ArticleMolecular plant pathology2012
The use of a combination of computer-assisted structure prediction and SHAPE probing to elucidate the secondary structures of five viroids.
Article in Molecular plant pathology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 25 citations in OpenAlex.
- Novel Viroid-Like RNAs Naturally Infect a Filamentous Fungus.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- A nuclear import pathway exploited by pathogenic noncoding RNAs.The Plant cell · 2022Article
- Studies on Viroid Shed Light on the Role of RNA Three-Dimensional Structural Motifs in RNA Trafficking in Plants.Frontiers in plant science · 2022Review
- Long Noncoding RNAs in Plant Viroids and Viruses: A Review.Pathogens (Basel, Switzerland) · 2020Review
- Functional analysis reveals G/U pairs critical for replication and trafficking of an infectious non-coding viroid RNA.Nucleic acids research · 2020Article
- Article
- A dsRNA virus with filamentous viral particles.Nature communications · 2017Article
- Article
- RNA G-quadruplexes and their potential regulatory roles in translation.Translation (Austin, Tex.) · 2016Review
- Visualizing the global secondary structure of a viral RNA genome with cryo-electron microscopy.RNA (New York, N.Y.) · 2015Article
- 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
- RNA secondary structure prediction using high-throughput SHAPE.Journal of visualized experiments : JoVE · 2013Article
- Article
- Viroids: from genotype to phenotype just relying on RNA sequence and structural motifs.Frontiers in microbiology · 2012Article
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
Abstract
The elucidation of the structures of viroids, noncoding infectious RNA species, is paramount to obtain an understanding of the various aspects of their life cycles (including replication, transport and pathogenesis). In general, the secondary structures of viroids have been predicted using computer software programs which have been shown to possess several important limitations. Clearly, the predicted structure of a viroid needs to receive physical support prior to its use in the accurate interpretation of any mechanistic studies. Here, SHAPE probing coupled to computer-assisted structure prediction using the RNAstructure software program was employed to determine the structures of five viroids. These species belong to four genera of the Pospiviroidae family, and none have had their structure characterized in solution. In addition, several interesting questions were addressed by either studying various sequence variants or varying the SHAPE conditions. More importantly, this approach is novel in the study of viroids, and should be of significant aid in the determination of the structures of other RNA species.
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