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ARS Home » Pacific West Area » Davis, California » Crops Pathology and Genetics Research » Research » Publications at this Location » Publication #295074

Research Project: Integrated Strategies for Advanced Management of Fruit, Nut, and Oak Tree Diseases

Location: Crops Pathology and Genetics Research

Title: Gene from a novel plant virus satellite from grapevine identifies a viral satellite lineage

Author
item Al Rwahnih, Maher - University Of California
item Daubert, Steve - University Of California
item Sudarshana, Mysore
item Rowhani, Adib - University Of California

Submitted to: Virus Genes
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 5/24/2013
Publication Date: 8/1/2013
Publication URL: http://link.springer.com/article/10.1007/s11262-013-0921-3
Citation: Al Rwahnih, M., Daubert, S.D., Sudarshana, M.R., Rowhani, A. 2013. Gene from a novel plant virus satellite from grapevine identifies a viral satellite lineage. Virus Genes. 47:114-118.

Interpretive Summary: We have identified the genome of a novel viral satellite in deep sequence analysis of double-stranded RNA from grapevine. The genome was 1,060 bases in length, and encoded two open reading frames. Neither frame was related to any known plant virus gene. But translation of the longer frame showed a protein sequence similar to those of other plant virus satellites. Other than in commonalities they shared in this gene sequence, members of that group were extensively divergent. The reading frame in this gene from the novel satellite could be translationally coupled to an adjacent reading frame in the -1 register, through overlapping start/stop codons. These overlapping AUGA start/stop codons were adjacent to a sequence that could be folded into a pseudoknot structure. Field surveys with PCR probes specific for the novel satellite revealed its presence in 3 % of the grapevines (n = 346) sampled.

Technical Abstract: We have identified the genome of a novel viral satellite in deep sequence analysis of double-stranded RNA from grapevine. The genome was 1,060 bases in length, and encoded two open reading frames. Neither frame was related to any known plant virus gene. But translation of the longer frame showed a protein sequence similar to those of other plant virus satellites. Other than in commonalities they shared in this gene sequence, members of that group were extensively divergent. The reading frame in this gene from the novel satellite could be translationally coupled to an adjacent reading frame in the -1 register, through overlapping start/stop codons. These overlapping AUGA start/stop codons were adjacent to a sequence that could be folded into a pseudoknot structure. Field surveys with PCR probes specific for the novel satellite revealed its presence in 3 % of the grapevines (n = 346) sampled.