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Genetic structure and molecular variability of potato virus M populations

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Abstract

To investigate the genetic diversity of potato virus M (PVM; genus Carlavirus, family Betaflexiviridae), the complete nucleotide sequence of the coat protein gene of 30 PVM isolates from a major potato-growing region in Iran were determined. Phylogenetic analysis of these Iranian PVM isolates together with those available in the GenBank database suggested two divergent evolutionary lineages that did not reflect the origin of the isolates, and these were designated as PVM-o and PVM-d. Examination of the genetic variability of the coat protein of Iranian isolates and their counterparts whose sequences are available in the Genbank database revealed 16 genotype groups in the PVM population. Analysis of the synonymous-to-nonsynonymous ratio showed strong purifying selection in the CP gene in the genotype groups of divergent clades.

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References

  1. Adams MJ, Antoniw JF (2004) The new plant virus family Flexiviridae and assessment of molecular criteria for species demarcation. Arch Virol 149:1045–1060

    CAS  PubMed  Google Scholar 

  2. Cavileer TD, Clarke RC, Corsini DL, Berger PH (1998) A new strain of potato carlavirus M. Plant Dis 82:98–102

    Article  CAS  Google Scholar 

  3. Clark MF, Adams AN (1977) Characteristics of the microplate method of enzyme linked immunosorbent assay for the detection of plant viruses. J G Virol 34:475–483

    Article  CAS  Google Scholar 

  4. Cox BA, Jones RAC (2010) Genetic variability in the coat protein gene of Potato virus S isolates and distinguishing its biologically distinct strains. Arch Virol 155:1163–1169

    Article  CAS  PubMed  Google Scholar 

  5. Flatken S, Ungewickell V, Menzel W, Maiss E (2008) Construction of an infectious full-length cDNA clone of potato virus M. Arch Virol 153:1385–1389

    Article  CAS  PubMed  Google Scholar 

  6. Foster GD, Mills PR (1992) The 3′-nucleotide sequence of an ordinary strain of potato virus S. Virus Genes 6:213–220

    Article  CAS  PubMed  Google Scholar 

  7. Ge BB, He Z, Jiang DM, Zhang ZX, Liu GJ, Wang HQ (2012) Characterization and complete nucleotide sequence of potato virus M isolated from tomato in China. Acta Virol 56:261–263

    Article  CAS  PubMed  Google Scholar 

  8. Goth RW, Ellis PJ, de Villiers G, Goins EW, Wright NS (1999) Characteristics and distribution of Potato Latent Carlavirus (Red LaSoda Virus) in North America. Plant Dis 83:751–753

    Article  Google Scholar 

  9. Gramstat A, Courtpozanis A, Rohde W (1990) The 12-kDa protein of potato virus M displays properties of a nucleic acid-binding regulatory protein. FEBS Lett 276:34–38

    Article  CAS  PubMed  Google Scholar 

  10. Halterman D, Charkowski A, Verchot J (2012) Potato, viruses, and seed certification in the USA to provide healthy propagated tubers. Pest Technol 6:1–14

    Google Scholar 

  11. Kosakovsky Pond SL, Frost SDW, Muse SV (2005) HyPhy: hypothesis testing using phylogenies. Bioinformatics 21:676–679

    Article  Google Scholar 

  12. Li YY, Zhang RN, Xiang HY, Abouelnasr H, Li DW, Yu JL, McBeath JH, Han CG (2013) Discovery and characterization of a novel carlavirus infecting potatoes in China. PLOS ONE 8:e69255

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  13. Mahy BWJ, Van Regenmortel MHV (2010) Desk encyclopedia of plant and fungal virology. Academic Press/Elsevier, Oxford, UK

  14. Martelli GP, Adams MJ, Kreuze JF, Dolja VV (2007) Family flexiviridae: a case study in virion and genome plasticity. Phytopathology 45:73–100

    Article  CAS  Google Scholar 

  15. Massa GA, Segretin ME, Colavita M, Riero MF, Bravo-Almonacid F, Feingold S (2006) Biological and sequence data suggest that potato rough dwarf virus (PRDV) and potato virus P (PVP) are strains of the same species. Arch Virol 151:1243–1247

    Article  CAS  PubMed  Google Scholar 

  16. Matousek J, Schubert J, Dedic P, Pta′cek J (2000) A broad variability of potato virus S (PVS) revealed by analysis of virus sequences amplified by reverse transcriptase polymerase chain reaction. Canadian J Plant Pathol 22:29–37

