The DOI matches its Crossref record; 76 of the 76 references it cites were found in a registry or an index.
Balanced Codon Usage Optimizes Eukaryotic Translational Efficiency
Open accessAbstract
Cellular efficiency in protein translation is an important fitness determinant in rapidly growing organisms. It is widely believed that synonymous codons are translated with unequal speeds and that translational efficiency is maximized by the exclusive use of rapidly translated codons. Here we estimate the in vivo translational speeds of all sense codons from the budding yeast Saccharomyces cerevisiae. Surprisingly, preferentially used codons are not translated faster than unpreferred ones. We hypothesize that this phenomenon is a result of codon usage in proportion to cognate tRNA concentrations, the optimal strategy in enhancing translational efficiency under tRNA shortage. Our predicted codon-tRNA balance is indeed observed from all model eukaryotes examined, and its impact on translational efficiency is further validated experimentally. Our study reveals a previously unsuspected mechanism by which unequal codon usage increases translational efficiency, demonstrates widespread natural selection for translational efficiency, and offers new strategies to improve synthetic biology.
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Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling
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Global analysis of protein expression in yeast
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The ‘effective number of codons’ used in a gene
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Cited by
Codon Optimality Is a Major Determinant of mRNA Stability
Presnyak, V., Alhusaini, N., Chen, Y.-H., Martin, S., Morris, N., Kline, N., Olson, S., Weinberg, D., Baker, K. E., Graveley, B. R., et al. (2015) · Cell · doi:10.1016/j.cell.2015.02.029 · Cited by 1,078
“Several ribosomal profiling studies have failed to detect codon-specific differences in the translation of optimal and non-optimal codons (Ingolia et al., 2009; Qian et al., 2012; Charneski and Hurst, 2013).”
BackgroundCodon optimality, bias and usage in translation and mRNA decay
Hanson, G., & Coller, J. (2018) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm.2017.91 · Cited by 825
Ribosome profiling: new views of translation, from single codons to genome scale
Ingolia, N. T. (2014) · Nature Reviews Genetics · doi:10.1038/nrg3645 · Cited by 632
Rate-Limiting Steps in Yeast Protein Translation
Shah, P., Ding, Y., Niemczyk, M., Kudla, G., & Plotkin, J. B. (2013) · Cell · doi:10.1016/j.cell.2013.05.049 · Cited by 463
Weinberg, D. E., Shah, P., Eichhorn, S. W., Hussmann, J. A., Plotkin, J. B., & Bartel, D. P. (2016) · Cell Reports · doi:10.1016/j.celrep.2016.01.043 · Cited by 392
Metadata
- Authors
- Qian, W., Yang, J.-R., Pearson, N. M., Maclean, C., & Zhang, J.
- Venue
- PLoS Genetics
- Publisher
- Public Library of Science (PLoS)
- Published
- 2012-03-29
- Volume
- 8
- Issue
- 3
- Pages
- e1002603
- ISSN
- 1553-7390 (ISSN-L)
- 1553-7404
- OpenAlex
- W1974394989
- Cited by
- 310
- References
- 76
- FWCI
- 11.97
- Type
- journal article
- Language
- en
- Open access
- gold
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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