ArticleMolecular plant pathology2011
Mapping studies of the Peach latent mosaic viroid reveal novel structural features.
Article in Molecular plant pathology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- A scenario for the emergence of protoviroids in the RNA world and for their further evolution into viroids and viroid-like RNAs by modular recombinations and mutations.Virus evolution · 2022Review
- Characteristic chemical probing patterns of loop motifs improve prediction accuracy of RNA secondary structures.Nucleic acids research · 2021Article
- Functional analysis reveals G/U pairs critical for replication and trafficking of an infectious non-coding viroid RNA.Nucleic acids research · 2020Article
- Direct visualization of the native structure of viroid RNAs at single-molecule resolution by atomic force microscopy.RNA biology · 2019Article
- Viroid Diseases in Pome and Stone Fruit Trees and Koch's Postulates: A Critical Assessment.Viruses · 2018Review
- Interference between variants of peach latent mosaic viroid reveals novel features of its fitness landscape: implications for detection.Scientific reports · 2017Article
- Article
- The transcription initiation sites of eggplant latent viroid strands map within distinct motifs in their in vivo RNA conformations.RNA biology · 2016Article
- Elucidation of the structures of all members of the Avsunviroidae family.Molecular plant pathology · 2014Article
- Structural analyses of Avocado sunblotch viroid reveal differences in the folding of plus and minus RNA strands.Viruses · 2014Article
- Comprehensive secondary structure elucidation of four genera of the family Pospiviroidae.PloS one · 2014Article
- Deep-sequencing of the peach latent mosaic viroid reveals new aspects of population heterogeneity.PloS one · 2014Article
- The use of a combination of computer-assisted structure prediction and SHAPE probing to elucidate the secondary structures of five viroids.Molecular plant pathology · 2012Article
- Viroids: from genotype to phenotype just relying on RNA sequence and structural motifs.Frontiers in microbiology · 2012Article
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4 authors.
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Abstract
Knowledge of the structure of a viroid is critically important to elucidate the roles played by the various RNA motifs in the steps of the viroid's life cycle. A new technique, RNA-selective 2'-hydroxyl acylation analysed by primer extension (SHAPE), has recently been shown to be fast, reliable and applicable to the study of various RNA molecules. Consequently, this method was used to probe sequence variants of Peach latent mosaic viroid (PLMVd). Initially, probing data from RNA strands of both polarities of the Siberian C variant confirmed the secondary structures previously determined using both conventional and fastidious approaches. Subsequently, analysis of an Alberta variant showed an identical structure for the strand of (-) polarity, but the (+) polarity strand exhibited two differences from the Siberian C variant: the P11-L11 stem-loop domain formed a cruciform structure, and nucleotides from loops L1 and L11 were involved in the formation of a pseudoknot. The existence of both of these motifs was confirmed by site-directed mutagenesis. The subsequent probing of 12 natural sequence variants led to the elucidation of the criteria governing the formation of this novel pseudoknot. Importantly, this study revealed that the heterogeneity of a viroid is not limited to its nucleotide sequence, but may also occur at the structural level.
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