ArticleNucleic acids research2012
mRNA pseudoknot structures can act as ribosomal roadblocks.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
45 citing papers in PubMed.
- Hierarchical analysis of RNA secondary structures with pseudoknots based on sections.PLoS computational biology · 2026Article
- Ribosome-induced mRNA pseudoknot interactions visualized by DMS MaP-Seq.bioRxiv : the preprint server for biology · 2025Article
- RNA elements required for the high efficiency of West Nile virus-induced ribosomal frameshifting.Nucleic acids research · 2025Article
- Is there a localized role for translational quality control?RNA (New York, N.Y.) · 2023Article
- Comprehensive quantitative modeling of translation efficiency in a genome-reduced bacterium.Molecular systems biology · 2023Article
- RNA levers and switches controlling viral gene expression.Trends in biochemical sciences · 2023Review
- Investigating molecular mechanisms of 2A-stimulated ribosomal pausing and frameshifting in Theilovirus.Nucleic acids research · 2021Article
- High-throughput interrogation of programmed ribosomal frameshifting in human cells.Nature communications · 2020Article
- Robust landscapes of ribosome dwell times and aminoacyl-tRNAs in response to nutrient stress in liver.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- An RNA pseudoknot stimulates HTLV-1RNA (New York, N.Y.) · 2020Article
- Structure and diversity of 13S globulin zero-repeat subunit, the trypsin-resistant storage protein of common buckwheat (Breeding science · 2020Article
- The landscape of eukaryotic mRNPs.RNA (New York, N.Y.) · 2020Review
- Absolute quantification of translational regulation and burden using combined sequencing approaches.Molecular systems biology · 2019Article
- Structural evidence for product stabilization by the ribosomal mRNA helicase.RNA (New York, N.Y.) · 2019Article
- Global importance of RNA secondary structures in protein-coding sequences.Bioinformatics (Oxford, England) · 2019Article
- Article
- PausePred and Rfeet: webtools for inferring ribosome pauses and visualizing footprint density from ribosome profiling data.RNA (New York, N.Y.) · 2018Article
- Pausing of Chloroplast Ribosomes Is Induced by Multiple Features and Is Linked to the Assembly of Photosynthetic Complexes.Plant physiology · 2018Article
- Age-dependent methylation in epigenetic clock CpGs is associated with G-quadruplex, co-transcriptionally formed RNA structures and tentative splice sites.Epigenetics · 2018Article
- Over-expression of a human CD62L ecto-domain and a potential role of RNA pseudoknot structures in recombinant protein expression.Protein expression and purification · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Several viruses utilize programmed ribosomal frameshifting mediated by mRNA pseudoknots in combination with a slippery sequence to produce a well defined stochiometric ratio of the upstream encoded to the downstream-encoded protein. A correlation between the mechanical strength of mRNA pseudoknots and frameshifting efficiency has previously been found; however, the physical mechanism behind frameshifting still remains to be fully understood. In this study, we utilized synthetic sequences predicted to form mRNA pseudoknot-like structures. Surprisingly, the structures predicted to be strongest lead only to limited frameshifting. Two-dimensional gel electrophoresis of pulse labelled proteins revealed that a significant fraction of the ribosomes were frameshifted but unable to pass the pseudoknot-like structures. Hence, pseudoknots can act as ribosomal roadblocks, prohibiting a significant fraction of the frameshifted ribosomes from reaching the downstream stop codon. The stronger the pseudoknot the larger the frameshifting efficiency and the larger its roadblocking effect. The maximal amount of full-length frameshifted product is produced from a structure where those two effects are balanced. Taking ribosomal roadblocking into account is a prerequisite for formulating correct frameshifting hypotheses.
Indexed as
Identifiers
What 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.