Codon usage of highly expressed genes affects proteome-wide translation efficiency

I Frumkin, MJ Lajoie, CJ Gregg… - Proceedings of the …, 2018 - National Acad Sciences
Although the genetic code is redundant, synonymous codons for the same amino acid are
not used with equal frequencies in genomes, a phenomenon termed “codon usage bias.” …

Codon bias as a means to fine-tune gene expression

TEF Quax, NJ Claassens, D Söll, J van der Oost - Molecular cell, 2015 - cell.com
The redundancy of the genetic code implies that most amino acids are encoded by multiple
synonymous codons. In all domains of life, a biased frequency of synonymous codons is …

Synonymous but not silent: the codon usage code for gene expression and protein folding

Y Liu, Q Yang, F Zhao - Annual review of biochemistry, 2021 - annualreviews.org
Codon usage bias, the preference for certain synonymous codons, is found in all genomes.
Although synonymous mutations were previously thought to be silent, a large body of …

Balanced codon usage optimizes eukaryotic translational efficiency

W Qian, JR Yang, NM Pearson, C Maclean… - PLoS genetics, 2012 - journals.plos.org
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 …

Synonymous Codon Usage in Escherichia coli: Selection for Translational Accuracy

N Stoletzki, A Eyre-Walker - Molecular biology and evolution, 2007 - academic.oup.com
In many organisms, selection acts on synonymous codons to improve translation. However,
the precise basis of this selection remains unclear in the majority of species. Selection could …

Variation in global codon usage bias among prokaryotic organisms is associated with their lifestyles

M Botzman, H Margalit - Genome biology, 2011 - Springer
Background It is widely acknowledged that synonymous codons are used unevenly among
genes in a genome. In organisms under translational selection, genes encoding highly …

A rare codon-based translational program of cell proliferation

JC Guimaraes, N Mittal, A Gnann, D Jedlinski, A Riba… - Genome biology, 2020 - Springer
Background The speed of translation elongation is primarily determined by the abundance
of tRNAs. Thus, the codon usage influences the rate with which individual mRNAs are …

Translational selection is ubiquitous in prokaryotes

F Supek, N Škunca, J Repar, K Vlahoviček… - PLoS genetics, 2010 - journals.plos.org
Codon usage bias in prokaryotic genomes is largely a consequence of background
substitution patterns in DNA, but highly expressed genes may show a preference towards …

Roles for synonymous codon usage in protein biogenesis

JL Chaney, PL Clark - Annual review of biophysics, 2015 - annualreviews.org
Owing to the degeneracy of the genetic code, a protein sequence can be encoded by many
different synonymous mRNA coding sequences. Synonymous codon usage was once …

Codon-resolution analysis reveals a direct and context-dependent impact of individual synonymous mutations on mRNA level

S Chen, K Li, W Cao, J Wang, T Zhao… - Molecular Biology …, 2017 - academic.oup.com
Codon usage bias (CUB) refers to the observation that synonymous codons are not used
equally frequently in a genome. CUB is stronger in more highly expressed genes, a …