Genomic sequencing and analysis of Chilli ringspot virus, a novel potyvirus

Virus Genes. 2011 Dec;43(3):439-44. doi: 10.1007/s11262-011-0652-2. Epub 2011 Aug 17.

Abstract

Chilli ringspot virus (ChiRSV), a novel potyvirus, was recently found in Hainan, China with high prevalence. The genomic sequence of the ChiRSV-HN/14 isolate was determined by sequencing overlapping cDNA segments generated by reverse transcription polymerase chain reaction with degenerate and/or specific primers. ChiRSV genome (GenBank Acc. no. JN008909) comprised of 9,571 nucleotides (nt) excluding the 3'-terminal poly (A) tail and contained a large open reading frame of 9,240 nt encoding a large polyprotein of 3,079 amino acids with predicted Mr of 349.1 kDa. A small, overlapping PIPO coding region was also found to span from nt 2,913 to 3,095, with a capacity to encode a peptide of 60 amino acids. ChiRSV shares sequence identities of only 48.5-65.4 and 42.9-68.7% with closely related potyviruses at the nucleotide and the amino acid levels, respectively. Phylogenetic analysis of the genomic sequences provided further evidence that ChiRSV is a distinct species of the Potyvirus genus. ChiRSV-HN/14 is most closely related to Tobacco vein banding mosaic virus and two other pepper-infecting potyviruses.

MeSH terms

  • Base Sequence
  • Capsicum / virology*
  • Genome, Viral*
  • Molecular Sequence Data
  • Phylogeny
  • Plant Diseases / virology*
  • Potyvirus / classification
  • Potyvirus / genetics*
  • Potyvirus / isolation & purification*