Synonymous codon usage defines functional gene families
Name
s12915-026-02505-x.pdf
Description
Published version
Size
4.05 MB
Format
Adobe PDF
Checksum (MD5)
7c14d08a4c731414a06ff58453bf44b4
Author(s)
Ghanegolmohammadi, Farzan
Ohnuki, Shinsuke
Byrne, Shane
Raman, Rahul
Begley, Thomas J
Dedon, Peter C
Date Issued
January 27, 2026
Journal
BMC Biology
Publisher
Springer Science and Business Media LLC
Citation
Ghanegolmohammadi, F., Ohnuki, S., Byrne, S. et al. Synonymous codon usage defines functional gene families. BMC Biol 24, 44 (2026).
Version
Final published version
Abstract
The degeneracy of the genetic code is increasingly recognized for roles in regulating translation rate, protein folding, and cell response. However, the functional genomics of codon usage patterns remains poorly defined. We previously showed that prokaryotic and eukaryotic cells respond to individual stresses by uniquely reprogramming the tRNA pool and the dozens of tRNA modifications comprising the tRNA epitranscriptome to cause selective translation of mRNAs from codon-biased stress response genes. Here, we tested the hypothesis that functional gene families have distinct values of codon bias in the Saccharomyces cerevisiae genome by modeling isoacceptor codon distributions using a new approach—analysis of synonymous codon signatures (ASCS).
MIT Department
Massachusetts Institute of Technology. Department of Biological Engineering
Singapore-MIT Alliance in Research and Technology (SMART)
Terms of Use
Creative Commons Attribution-NonCommercial-NoDerivatives
Persistent DSpace Link
DOI of Published Version
https://doi.org/10.1186/s12915-026-02505-x