    Article  CAS  Google Scholar 

  17. Matousek J, Schubert J, Pta′cek J, Kozlova′ P, Dedic P (2005) Complete nucleotide sequence and molecular probing of potato virus S genome. Acta Virol 49:195–205

    CAS  PubMed  Google Scholar 

  18. Muhire B, Martin DP, Brown JK, Navas-Castillo J, Moriones E, Zerbini FM, Rivera-Bustamante R, Malathi VG, Briddon RW, Varsani A (2013) A genome-wide pairwise-identity-based proposal for the classification of viruses in the genus Mastrevirus (family Geminiviridae). Arch Virol 158:1411–1424

    Article  CAS  PubMed  Google Scholar 

  19. Nisbet C, Butzonitch I, Colavita M, Daniels J, Martin J, Burns R, George E, Akhond MAY, Mulholland V, Jeffries CJ (2006) Characterization of Potato rough dwarf virus and Potato virus P: distinct strains of the same viral species in the genus Carlavirus. Plant Pathol 55:803–812

    Article  Google Scholar 

  20. Poke FS, Crowle DR, Whittock SP, Wilson CR (2010) Molecular variation of hop mosaic virus isolates. Arch Virol 155:1721–1724

    Article  CAS  PubMed  Google Scholar 

  21. Pourrahim R, Farzadfar Sh, Golnaraghi AR, Ahoonmanesh A (2007) Incidence and distribution of important viral pathogens in some Iranian potato fields. Plant Dis 91:609–615

    Article  Google Scholar 

  22. Rupasov VV, Morozov SYU, Kanyuka KV, Zavriev SK (1989) Partial nucleotide sequence of potato virus M RNA shows similarities to potexviruses in gene arrangement and the encoded amino acid sequences. J Gen Virol 10:1861–1869

    Article  Google Scholar 

  23. Salari K, Massumi H, Heydarnejad J, Hosseini Pour A, Varsani A (2011) Analysis of Iranian Potato virus S isolates. Virus Genes 43:281–288

    Article  CAS  PubMed  Google Scholar 

  24. Salazar LF (1996) Potato viruses and their control. International Potato Center (CIP), Lima

    Google Scholar 

  25. Schultz ES, Folsom D (1923) Transmission, variation, and control of certain degeneration diseases of Irish potatoes. J Agric Res 25:43–147

    Google Scholar 

  26. Senshu H, Yamaji Y, Minato N, Shiraishi T, Maejima K (2011) A dual strategy for the suppression of host antiviral silencing: two distinct suppressors for viral replication and viral movement encoded by potato virus M. J Virol 85:10269–10278

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  27. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28(10):2731–2739

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  28. Xu H, D′Aubin J, Nie J (2010) Genomic variability in Potato virus M and the development of RT-PCR and RFLP procedures for the detection of this virus in seed potatoes. Virol J 7:25

    Article  PubMed Central  PubMed  Google Scholar 

  29. Zavriev SK, Kanyuka KV, Levay KE (1991) The genome organization of potato virus M RNA. J Gen Virol 159:373–380

    Google Scholar 

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Acknowledgment

We would like to thank Prof. Izadpanah from Shiraz University for reviewing the first version of this report.

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Authors and Affiliations

  1. Department of Plant Pathology, College of Agriculture, Ferdowsi University of Mashhad, Mashhad, Iran

    Fatemeh Tabasinejad, Behrooz Jafarpour, Mohammad Zakiaghl, Hamid Rouhani & Mohsen Mehrvar

  2. Department of Plant Protection, College of Agriculture, Shahrekord University, Shahrekord, Iran

    Majid Siampour

Authors
  1. Fatemeh Tabasinejad
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  2. Behrooz Jafarpour
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  3. Mohammad Zakiaghl
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  4. Majid Siampour
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  5. Hamid Rouhani
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  6. Mohsen Mehrvar
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Correspondence to Mohammad Zakiaghl.

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Tabasinejad, F., Jafarpour, B., Zakiaghl, M. et al. Genetic structure and molecular variability of potato virus M populations. Arch Virol 159, 2081–2090 (2014). https://doi.org/10.1007/s00705-014-2037-z

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  • DOI: https://doi.org/10.1007/s00705-014-2037-z

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