ArticleProceedings of the National Academy of Sciences of the United States of America2020
Robust landscapes of ribosome dwell times and aminoacyl-tRNAs in response to nutrient stress in liver.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 51 citations in OpenAlex.
- Review
- Article
- Untargeted Blubber Metabolomics Reveals Biochemical Signatures Associated with Physiological Status in Live, Free-Ranging Bottlenose Dolphins.Metabolites · 2026Article
- RiboScreenBiomedicines · 2026Review
- Single-mRNA imaging and modeling reveal coupled translation initiation and elongation rates.eLife · 2026Article
- Conditional deep learning model reveals translation elongation determinants during amino acid deprivation.Communications biology · 2025Article
- Codon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation.Genome biology · 2025Article
- Profiling of terminating ribosomes reveals translational control at stop codons.bioRxiv : the preprint server for biology · 2025Article
- Ageing-related decline of translation as a consequence of transcription dysregulation.Journal of the Royal Society, Interface · 2025Article
- Connecting tRNA Charging and Decoding through the Axis of Nucleotide Modifications at Position 37.Journal of molecular biology · 2025Review
- Effects of fasting and inflammatory challenges on the swine hepatic metabolome.Comparative biochemistry and physiology. Part D, Genomics & proteomics · 2025Article
- tRNA regulation and amino acid usage bias reflect a coordinated metabolic adaptation iniScience · 2024Article
- Selective gene expression maintains human tRNA anticodon pools during differentiation.Nature cell biology · 2024Article
- Decoding of translation-regulating entities reveals heterogeneous translation deficiency patterns in cellular senescence.Aging cell · 2023Article
- Translational Control of Metabolism and Cell Cycle Progression in Hepatocellular Carcinoma.International journal of molecular sciences · 2023Review
- Review
- V-ATPase/TORC1-mediated ATFS-1 translation directs mitochondrial UPR activation in C. elegans.The Journal of cell biology · 2023Article
- Article
- Combined modelling of mRNA decay dynamics and single-molecule imaging in the Drosophila embryo uncovers a role for P-bodies in 5' to 3' degradation.PLoS biology · 2023Article
- A critical period of translational control during brain development at codon resolution.Nature structural & molecular biology · 2022Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Translation depends on messenger RNA (mRNA)-specific initiation, elongation, and termination rates. While translation elongation is well studied in bacteria and yeast, less is known in higher eukaryotes. Here we combined ribosome and transfer RNA (tRNA) profiling to investigate the relations between translation elongation rates, (aminoacyl-) tRNA levels, and codon usage in mammals. We modeled codon-specific ribosome dwell times from ribosome profiling, considering codon pair interactions between ribosome sites. In mouse liver, the model revealed site- and codon-specific dwell times that differed from those in yeast, as well as pairs of adjacent codons in the P and A site that markedly slow down or speed up elongation. While translation efficiencies vary across diurnal time and feeding regimen, codon dwell times were highly stable and conserved in human. Measured tRNA levels correlated with codon usage and several tRNAs showed reduced aminoacylation, which was conserved in fasted mice. Finally, we uncovered that the longest codon dwell times could be explained by aminoacylation levels or high codon usage relative to tRNA abundance.
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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.