Skip to main content
SpringerLink
Log in

Genome analysis of a severe and a mild isolate of Papaya ringspot virus-type W found in Brazil

  • Original Article
  • Published:
Virus Genes Aims and scope Submit manuscript

An Erratum to this article was published on 04 August 2007

Abstract

Papaya ringspot virus-type W (PRSV-W) is one of the most economically threatening viruses of cucurbits in Brazil. Premunization is one of the most effective PRSV control measures currently applied in squash and zucchini crops. PRSV-W-1, a mild and premunizing strain of PRSV has been successfully used to protect cucurbits against both the severe PRSV-W-C strain and other Brazilian PRSVs. To aid in understanding the mechanism by which PRSV-W-1 premunization operates, the complete genome sequences of PRSV-W-1 and PRSV-W-C were determined. PRSV-W-1 had a genome size of 10,332 nucleotides, whereas indels within the coat protein encoding gene meant that the genome size of PRSV-W-C was six nucleotides shorter than that of the mild strain. The genomes of the two strains shared 94.63% nucleotide sequence identity, with the 5′ UTR and P1 being the most variable regions, and the coat protein and 3′ UTR being the most conserved. Rigorous recombination analysis revealed that neither PRSV-W-1 nor PRSV-W-C was obviously recombinant, there was significant evidence that many other fully sequenced PRSV genomes were recombinant.

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. J.A.M. Rezende, A.S. Costa, Int. Soc. Hortic. Sci. 370, 129–132 (1975)

    Google Scholar 

  2. V.A. Yuki, J.A.M. Rezende, E.W. Kitajima, P.A.V. Barroso, H. Kuniyuki, G.A. Groppo, M.A. Pavan, Plant Dis. 84, 516–520 (2000)

    Article  Google Scholar 

  3. M.C.C.L. Moura, J.A.A. Lima, V.B. Oliveira, M.F.B. Gonçalves, Braz. Phytopathol. 26, 90–92 (2001)

    Google Scholar 

  4. R.C.A. Lima, J.A.A. Lima, M.T. Souza Jr, G. Pio-Ribeiro, G.P. Andrade, Braz. Phytopathol. 26, 687–702 (2001)

    Google Scholar 

  5. R. Hull, Matthews, Plant Virology, 4th edn. (Academic Press, San Diego, USA, 2002), p. 1001

  6. J.A.M. Rezende, V.A. Yuki, J. Vega, S.M.M. Scagliusi, L.F. Borba, A.S. Costa, Braz. Phytopathol. 19, 55–61 (1994)

    Google Scholar 

  7. J.A.M. Rezende, D.A. Pacheco, Plant. Dis. 82, 171–175 (1998)

    Article  Google Scholar 

  8. J.A.M. Rezende, D.A. Pacheco, A.F. Iemma, Pesqui. Agropecuária Bras. 34, 1481–1489 (1999)

    Google Scholar 

  9. P.R.P. Dias, J.A.M. Rezende, Summa Phytopathol. 26, 390–398 (2000)

    Google Scholar 

  10. M.G.S. Della Vechia, L.E.A. Camargo, J.A.M. Rezende, Braz. Phytopathol. 28, 678–681 (2003)

    Google Scholar 

  11. R.J. Shepherd, G.S. Pound, Phytopathology 50, 797–803 (1960)

    CAS  Google Scholar 

  12. J.K. Bonfield, K.F. Smith, R. Staden, Nucleic Acids Res. 24, 4992–4999 (1995)

    Article  Google Scholar 

  13. R. Chenna, H. Sugawara, T. Koike, R. Lopez, T.J. Gibson, D.J. Higgins, J.D. Thompson, Nucleic Acids Res. 31, 3497–3500 (2003)

