Plotkin, J. B. & Kudla, G. Synonymous but not the same: the causes and consequences of codon bias. Nat. Rev. Genet. 12, 32–42 (2011).
Hanson, G. & Coller, J. Codon optimality, bias and usage in translation and mRNA decay. Nat. Rev. Mol. Cell Biol. 19, 20–30 (2018).
Liu, Y., Yang, Q. & Zhao, F. Synonymous but not silent: the codon usage code for gene expression and protein folding. Annu. Rev. Biochem. 90, 375–401 (2021).
Chaney, J. L. & Clark, P. L. Roles for synonymous codon usage in protein biogenesis. Annu. Rev. Biophys. 44, 143–166 (2015).
Yu, C. H. et al. Codon usage influences the local rate of translation elongation to regulate co-translational protein folding. Mol. Cell 59, 744–754 (2015).
Zhou, M. et al. Non-optimal codon usage affects expression, structure and function of clock protein FRQ. Nature 495, 111–115 (2013).
Chu, D. et al. Translation elongation can control translation initiation on eukaryotic mRNAs. EMBO J. 33, 21–34 (2014).
Lyu, X., Yang, Q., Zhao, F. & Liu, Y. Codon usage and protein length-dependent feedback from translation elongation regulates translation initiation and elongation speed. Nucleic Acids Res. 49, 9404–9423 (2021).
Barrington, C. L. et al. Synonymous codon usage regulates translation initiation. Cell Rep. 42, 113413 (2023).
Zhou, Z. et al. Codon usage is an important determinant of gene expression levels largely through its effects on transcription. Proc. Natl Acad. Sci. USA 113, E6117–E6125 (2016).
... continue reading