Skip to main content

Striking differences in the biological and molecular properties of onion and garlic isolates of onion yellow dwarf virus


Complete nucleotide (nt) and deduced amino acid sequences of two onion yellow dwarf virus (OYDV) isolates showing mild and severe symptoms in onion but being unable to infect garlic were determined. The genomes consisted of 10,459 and 10,461 nt (without the 3’ poly(A) tail) and were 92.2 % identical. Comparison of their whole genomes, polyproteins and P1, HC-Pro, P3, CI, VPg and NIa-Pro regions with those of garlic isolates previously identified as OYDV gave percentage values below that proposed as the molecular threshold for potyvirus species demarcation. This and the striking differences in host range between onion and garlic isolates suggest that they represent different virus species.

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

Fig. 1


  1. Adams MJ, Antoniw JF, Beaudoin F (2005) Overview and analysis of the polyprotein cleavage sites in the family Potyviridae. Mol Plant Pathol 6:471–487

    PubMed  Article  CAS  Google Scholar 

  2. Adams MJ, Antoniw JF, Fauquet CM (2005) Molecular criteria for genus and species discrimination within the family Potyviridae. Arch Virol 150:459–479

    PubMed  Article  CAS  Google Scholar 

  3. Adams MJ, Zerbini FM, French R, Rabenstein F, Stenger DC and Valkonen JPT (2012) Family Potyviridae. In: King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ (eds) Virus taxonomy. Ninth Report of the International Committee on Taxonomy of Viruses. Academic Press, Elsevier, San Diego, pp 1069–1089

  4. Atreya PL, Atreya CD, Pirone TP (1991) Amino acid substitutions in the coat protein result in loss of insect transmissibility of a plant virus. Proc Natl Acad Sci USA 88:7887–7891

    PubMed  Article  CAS  Google Scholar 

  5. Bos L (1976) Onion yellow dwarf virus. CMI/AAB. Descriptions of plant viruses, vol 158, Wageningen, The Netherlands

  6. Chen J, Adams MJ, Zheng HY, Chen JP (2003) Sequence analysis demonstrates that Onion yellow dwarf virus isolates from China contain a P3 region much larger than other potyviruses. Arch Virol 148:1165–1173

    PubMed  Article  CAS  Google Scholar 

  7. Chen J, Chen JP, Adams MJ (2001) Characterization of some carla- and potyviruses from bulb crops in China. Arch Virol 147:419–428

    Article  Google Scholar 

  8. Cheng Y, Jones RAC (2000) Biological properties of necrotic and non-necrotic strains of bean yellow mosaic virus in cool season grain legumes. Ann Appl Biol 136:215–227

    Article  Google Scholar 

  9. Conci VC (1997) Virus y fitoplasmas de ajo In: Burba JL (ed) 50 temas sobre producción de ajo. EEAINTA La Consulta, Mendoza, Argentina. 3:267–291

  10. Conci VC, Helguera M, Nome SF (1999) Serological and biological comparison of Onion yellow dwarf virus from onion and garlic in Argentina. Fitopat Bras 24:73–75

    CAS  Google Scholar 

  11. Conci VC, Nome SF (1991) Virus free garlic (Allium sativum L.) plants obtained by thermotherapy and meristem tip culture. J Phytopathol 132:186–192

    Article  Google Scholar 

  12. Conci VC, Nome SF, Milne RJ (1992) Filamentous viruses of garlic in Argentina. Plant Dis 76:594–596

    Article  Google Scholar 

  13. Gibbs A, Ohshima K (2010) Potyviruses and the digital revolution. Annu Rev Phytopathol 48:205–223

    PubMed  Article  CAS  Google Scholar 

  14. Elnagar S, El-Sheikh MAK, Abdel Wahab AS (2009) Effect of natural infection with Onion yellow dwarf virus (OYDV) on yield of onion and garlic crops in Egypt. 4th Conference on Recent Technologies in Agriculture, pp 34–39

  15. Kobayashi K, Rabinowicz P, Bravo-Almonacid JF, Helguera M, Conci V, Lot H, Mentaberry A (1996) Coat protein gene sequences of garlic and onion isolates of the Onion yellow dwarf potyvirus (OYDV). Arch Virol 141:2277–2287

    PubMed  Article  CAS  Google Scholar 

  16. Lee KC, Wong SM (1998) Variability of P1 protein of zucchini yellow mosaic virus for strain differentiation and phylogenetic analysis with other potyviruses. DNA Seq 9:275–293

    PubMed  CAS  Google Scholar 

  17. Li W, Jaroszewski L, Godzik A (2001) Clustering of highly homologous sequences to reduce the size of large protein database. Bioinformatics 17:282–283

    PubMed  Article  CAS  Google Scholar 

  18. Martin DP, Williamson C, Posada D (2005) RDP2: recombination detection and analysis from sequence alignments. Bioinformatics 21(2):260–262

    PubMed  Article  CAS  Google Scholar 

  19. Shi Y, Chen J, Hong X, Chen J, Adams MJ (2007) A potyvirus P1 protein interacts with the Rieske Fe/S protein of its host. Mol Plant Pathol 8:785–790

    PubMed  Article  CAS  Google Scholar 

  20. Takaki F, Sano T, Yamashita K (2006) The complete nucleotide sequence of attenuated Onion yellow dwarf virus: a natural potyvirus deletion mutant lacking the N-terminal 92 amino acids of HC-Pro. Arch Virol 151:1439–1445

    PubMed  Article  CAS  Google Scholar 

  21. Thielman J, Yang L, Rochon D (2006) Sequence analysis of isolates of the Canadian Plum pox virus, and comparisons to isolates from Europe and the United States. Can J Plant Pathol 28:144–151

    Article  Google Scholar 

  22. Tripathi S, Suzuki JY, Ferreira SA, Gonsalves D (2008) Papaya ringspot virus-P: characteristics, pathogenicity, sequence variability and control. Mol Plant Pathol 9(3):269–280

    PubMed  Article  CAS  Google Scholar 

  23. Tsuneyoshi T, Matsumi T, Natsuaki KT, Sumi S (1998) Nucleotide sequence analysis of virus isolates indicates the presence of three potyvirus species in Allium plants. Arch Virol 143:97–113

    PubMed  Article  CAS  Google Scholar 

  24. Van Dijk P (1993) Survey and characterization of potyviruses and their strains of Allium species. Neth J Plant Pathol 99:1–48

    Article  Google Scholar 

Download references


This study was carried out at IPAVE-CIAP-INTA and was partially supported by INTA and CONICET. We are grateful to Dr. R. Delhey for critically reading the manuscript, and to Dr. N. Bejerman for assistance with bioinformatic analysis.

Author information

Authors and Affiliations


Corresponding author

Correspondence to V. C. Conci.

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Celli, M.G., Torrico, A.K., Kiehr, M. et al. Striking differences in the biological and molecular properties of onion and garlic isolates of onion yellow dwarf virus. Arch Virol 158, 1377–1382 (2013).

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI:


  • Coat Protein
  • Soybean Mosaic Virus
  • Bean Yellow Mosaic Virus
  • Species Demarcation
  • Onion Plant