https://orcid.org/0000-0002-8172-4590
References
- Holmes EC . Patterns of intra- and interhost nonsynonymous variation reveal strong purifying selection in dengue virus. J. Virol., 77(20), 11296–11298 (2003).
- Smith JM , SmithNH. Synonymous nucleotide divergence: what is “saturation”?Genetics, 142(3), 1033–1036 (1996).
- Li Y , YangXN, WangNet al. The divergence between SARS-CoV-2 and RaTG13 might be overestimated due to the extensive RNA modification. Future Virol., 15(6), 341–347 (2020).
- Supek F , MinanaB, ValcarcelJ, GabaldonT, LehnerB. Synonymous mutations frequently act as driver mutations in human cancers. Cell, 156(6), 1324–1335 (2014).
- Dos Reis M , SavvaR, WernischL. Solving the riddle of codon usage preferences: a test for translational selection. Nucleic Acids Res., 32(17), 5036–5044 (2004).
- Li Y , YangXN, WangNet al. GC usage of SARS-CoV-2 genes might adapt to the environment of human lung expressed genes. Mol. Genet. Genomics, 295(6), 1537–1546 (2020).
- Hanson G , CollerJ. Codon optimality, bias and usage in translation and mRNA decay. Nat. Rev. Mol. Cell Biol., 19(1), 20–30 (2018).
- Wang N , WangD. Genome-wide transcriptome and translatome analyses reveal the role of protein extension and domestication in liver cancer oncogenesis. Mol. Genet. Genomics doi:10.1007/s00438-021-01766-1 (2021) ( Epub ahead of print).
- Zhao SF , SongSN, QiQ, LeiW. Cost–efficiency tradeoff is optimized in various cancer types revealed by genome-wide analysis. Mol. Genet. Genomics doi:10.1007/s00438-020-01747-w (2021) ( Epub ahead of print).
- Chamary JV , HurstLD. Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals. Genome Biol., 6(9), R75 (2005).
- Sabi R , TullerT. Modelling the efficiency of codon-tRNA interactions based on codon usage bias. DNA Res., 21(5), 511–526 (2014).
- Chen WH , LuG, BorkP, HuS, LercherMJ. Energy efficiency trade-offs drive nucleotide usage in transcribed regions. Nat. Commun., 7, 11334 (2016).
- Wang Y , GaiY, LiY, LiC, LiZ, WangX. SARS-CoV-2 has the advantage of competing the iMet-tRNAs with human hosts to allow efficient translation. Mol. Genet. Genomics doi:10.1007/s00438-020-01731-4 (2020) ( Epub ahead of print).
- Hall MN , GabayJ, DebarbouilleM, SchwartzM. A role for mRNA secondary structure in the control of translation initiation. Nature, 295(5850), 616–618 (1982).
- Bass BL . RNA editing by adenosine deaminases that act on RNA. Annu. Rev. Biochem., 71, 817–846 (2002).
- Li Y , YangXN, WangNet al. Pros and cons of the application of evolutionary theories to the evolution of SARS-CoV-2. Future Virol., 15(6), 369–372 (2020).
- Li Y , YangX, WangNet al. Mutation profile of over 4500 SARS-CoV-2 isolations reveals prevalent cytosine-to-uridine deamination on viral RNAs. Future Microbiol., 15(14), 1343–1352 (2020).