Skip to main content
SpringerLink
Log in

Multiple interspecies recombination events within RNA2 of Grapevine fanleaf virus and Arabis mosaic virus

  • Brief Report
  • Published:
Archives of Virology Aims and scope Submit manuscript

Abstract

Sequence alignments and SISCAN analyses inferred multiple interspecies recombination events within RNA2 of strains GHu of Grapevine fanleaf virus (GFLV) and Ta of Arabis mosaic virus (ArMV), two closely related subgroup A nepoviruses in the family Comoviridae. Interspecies recombination events were identified in the 5′ untranslated region, the putative homing protein and movement protein genes but not in the coat protein gene and 3′ untranslated region. These findings suggest a dynamic relationship between GFLV and ArMV, and a differential selection pressure on RNA2-encoded proteins with constraints in terms of function and co-adaptation that limit interspecies recombination to certain gene segments.

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.

Fig. 1
Fig. 2

References

  1. Andret-Link P, Laporte C, Valat L, Laval L, Ritzenthaler C, Demangeat G, Vigne E, Pfeiffer P, Stussi-Garaud C, Fuchs M (2004) Grapevine fanleaf virus: still a major threat to the grapevine industry. J Plant Pathol 86:183–195

    CAS  Google Scholar 

  2. Andret-Link P, Schmitt-Keichinger C, Demangeat G, Komar V, Fuchs M (2004) The specific transmission of Grapevine fanleaf virus by its nematode vector Xiphinema index is solely determined by the viral coat protein. Virology 320:12–22

    Article  PubMed  CAS  Google Scholar 

  3. Belin C, Schmitt C, Gaire F, Walter B, Demangeat G, Pinck L (1999) The nine C-terminal residues of the Grapevine fanleaf nepovirus movement protein are critical for systemic virus spread. J Gen Virol 80:1347–1356

    PubMed  CAS  Google Scholar 

  4. Belin C, Schmitt C, Demangeat G, Komar V, Pinck L, Fuchs M (2001) Involvement of RNA2-encoded proteins in the specific transmission of Grapevine fanleaf virus by its nematode vector Xiphinema index. Virology 291:161–171

    Article  PubMed  CAS  Google Scholar 

  5. Bovey R, Gärtel W, Hewitt WP, Martelli GP, Vuittenez A (1980) The most important virus diseases of grapevine. In: Bovey R, Gärtel W, Hewitt WP, Martelli GP, Vuittenez A (eds) Virus and virus-like diseases of grapevines. Editions Payot, Lausanne, pp 46–56

    Google Scholar 

  6. Escriu F, Fraile A, Garcia-Arenal F (2007) Constraints to genetic exchange support gene coadaptation in a tripartite RNA virus. PLoS Pathogens 3:e8

    Article  PubMed  Google Scholar 

  7. Garcia-Arenal F, Fraile A, Malpica JM (2001) Variability and genetic structure of plant virus populations. Annu Rev Phytopathol 39:157–186

    Article  PubMed  CAS  Google Scholar 

  8. Gibbs MJ, Armstrong JS, Gibbs AJ (2000) Sister-scanning: a monte carlo procedure for assessing signals in recombinant sequences. Bioinformatics 16:573–582

    Article  PubMed  CAS  Google Scholar 

  9. Huss B, Walter B, Fuchs M (1989) Cross-protection between Arabis mosaic virus and Grapevine fanleaf virus in Chenopodium quinoa. Ann appl Biol 114:45–60

    Article  Google Scholar 

  10. Le Gall O, Candresse T, Dunez J (1995) Transfer of the 3′ non-translated region of grapevine chrome mosaic virus RNA-1 by recombination to tomato black ring virus RNA-2 in pseudorecombinant isolates. J Gen Virol 76:1285–1289

    Article  PubMed  CAS  Google Scholar 

  11. Le Gall O, Lanneau M, Candresse T, Dunez J (1995) The nucleotide sequence of the RNA-2 of an isolate of the English serotype of tomato black ring virus: RNA recombination in the history of nepoviruses. J Gen Virol 76:1279–1283

    Article  PubMed  CAS  Google Scholar 

  12. Le Gall O, Sanfaçon H, Ikegami M, Iwanami T, Jones T, Karasev A, Lehto K, Wellink J, Wetzel T, Yoshikawa N (2007) Cheravirus and Sadwavirus: two unassigned genera of plant positive-sense single-stranded RNA viruses formerly considered atypical members of the genus Nepovirus (family Comoviridae). Arch Virol 159:1767–1774

    Article  Google Scholar 

  13. Legin R, Bass P, Etienne L, Fuchs M (1993) Selection of mild virus strains of fanleaf degeneration by comparative field performance of infected grapevines. Vitis 32:103–110

    Google Scholar 

  14. Loudes AM, Ritzenthaler C, Pinck M, Serghini MA, Pinck L (1995) The 119 kDa and 124 kDa polyproteins of Arabis mosaic nepovirus (isolate S) are encoded by two distinct RNA2 species. J Gen Virol 76:899–906

    Article  PubMed  CAS  Google Scholar 

  15. Martin DP, van der Walt E, Posada D, Rybicki EP (2005) The evolutionary value of recombination is constrained by genome modularity. PLoS Genetics 4:e51

