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Taxonomic relationships between distinct potato virus Y isolates based on detailed comparisons of the viral coat proteins and 3′-nontranslated regions

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Summary

Detailed comparisons were made of the sequences of the coat protein (CP) cistrons and 3′-nontranslated regions (3′-NTR) of 21 (geographically) distinct isolates of potato virus Y (PVY) and a virus isolate initially described as pepper mottle virus (PepMoV). Multiple sequence alignments and phylogenetic relationships based on these alignments resulted into a subgrouping of virus isolates which largely corresponded with the historical strain differentiation based on biological criteria as host range, symptomatology and serology. Virus isolates belonging to the same subgroup shared a number of characteristic CP amino acid and 3′-NTR nucleotide residues indicating that, by using sequences from the 3′-terminal region of the potyvirus genome, a distinction could be made between different isolates of one virus species as well as between different virus species. RNA secondary structure analysis of the 3′-NTR of twelve PVY isolates revealed four major stem-loop structures of which, surprisingly, the loop sequences gave a similar clustering of isolates as resulting from the overall comparisons of CP and 3′-NTR sequences. This implies a biological significance of these structural elements.

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Authors and Affiliations

  1. Department of Virology, Wageningen Agricultural University, Wageningen

    R. A. A. van der Vlugt & R. Goldbach

  2. CAOS/CAMM Center, University of Nijmegen, Nijmegen, The Netherlands

    J. Leunissen

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  1. R. A. A. van der Vlugt
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  2. J. Leunissen
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  3. R. Goldbach
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van der Vlugt, R.A.A., Leunissen, J. & Goldbach, R. Taxonomic relationships between distinct potato virus Y isolates based on detailed comparisons of the viral coat proteins and 3′-nontranslated regions. Archives of Virology 131, 361–375 (1993). https://doi.org/10.1007/BF01378638

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