ArticleRNA (New York, N.Y.)2006
Conformational organization of the 3' untranslated region in the tomato bushy stunt virus genome.
Article in RNA (New York, N.Y.), 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 24 citations in OpenAlex.
- Ryegrass mottle virus complete genome determination and development of infectious cDNA by combining two methods- 3' RACE and RNA-Seq.PloS one · 2023Article
- A plant-infecting subviral RNA associated with poleroviruses produces a subgenomic RNA which resists exonuclease XRN1 in vitro.Virology · 2022Article
- The RNA of Maize Chlorotic Mottle Virus, an Obligatory Component of Maize Lethal Necrosis Disease, Is Translated via a Variant Panicum Mosaic Virus-Like Cap-Independent Translation Element.Journal of virology · 2020Article
- Nuclear Magnetic Resonance Study of RNA Structures at the 3'-End of the Hepatitis C Virus Genome.Biochemistry · 2017Article
- Atypical RNA Elements Modulate Translational Readthrough in Tobacco Necrosis Virus D.Journal of virology · 2017Article
- Biologically-supported structural model for a viral satellite RNA.Nucleic acids research · 2015Article
- Global organization of a positive-strand RNA virus genome.PLoS pathogens · 2013Article
- Multifaceted regulation of translational readthrough by RNA replication elements in a tombusvirus.PLoS pathogens · 2011Article
- A discontinuous RNA platform mediates RNA virus replication: building an integrated model for RNA-based regulation of viral processes.PLoS pathogens · 2009Article
- Viral RNA pseudoknots: versatile motifs in gene expression and replication.Nature reviews. Microbiology · 2007Review
- A multicomponent RNA-based control system regulates subgenomic mRNA transcription in a tombusvirus.Journal of virology · 2007Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The 3' untranslated regions (UTRs) of positive-strand RNA viruses often form complex structures that facilitate various viral processes. We have examined the RNA conformation of the 352 nucleotide (nt) long 3' UTR of the Tomato bushy stunt virus (TBSV) genome with the goal of defining both local and global structures that are important for virus viability. Gel mobility analyses of a 3'-terminal 81 nt segment of the 3' UTR revealed that it is able to form a compact RNA domain (or closed conformation) that is stabilized by a previously proposed tertiary interaction. RNA-RNA gel shift assays were used to provide the first physical evidence for the formation of this tertiary interaction and revealed that it represents the dominant or "default" structure in the TBSV genome. Further analysis showed that the tertiary interaction involves five base pairs, each of which contributes differently to overall complex stability. Just upstream from the 3'-terminal domain, a long-distance RNA-RNA interaction involving 3' UTR sequences was found to be required for efficient viral RNA accumulation in vivo and to also contribute to the formation of the 3'-terminal domain in vitro. Collectively, these results provide a comprehensive overview of the conformational and functional organization of the 3' UTR of the TBSV genome.
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