Nucleotide sequence of the coat protein gene of a strain of clover yellow vein virus from New Zealand: conservation of a stem-loop structure in the 3' region of potyviruses.
The sequence of the 3'-terminal 1492 nucleotides of the genome of a New Zealand isolate of clover yellow vein potyvirus (CYVV) has been determined. This sequence encodes a large open reading frame of 1314 nucleotides, the start of which was not identified, but which encodes a putative 272 amino acid coat protein. Downstream of the coat protein coding region is a 177 nucleotide untranslated sequence terminated by a polyadenylate tract. Comparison of the deduced CYVV-NZ coat protein amino acid sequence with two other strains of CYVV showed 86-93% similarity, suggesting CYVV-NZ should be regarded as a separate CYVV strain. CYVV-NZ shares with other CYVV strains a direct repeat of 14-16 nucleotides that is capable of forming a stem-loop structure. Examination of 35 strains of 15 other potyviruses showed a similar stem-loop structure conserved in all cases. A possible role in replication is hypothesized for the structure.
Bryan
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DSIR Plant Protection, Auckland, New Zealand.
Gardner
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Forster
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D000595:Amino Acid Sequence; D001483:Base Sequence; D002213:Capsid / Q000737:chemistry / Q000235:genetics*; D007887:Fabaceae / Q000382:microbiology*; D008969:Molecular Sequence Data; D009520:New Zealand; D009690:Nucleic Acid Conformation; D010935:Plant Diseases / Q000235:genetics*; D010942:Plant Viruses / Q000235:genetics* / Q000302:isolation & purification / Q000472:pathogenicity; D010946:Plants, Medicinal; D012367:RNA, Viral / Q000235:genetics*; D012689:Sequence Homology, Nucleic Acid; D014771:Virion / Q000302:isolation & purification; D014779:Virus Replication
D012367:RNA, Viral