Summary.
Degenerate primers for RT-PCR were designed and used to amplify genome fragments (c. 750 nt in the coat protein-ORF6 region) of allexiviruses from a total of 28 garlic samples from 24 provinces in China. Many samples contained more than one distinct sequence. A total of 60 different sequences were obtained. Phylogenetic analysis and two-way comparisons were used to assess the status of the sequences and to re-examine the criteria for distinguishing species within the genus. Most of the sequences could be allocated to either Garlic virus D or Garlic virus X on the basis of sequence similarity but some appeared to be intermediate between existing species. There were no sequences of Garlic virus C or Shallot virus X. A comparison with the related genera Carlavirus, Foveavirus and Potexvirus suggests that the published allexivirus species demarcation criteria may have been drawn too tightly and should be re-examined.
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Chen, J., Zheng, HY., Antoniw, J. et al. Detection and classification of allexiviruses from garlic in China. Arch Virol 149, 435–445 (2004). https://doi.org/10.1007/s00705-003-0234-2
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DOI: https://doi.org/10.1007/s00705-003-0234-2