Skip to main content
SpringerLink
Log in

Recombination analysis of Maize dwarf mosaic virus (MDMV) in the Sugarcane mosaic virus (SCMV) subgroup of potyviruses

  • Published:
Virus Genes Aims and scope Submit manuscript

Abstract

Recombination among RNA viruses is a natural phenomenon that appears to have played a significant role in the species development and the evolution of many strains. It also has particular significance for the risk assessment of plants which have been genetically modified for disease resistance by incorporating viral sequences into their genomes. However, the exact recombination events taking place in viral genomes are not investigated in detail for many virus groups. In this analysis, different single-stranded positive-sense RNA potyviruses were compared using various in silico recombination detection methods and new recombination events in the Sugarcane mosaic virus (SCMV) subgroup were detected. For an extended in silico recombination analysis, two of the analyzed Maize dwarf mosaic virus full-length genomes were sequenced additionally during this work. These results strengthen the evidence that recombination is a major driving force in virus evolution, and the emergence of new virus variants in the SCMV subgroup, paired with mutations, could generate viruses with altered biological properties. The intra- and interspecific homolog recombinations seem to be a general trait in this virus group, causing little or no changes to the amino acid of the progenies. However, we found a few breakpoints between the members of SCMV subgroup and the weed-infecting distant relatives, but only a few methods of the RDP3 package predicted these events with low significance level.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

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

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3

Similar content being viewed by others

References

  1. L.E. Williams, L.J. Alexander, Phytopathology 58, 802–804 (1965)

    Google Scholar 

  2. É. Toldiné Tóth, Növényvédelmi Tudományos Napok, Absztrakt. 18, (2008)

  3. J.H. Hill, C.A. Martinson, W.A. Russel, Crop Sci. 14, 232–235 (1974)

    Article  Google Scholar 

  4. R.W. Toler, Plant Dis. 69, 1011–1015 (1985)

    Article  Google Scholar 

  5. M.M.C. Lai, Microbiol. Rev. 56, 61–79 (1992)

    PubMed Central  CAS  PubMed  Google Scholar 

  6. P.D. Nagy, A.E. Simon, Virology 235, 1–9 (1997)

    Article  CAS  PubMed  Google Scholar 

  7. M. Worobey, E.C. Holmes, J. Gen. Virol. 80, 2535–2543 (1999)

    CAS  PubMed  Google Scholar 

  8. M.T. Cervera, J.L. Riechmann, M.T. Martin, A.J. Garcia, J. Gen. Virol. 74, 329–334 (1993)

    Article  CAS  PubMed  Google Scholar 

  9. M. Glasa, V. Marie-Jeanne, G. Labonne, Z. Šubr, O. Kúdela, J.B. Quiot, Eur. J. Plant Pathol. 108, 843–853 (2002)

    Article  CAS  Google Scholar 

  10. M. Glasa, L. Palkovics, P. Komínek, G. Labonne, S. Pittnerová, O. Kúdela, T. Candresse, Z. Šubr, J. Gen. Virol. 85, 2671–2681 (2004)

    Article  CAS  PubMed  Google Scholar 

  11. M. Glasa, T. Candresse, Virus Res. 108, 199–206 (2005)

    Article  CAS  PubMed  Google Scholar 

  12. C.U. Serce, T. Candresse, L. Svanella-Dumas, L. Krizbai, M. Gazel, K. Caglayan, Virus Res. 142, 121–126 (2009)

    Article  CAS  PubMed  Google Scholar 

  13. F. Revers, O. Le Gall, T. Candresse, M. Le Romancer, J. Dunez, J. Gen. Virol. 77, 1953–1965 (1996)

    Article  CAS  PubMed  Google Scholar 

  14. L. Glais, M. Tribodet, C. Kerlan, Arch. Virol. 147(2), 363–378 (2002)

    Article  CAS  PubMed  Google Scholar 

  15. J.H. Lorenzen, T. Meacham, P.H. Berger, P.J. Shiel, J.M. Crosslin, P.B. Hamm, H. Kopp, Arch. Virol. 151, 1055–1074 (2006)

    Article  CAS  PubMed  Google Scholar 

  16. J. Lorenzen, P. Nolte, D. Martin, J.S. Pasche, N.C. Gudmestad, Arch. Virol. 153(3), 517–525 (2008)

    Article  CAS  PubMed  Google Scholar 

  17. M. Bousalem, E.J.P. Douzery, D. Fargette, J. Gen. Virol. 81, 243–255 (2000)

    CAS  PubMed  Google Scholar 

  18. R. Krause-Sakate, H. Fakhfakh, M. Peypelut, M.A. Pavan, F.M. Zerbini, M. Marrakchi, T. Candresse, O. Le Gall, Arch. Virol. 149(1), 191–197 (2004)

    CAS  PubMed  Google Scholar 

  19. K. Ohshima, Y. Yamaguchi, R. Hirota, T. Hamamoto, K. Tomimura, Z.Y. Tan, T. Sano, F. Azuhata, J.A. Walsh, J. Fletcher, J.S. Chen, A. Gera, A. Gibbs, J. Gen. Virol. 83, 1511–1521 (2002)

