ArticleNucleic acids research2006
Unbiased in vitro selection reveals the unique character of the self-cleaving antigenomic HDV RNA sequence.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 30 citations in OpenAlex.
- Hepatitis Delta Virus (HDV) and Delta-Like Agents: Insights Into Their Origin.Frontiers in microbiology · 2021Review
- Secondary structure confirmation and localization of Mg2+ ions in the mammalian CPEB3 ribozyme.RNA (New York, N.Y.) · 2016Article
- Integration, Regulation, and Long-Term Stability of R2 Retrotransposons.Microbiology spectrum · 2015Review
- Article
- R2 and R2/R1 hybrid non-autonomous retrotransposons derived by internal deletions of full-length elements.Mobile DNA · 2012Article
- Characterization of the trans Watson-Crick GU base pair located in the catalytic core of the antigenomic HDV ribozyme.PloS one · 2012Article
- Processing and translation initiation of non-long terminal repeat retrotransposons by hepatitis delta virus (HDV)-like self-cleaving ribozymes.The Journal of biological chemistry · 2011Article
- Computational discovery of folded RNA domains in genomes and in vitro selected libraries.Methods (San Diego, Calif.) · 2010Review
- R2 retrotransposons encode a self-cleaving ribozyme for processing from an rRNA cotranscript.Molecular and cellular biology · 2010Article
- Modulating RNA structure and catalysis: lessons from small cleaving ribozymes.Cellular and molecular life sciences : CMLS · 2009Review
- Examination of the folding pathway of the antigenomic hepatitis delta virus ribozyme reveals key interactions of the L3 loop.RNA (New York, N.Y.) · 2007Article
- A novel structural rearrangement of hepatitis delta virus antigenomic ribozyme.Nucleic acids research · 2007Article
- Antigenomic delta ribozyme variants with mutations in the catalytic core obtained by the in vitro selection method.Nucleic acids research · 2006Article
- The R2 retrotransposon RNA families.RNA biologyArticle
- HDV-like self-cleaving ribozymes.RNA biologyArticle
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
In order to revisit the architecture of the catalytic center of the antigenomic hepatitis delta virus (HDV) ribozyme we developed an unbiased in vitro selection procedure that efficiently selected novel variants from a relatively small set of sequences. Using this procedure we examined all possible variants from a pool of HDV ribozymes that had been randomized at 25 positions (4(25)). The isolated set of sequences shows more variability than do the natural variants. Nucleotide variations were found at all randomized positions, even at positions when the general belief was that the specific base was absolutely required for catalytic activity. Covariation analysis supports the presence of several base pairs, although it failed to propose any new tertiary contacts. HDV ribozyme appears to possess a greater number of constraints, in terms of sequences capable of supporting the catalysed cleavage, than do other catalytic RNAs. This supports the idea that the appearance of this catalytic RNA structure has a low probability (i.e. is a rare event), which may explain why to date it has been found in nature only in the HDV. These contrasts with the hammerhead self-cleaving motif that is proposed to have multiple origins, and that is widespread among different organisms. Thus, just because a self-cleaving RNA motif is small does not imply that it occurs easily.
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