    Article  PubMed  CAS  Google Scholar 

  14. S. Kumar, K. Tamura, M. Nei, Brief. Bioinformatics 5, 150–163 (2004)

    Article  PubMed  CAS  Google Scholar 

  15. S. Guindon, O. Gascuel, Syst. Biol. 52, 696–704 (2003)

    Article  PubMed  Google Scholar 

  16. D.P. Martin, C. Williamson, D. Posada, Bioinformatics 21, 260–262 (2005)

    Article  PubMed  CAS  Google Scholar 

  17. D. Martin, E. Rybicki, Bioinformatics 16, 562–563 (2000)

    Article  PubMed  CAS  Google Scholar 

  18. M. Padidam, S. Sawyer, C.M. Fauquet, Virology 265, 218–225 (1999)

    Article  PubMed  CAS  Google Scholar 

  19. D.P. Martin, D. Posada, K.A. Crandall, C. Williamson, AIDS Res. Hum. Retroviruses 21, 98–102 (2005)

    Article  PubMed  CAS  Google Scholar 

  20. J. Maynard Smith, J. Mol. Evol. 34, 126–129 (1992)

    Google Scholar 

  21. D.P. Martin, C. Williamson, D. Posada, Bioinformatics 21, 260–262 (2005)

    Article  PubMed  CAS  Google Scholar 

  22. M.J. Gibbs, J.S. Armstrong, A.J. Gibbs, Bioinformatics 16, 573–582 (2000)

    Article  PubMed  CAS  Google Scholar 

  23. E.R. Chare, E.C. Holmes, Arch. Virol. 151, 933–946 (2006)

    Article  PubMed  CAS  Google Scholar 

  24. A. Fanigliulo, S. Comes, R. Pacella, B. Harrach, D.P. Martin, A. Crescenzi, Arch. Virol. 150, 709–720 (2005)

    Article  PubMed  CAS  Google Scholar 

  25. K. Tomimura, J. Spak, N. Katis, C.E. Jenner, J.A. Walsh, A.J. Gibbs, K. Ohshima, Virology 330, 408–423 (2004)

    Article  PubMed  CAS  Google Scholar 

  26. J.S. Giampan, J.A.M. Rezende, Summa Phytopathol. 27, 279–283 (2001)

    Google Scholar 

  27. C.D. Atreya, B. Raccah, T.P. Pirone, Virology 178, 161–165 (1990)

    Article  PubMed  CAS  Google Scholar 

  28. S. Blanc, J.J. López-moya, R. Wang, S. García-Lampasona, D.W. Thornbury, T.P. Pirone, Virology 231, 141–147 (1997)

    Article  PubMed  CAS  Google Scholar 

  29. S. Blanc, E.D. Ammar, S. García-Lampasona, V.V. Dolja, C. Llave, J. Baker, T.P. Pirone, J. Gen. Virol. 79, 3119–3122 (1998)

    PubMed  CAS  Google Scholar 

  30. S.D. Yeh, D. Gonsalves, H.L. Wang, R. Namba, R.J. Chiu, Plant Dis. 72, 375–380 (1988)

    Article  Google Scholar 

  31. D. Téliz, G. Mora, D. Nieto, D. Gonsalves, E. Garcia, L. Matheis, C. Avila, Rev. Mex. Fitopatol. 9, 64–68 (1991)

    Google Scholar 

  32. S.D. Yeh, D. Gonsalves, Phytopathology 74, 1086–1091 (1984)

    Article  Google Scholar 

  33. W.-Q. Wang, T. Natsuaki, S. Okuda, J. Gen. Plant Pathol. 72, 52–56 (2006)

    Article  CAS  Google Scholar 

  34. P.-Y. Teycheney, R. Aaziz, S. Dinant, K. Salanki, C. Tourneur, E. Balazs, M. Jacquemond, M. Tepfer, J. Gen. Virol. 81, 1121–1126 (2000)

    PubMed  CAS  Google Scholar 

  35. R. Haldeman-Cahill, J.A. Daros, J.C. Carrington, J. Virol. 72, 4072–4079 (1998)

    PubMed  CAS  Google Scholar 

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

    Article  PubMed  CAS  Google Scholar 

  37. A. Gal-On, Virology 90, 467–473 (2000)

    CAS  Google Scholar 

Download references

Acknowledgments

Tatsuya Nagata and Jorge A.M. Rezende are fellows of CNPq. Carolina M. Franco is supported by CNPq and Darren P. Martin is supported by the South African National Bioinformatics Network.

Author information

Authors and Affiliations

  1. Embrapa Vegetables, Brasilia, DF, Brazil

    Alice Kazuko Inoue-Nagata, Carolina de Mello Franco & Gleydson Barros Ferreira

  2. Institute of Infectious Disease and Molecular Medicine, Faculty of Health Sciences, University of Cape Town, Observatory, Cape Town, 7925, South Africa

    Darren Patrick Martin

  3. Escola Superior de Agricultura Luiz de Queiroz, USP, Piracicaba, SP, Brazil

    Jorge Alberto Marques Rezende

  4. Católica University, Brasilia, DF, Brazil

    Luisa Silva Dutra & Tatsuya Nagata

Authors
  1. Alice Kazuko Inoue-Nagata
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Carolina de Mello Franco
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Darren Patrick Martin
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Jorge Alberto Marques Rezende
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Gleydson Barros Ferreira
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Luisa Silva Dutra
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Tatsuya Nagata
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Alice Kazuko Inoue-Nagata.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Inoue-Nagata, A.K., Franco, C., Martin, D.P. et al. Genome analysis of a severe and a mild isolate of Papaya ringspot virus-type W found in Brazil. Virus Genes 35, 119–127 (2007). https://doi.org/10.1007/s11262-006-0032-5

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11262-006-0032-5

Keywords

Search

Navigation