Deep sequencing analysis of RNAs from a grapevine showing Syrah decline symptoms reveals a multiple virus infection that includes a novel virus

Virology. 2009 May 10;387(2):395-401. doi: 10.1016/j.virol.2009.02.028.


In a search for viruses associated with decline symptoms of Syrah grapevines, we have undertaken an analysis of total plant RNA sequences using Life Sciences 454 high-throughput sequencing. 67.5 megabases of sequence data were derived from reverse-transcribed cDNA fragments, and screened for sequences of viral or viroid origin. The data revealed that a vine showing decline symptoms supported a mixed infection that included seven different RNA genomes. Fragments identified as derived from viruses or viroids spanned a approximately ten thousand fold range in relative prevalence, from 48,278 fragments derived from Rupestris stem pitting-associated virus to 4 fragments from Australian grapevine viroid. 1527 fragments were identified as derived from an unknown marafivirus. Its complete genome was sequenced and characterized, and an RT-PCR test was developed to analyze its field distribution and to demonstrate its presence in leafhoppers (vector for marafiviruses) collected from diseased vines. Initial surveys detected a limited presence of the virus in grape-growing regions of California.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Genome, Viral
  • Phylogeny
  • Plant Diseases / virology*
  • RNA, Plant / genetics
  • RNA, Viral / genetics
  • Tymoviridae / classification*
  • Tymoviridae / genetics
  • Tymoviridae / isolation & purification
  • Vitis / virology*


  • RNA, Plant
  • RNA, Viral