    Google Scholar 

  16. Mayo MA, Robinson DJ (1996) Nepoviruses: molecular biology and replication. In: Harrison BD, Murant AF (eds) The plant viruses, polyhedral virions and bipartite RNA. Plenum, New York, pp 139–185

    Google Scholar 

  17. Mushegian AR (1994) The putative movement domain encoded by nepovirus RNA2 is conserved in all sequenced nepoviruses. Arch Virol 135:437–441

    Article  PubMed  CAS  Google Scholar 

  18. Ohshima K, Tomitaka Y, Wood JT, Minematsu Y, Kajiyama H, Tomimura K, Gibbs AJ (2007) Patterns of recombination in turnip mosaic virus genomic sequences indicate hotspots of recombination. J Gen Virol 88:298–315

    Article  PubMed  CAS  Google Scholar 

  19. Pompe-Novak M, Gutiérrez-Aguirre I, Vojvoda J, Blas M, Tomazic I, Vigne E, Fuchs M, Ravnikar M, Petrovic N (2007) Genetic variability within the RNA2 of Grapevine fanleaf virus. Eur J Plant Pathol 117:307–312

    Article  CAS  Google Scholar 

  20. Saitou N, Nei M (1987) The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425

    PubMed  CAS  Google Scholar 

  21. Serghini M, Fuchs M, Pinck M, Reinbolt J, Walter B, Pinck L (1990) RNA2 of Grapevine fanleaf virus: sequence analysis and coat protein cistron location. J. Gen Virol 71:1433–1441

    Article  PubMed  CAS  Google Scholar 

  22. Shapka N, Nagy PD (2004) The AU-rich RNA recombination hot spot sequence of Brome mosaic virus is functional in Tombusviruses: implications for the mechanism of RNA recombination. J Virol 78:2288–2300

    Article  PubMed  CAS  Google Scholar 

  23. Simmonds P (2006) Recombination and selection in the evolution of picornaviruses and other mammalian positive-stranded RNA viruses. J Virol 80:11124–11140

    Article  PubMed  CAS  Google Scholar 

  24. Thompson JD, Higgins DJ, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680

    Article  PubMed  CAS  Google Scholar 

  25. Vigne E, Bergdoll M, Guyader S, Fuchs M (2004) Population structure and genetic variability within isolates of Grapevine fanleaf virus from a naturally infected vineyard in France: evidence for mixed infection and recombination. J Gen Virol 85:2435–2445

    Article  PubMed  CAS  Google Scholar 

  26. Vigne E, Demangeat G, Komar V, Fuchs M (2005) Characterization of a naturally occurring Grapevine fanleaf virus recombinant isolate. Arch Virol 150:2241–2255

    Article  PubMed  CAS  Google Scholar 

  27. Vives MC, Rubio L, Sambade A, Mirkov TE, Moreno P, Guerri J (2005) Evidence of multiple recombination events between two RNA sequence variants within a Citrus tristeza virus isolate. Virology 331:232–237

    Article  PubMed  CAS  Google Scholar 

  28. Wetzel T, Meunier L, Jaeger U, Reustle GM, Krczal G (2001) Complete nucleotide sequences of the RNAs 2 of German isolates of Grapevine fanleaf and Arabis mosaic nepoviruses. Virus Res 75:139–145

    Article  PubMed  CAS  Google Scholar 

  29. Wetzel T, Fuchs M, Bobko M, Krczal G (2002) Size and sequence variability of the Arabis mosaic virus protein 2A. Arch Virol 147:1643–1653

    Article  PubMed  CAS  Google Scholar 

  30. Worobey M, Holmes EC (1999) Evolutionary aspects of recombination in RNA viruses. J Gen Virol 80:2535–2543

    PubMed  CAS  Google Scholar 

  31. Zhang C, Gu H, Ghabrial SA (2007) Molecular characterization of naturally occurring RNA1 recombinants of the comovirus Bean pod mottle virus. Phytopathol 97:1255–1262

    Article  CAS  Google Scholar 

Download references

Acknowledgments

This work was partially supported by a competitive grant from the European Commission (Environmental impact assessment of the transgenic grapevines and plums on the diversity and dynamics of virus populations, QLK3-CT-2002-02140). We are indebted to Dr. L. M. Yepes for critically reading the manuscript.

Author information

Authors and Affiliations

  1. Unité Mixte de Recherche Santé de la Vigne et Qualité du Vin, Institut National de la Recherche Agronomique and Université Louis Pasteur, 68021, Colmar, France

    E. Vigne, A. Marmonier & M. Fuchs

  2. Department of Plant Pathology and Plant-Microbe Biology, Cornell University, New York State Agricultural Experiment Station, Geneva, NY, 14456, USA

    M. Fuchs

Authors
  1. E. Vigne
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. A. Marmonier
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. M. Fuchs
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to M. Fuchs.

Additional information

The GenBank accession numbers of sequences reported in this paper are EF426852 and EF426853.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Vigne, E., Marmonier, A. & Fuchs, M. Multiple interspecies recombination events within RNA2 of Grapevine fanleaf virus and Arabis mosaic virus . Arch Virol 153, 1771–1776 (2008). https://doi.org/10.1007/s00705-008-0182-y

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00705-008-0182-y

Keywords

Search

Navigation