Complete nucleotide sequence of an isolate of the nepovirus raspberry ringspot virus from grapevine

Virus Res. 2003 Nov;97(2):141-4. doi: 10.1016/j.virusres.2003.08.001.

Abstract

The complete nucleotide sequence of the RNAs 1 and 2 of the nepovirus Raspberry ringspot virus cherry isolate (RpRSV-ch) from grapevine was determined. The RNA 1 is 7935 nucleotides (nt) long excluding the poly(A) tail, and contains one long open reading frame (ORF) encoding a polypeptide of 2367 amino acids. This ORF is preceeded by a 136nt 5' non-coding region, and followed by a 695nt 3' non-coding region. Conserved amino acid motifs, characteristic of the viral protease cofactor, the NTP-binding protein, proteinase and polymerase, were found in the sequence of the RNA 1-encoded polyprotein. The RNA 2 is 3915nt long excluding the poly(A) tail, and contains one long ORF encoding a polypeptide of 1106 amino acids. This ORF is preceeded by a 203nt 5' non-coding region, and followed by a 390nt 3' non-coding region. When compared to the corresponding sequences of other nepoviruses, a maximum level of 34% identity was found between the RNA 1-encoded polypetides of RpRSV-ch and other nepoviruses. For the RNA 2-encoded polypeptide, 88% identity was found between RpRSV-ch and RpRSV-S, a Scottish isolate of RpRSV from raspberry, and a maximum 29% identity between RpRSV-ch and other nepoviruses.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • 3' Untranslated Regions / genetics
  • 5' Untranslated Regions / genetics
  • Amino Acid Motifs / genetics
  • Base Sequence
  • Cloning, Molecular
  • Molecular Sequence Data
  • Nepovirus / genetics*
  • Nepovirus / isolation & purification*
  • Open Reading Frames / genetics
  • Polyproteins / genetics
  • RNA, Viral / genetics
  • RNA, Viral / isolation & purification
  • Sequence Analysis, DNA
  • Transcription, Genetic
  • Viral Proteins / genetics
  • Vitis / virology*

Substances

  • 3' Untranslated Regions
  • 5' Untranslated Regions
  • Polyproteins
  • RNA, Viral
  • Viral Proteins

Associated data

  • GENBANK/AY303787
  • GENBANK/AY303788