Structural analysis of a necrogenic strain of cucumber mosaic cucumovirus satellite RNA in planta

Gerardo Rodriguez-Alvarado, Marilyn J. Roossinck

Research output: Contribution to journalArticle

32 Citations (Scopus)

Abstract

Structural studies of plant viral RNA molecules have been based on in vitro chemical and enzymatic modification. That approach, along with mutational analysis, has proven valuable in predicting structural models for some plant viruses such as tobacco mosaic tobamovirus and brome mosaic bromovirus. However, in planta conditions may be dramatically different from those found in vitro. In this study we analyzed the structure of cucumber mosaic cucumovirus satellite RNA (sat RNA) strain D4 in vivo and compared it to the structures found in vitro and in purified virions. Following a methodology developed to determine the structure of 18S rRNA within intact plant tissues, different patterns of adenosine and cytosine modification were found for D4-sat RNA molecules in vivo, in vitro, and in virions. This chemical probing procedure identifies adenosine and cytosine residues located in unpaired regions of the RNA molecules. Methylation data, a genetic algorithm in the STAR RNA folding program, and sequence alignment comparisons of 78 satellite CMV RNA sequences were used to identify several helical regions located at the 5' and 3' ends of the RNA molecule. Data from previous mutational and sequence comparison studies between satellite RNA strains inducing necrosis in tomato plants and those strains not inducing necrosis allowed us to identify one helix and two tetraloop regions correlating with the necrogenicity syndrome.

Original languageEnglish (US)
Pages (from-to)155-166
Number of pages12
JournalVirology
Volume236
Issue number1
DOIs
StatePublished - Sep 15 1997

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Satellite RNAs
Cucumovirus
Cucumis sativus
Cytosine
Virion
Adenosine
Tobamovirus
Necrosis
Bromovirus
Bromus
Plant RNA
RNA Folding
RNA
Plant Viruses
Sequence Alignment
Structural Models
Viral RNA
Lycopersicon esculentum
Methylation
Tobacco

All Science Journal Classification (ASJC) codes

  • Virology

Cite this

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abstract = "Structural studies of plant viral RNA molecules have been based on in vitro chemical and enzymatic modification. That approach, along with mutational analysis, has proven valuable in predicting structural models for some plant viruses such as tobacco mosaic tobamovirus and brome mosaic bromovirus. However, in planta conditions may be dramatically different from those found in vitro. In this study we analyzed the structure of cucumber mosaic cucumovirus satellite RNA (sat RNA) strain D4 in vivo and compared it to the structures found in vitro and in purified virions. Following a methodology developed to determine the structure of 18S rRNA within intact plant tissues, different patterns of adenosine and cytosine modification were found for D4-sat RNA molecules in vivo, in vitro, and in virions. This chemical probing procedure identifies adenosine and cytosine residues located in unpaired regions of the RNA molecules. Methylation data, a genetic algorithm in the STAR RNA folding program, and sequence alignment comparisons of 78 satellite CMV RNA sequences were used to identify several helical regions located at the 5' and 3' ends of the RNA molecule. Data from previous mutational and sequence comparison studies between satellite RNA strains inducing necrosis in tomato plants and those strains not inducing necrosis allowed us to identify one helix and two tetraloop regions correlating with the necrogenicity syndrome.",
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Structural analysis of a necrogenic strain of cucumber mosaic cucumovirus satellite RNA in planta. / Rodriguez-Alvarado, Gerardo; Roossinck, Marilyn J.

In: Virology, Vol. 236, No. 1, 15.09.1997, p. 155-166.

Research output: Contribution to journalArticle

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