Decoding Codon Bias: The Role of tRNA Modifications in Tissue-Specific Translation
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ijms-26-00706.pdf
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4.5 MB
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Author(s)
Ando, Daisuke
Rashad, Sherif
Begley, Thomas J.
Endo, Hidenori
Aoki, Masashi
Dedon, Peter C.
Niizuma, Kuniyasu
Date Issued
January 15, 2025
Publisher
Multidisciplinary Digital Publishing Institute
Citation
Ando, D.; Rashad, S.; Begley, T.J.; Endo, H.; Aoki, M.; Dedon, P.C.; Niizuma, K. Decoding Codon Bias: The Role of tRNA Modifications in Tissue-Specific Translation. Int. J. Mol. Sci. 2025, 26, 706.
Version
Final published version
Abstract
The tRNA epitranscriptome has been recognized as an important player in mRNA translation regulation. Our knowledge of the role of the tRNA epitranscriptome in fine-tuning translation via codon decoding at tissue or cell levels remains incomplete. We analyzed tRNA expression and modifications as well as codon optimality across seven mouse tissues. Our analysis revealed distinct enrichment patterns of tRNA modifications in different tissues. Queuosine (Q) tRNA modification was most enriched in the brain compared to other tissues, while mitochondrial tRNA modifications and tRNA expression were highest in the heart. Using this observation, we synthesized, and delivered in vivo, codon-mutated EGFP for Q-codons, where the C-ending Q-codons were replaced with U-ending codons. The protein levels of mutant EGFP were downregulated in liver, which is poor in Q, while in brain EGFP, levels did not change. These data show that understanding tRNA modification enrichments across tissues is not only essential for understanding codon decoding and bias but can also be utilized for optimizing gene and mRNA therapeutics to be more tissue-, cell-, or condition-specific.
MIT Department
Massachusetts Institute of Technology. Department of Biological Engineering
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DOI of Published Version
https://doi.org/10.3390/ijms26020706
