ArticleRNA (New York, N.Y.)1995
In vivo structural analysis of spliced leader RNAs in Trypanosoma brucei and Leptomonas collosoma: a flexible structure that is independent of cap4 methylations.
Article in RNA (New York, N.Y.), 1995. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 45 citations in OpenAlex.
- Structural basis of step II spliced leader RNA trans-splicing in trypanosomatid parasites.Nature communications · 2026Article
- Recent Advances in Chemical Probing Strategies for RNA Structure Determination In Vivo.Chemistry (Weinheim an der Bergstrasse, Germany) · 2026Review
- Decoding the lncRNA World: Comprehensive Approaches to lncRNA Structure and Interactome Studies.Cells · 2026Review
- Structural basis of Spliced Leader RNA recognition by the Trypanosoma brucei cap-binding complex.Nature communications · 2025Article
- RNAProbe: a web server for normalization and analysis of RNA structure probing data.Nucleic acids research · 2020Article
- Probing RNA structure in vivo.Current opinion in structural biology · 2019Review
- In vivo RNA structural probing of uracil and guanine base-pairing by 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC).RNA (New York, N.Y.) · 2019Article
- Glyoxals as in vivo RNA structural probes of guanine base-pairing.RNA (New York, N.Y.) · 2018Article
- On the Possibility of an Early Evolutionary Origin for the Spliced Leader Trans-Splicing.Journal of molecular evolution · 2017Review
- The Conservation and Function of RNA Secondary Structure in Plants.Annual review of plant biology · 2016Review
- An implementation of the Gillespie algorithm for RNA kinetics with logarithmic time update.Nucleic acids research · 2015Article
- Genome-wide profiling of in vivo RNA structure at single-nucleotide resolution using structure-seq.Nature protocols · 2015Article
- Folding and finding RNA secondary structure.Cold Spring Harbor perspectives in biology · 2010Review
- Mutational analysis of a Dcp2-binding element reveals general enhancement of decapping by 5'-end stem-loop structures.Nucleic acids research · 2009Article
- Trypanosome spliced-leader-associated RNA (SLA1) localization and implications for spliced-leader RNA biogenesis.Eukaryotic cell · 2009Article
- A protein related to the vaccinia virus cap-specific methyltransferase VP39 is involved in cap 4 modification in Trypanosoma brucei.RNA (New York, N.Y.) · 2006Article
- Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure.Proceedings of the National Academy of Sciences of the United States of America · 2004Article
- Identification of mRNA decapping activities and an ARE-regulated 3' to 5' exonuclease activity in trypanosome extracts.Nucleic acids research · 2002Article
- The spliced leader-associated RNA is a trypanosome-specific sn(o) RNA that has the potential to guide pseudouridine formation on the SL RNA.RNA (New York, N.Y.) · 2002Article
- Unconventional rules of small nuclear RNA transcription and cap modification in trypanosomatids.Gene expression · 2002Review
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
The formation of the mRNA 5' end in trypanosomatid protozoa is carried out by trans-splicing, which transfers a spliced leader (SL) sequence and its hypermethylated cap (cap4) from the SL RNA to the pre-mRNA. Previous in vitro studies with synthetic uncapped RNAs have shown that the SL sequence of Leptomonas collosoma can assume two alternate conformations, Form 1 and Form 2, with Form 1 being the dominant one. To gain information about the structure of the SL RNA in vivo, in its protein-rich environment, we have used permeable Trypanosoma brucei and L. collosoma cells for chemical modification experiments. We introduce the use in vivo of the water-soluble reagents CMCT and kethoxal. In contrast to the in vitro results, the Form 2 secondary structure predominates. However, there are chemically accessible regions that suggest conformational flexibility in SL RNPs and a chemically inaccessible region suggestive of protection by protein or involvement in tertiary interactions. Using complementary 2'-O-methyl RNA oligonucleotides, we show that T. brucei SL RNA can be induced to switch conformation in vivo. SL RNA stripped of proteins and probed in vitro does not display the same Form 2 bias, indicating that SL RNA structure is determined, at least in part, by its RNP context. Finally, the methyl groups of the cap4 do not seem to affect the secondary structure of T. brucei SL RNA, as shown by chemical modification of undermethylated SL RNA probed in vivo.
Indexed as
Identifiers
7493314PMC1482413W1767538696What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.