    CAS  PubMed  Google Scholar 

  20. K. Tomimura, A.J. Gibbs, C.E. Jenner, J.A. Walsh, K. Ohshima, Mol. Ecol. 12(8), 2099–2111 (2003)

    Article  CAS  PubMed  Google Scholar 

  21. I.M. Moreno, J.M. Malpica, J.A. Díaz-Pendón, E. Moriones, A. Fraile, F. García-Arenal, Virology 318(1), 451–460 (2004)

    Article  CAS  PubMed  Google Scholar 

  22. C. Desbiez, H. Lecoq, Arch. Virol. 149, 1619–1632 (2004)

    Article  CAS  PubMed  Google Scholar 

  23. Y. Zhong, A. Guo, C. Li, B. Zhuang, M. Lai, C. Wei, J. Luo, Y. Li, Virus Genes 30(1), 75–83 (2005)

    Article  CAS  PubMed  Google Scholar 

  24. M.A. Achon, L. Serrano, N. Alonso-Dueñas, C. Porta, Arch. Virol. 152(11), 2073–2078 (2007)

    Article  CAS  PubMed  Google Scholar 

  25. A. Padhi, K. Ramu, Virus Genes 42, 282–285 (2011)

    Article  CAS  PubMed  Google Scholar 

  26. Y. Li, R. Liu, T. Zhou, Z. Fan, Vir Res 177(1), 242–246 (2012)

    Google Scholar 

  27. M.A. Achon, A. Larrañaga, N. Alonso-Dueñas, Arch. Virol. 157(12), 2377–2382 (2012)

    Article  CAS  PubMed  Google Scholar 

  28. M.A. Larkin, G. Blackshields, N.P. Brown, R. Chenna, P.A. McGettigan, H. McWilliam, F. Valentin, I.M. Wallace, A. Wilm, R. Lopez, J.D. Thompson, T.J. Gibson, D.G. Higgins, Bioinformatics 23, 2947–2948 (2007)

    Article  CAS  PubMed  Google Scholar 

  29. R.C. Edgar, Nucleic Acids Res. 32, 1792–1797 (2004)

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  30. N. Saitou, M. Nei, Mol. Biol. Evol. 4, 406–425 (1987)

    CAS  PubMed  Google Scholar 

  31. C.D. Michener, R.R. Sokal, Evolution 11, 490–499 (1957)

    Article  Google Scholar 

  32. I. Milne, F. Wright, G. Rowe, D.F. Marshall, D. Hushmeier, G. McGuire, Bioinformatics 20, 1806–1807 (2004)

    Article  CAS  PubMed  Google Scholar 

  33. D.P. Martin, P. Lemey, M. Lott, V. Moulton, D. Posada, P. Lefeuvre, Bioinformatics 26, 2462–2463 (2010)

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  34. M. Eigen, Trends Microbiol. 4, 216–218 (1996)

    Article  CAS  PubMed  Google Scholar 

  35. M. Eigen, P. Schuster, Naturwissenschaften 64, 541–565 (1977)

    Article  CAS  PubMed  Google Scholar 

  36. G. Gell, E. Balazs, K. Petrik, Virus Genes 40(2), 277–281 (2010)

    Article  CAS  PubMed  Google Scholar 

  37. M.J. Adams, J.F. Antoniw, C.M. Fauquet, Arch. Virol. 150, 459–479 (2005)

    Article  CAS  PubMed  Google Scholar 

  38. A.J. Gibbs, K. Ohshima, M.J. Phillips, M.J. Gibbs, PLoS ONE 3(6), e2523 (2008)

    Article  PubMed Central  PubMed  Google Scholar 

  39. K. Petrik, E. Sebestyén, G. Gell, E. Balázs, Virus Genes 40, 135–139 (2010)

    Article  CAS  PubMed  Google Scholar 

  40. Y. Hong, A.G. Hunt, Virology 226, 146–151 (1996)

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

The authors are grateful to Professor Sándor Pongor (ICGEB, Trieste Italy) and Dr. Marnie Light for critical reading of the manuscript.

Author information

Authors and Affiliations

  1. Department of Applied Genomics, Agricultural Institute, MTA Centre for Agricultural Research, Brunszvik str. 2, 2462, Martonvásár, Hungary

    Gyöngyvér Gell, Endre Sebestyén & Ervin Balázs

  2. Universitat Pompeu Fabra, PRBB, Dr Aiguader 88, 08003, Barcelona, Spain

    Endre Sebestyén

Authors
  1. Gyöngyvér Gell
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Endre Sebestyén
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Ervin Balázs
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Gyöngyvér Gell.

Additional information

Gyöngyvér Gell and Endre Sebestyén have contributed equally to this work.

Electronic supplementary material

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Gell, G., Sebestyén, E. & Balázs, E. Recombination analysis of Maize dwarf mosaic virus (MDMV) in the Sugarcane mosaic virus (SCMV) subgroup of potyviruses. Virus Genes 50, 79–86 (2015). https://doi.org/10.1007/s11262-014-1142-0

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11262-014-1142-0

Keywords

Search

Navigation