009545272103004X

Keywords:

  • Potato virus Y
  • PVYNTN
  • PVYNW
  • genetic diversity
  • purifying selection