Analysis of SARS-CoV-2 synonymous codon usage evolution throughout the COVID-19 pandemic

被引:11
作者
Mogro, Ezequiel G. [1 ]
Bottero, Daniela [1 ]
Lozano, Mauricio J. [1 ]
机构
[1] Univ Nacl La Plata UNLP, CONICET, Inst Biotecnol & Biol Mol IBBM, CCT La Plata, La Plata, Argentina
关键词
Codon usage bias; SARS-CoV-2; COVID-19; Betacoronavirus; BIAS; CORONAVIRUS; SELECTION; VIRUSES; FORCES;
D O I
10.1016/j.virol.2022.01.011
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
SARS-CoV-2, the seventh coronavirus known to infect humans, can cause severe life-threatening respiratory pathologies. To better understand SARS-CoV-2 evolution, genome-wide analyses have been made, including the general characterization of its codons usage profile. Here we present a bioinformatic analysis of the evolution of SARS-CoV-2 codon usage over time using complete genomes collected since December 2019. Our results show that SARS-CoV-2 codon usage pattern is antagonistic to, and it is getting farther away from that of the human host. Further, a selection of deoptimized codons over time, which was accompanied by a decrease in both the codon adaptation index and the effective number of codons, was observed. All together, these findings suggest that SARS-CoV-2 could be evolving, at least from the perspective of the synonymous codon usage, to become less pathogenic.
引用
收藏
页码:56 / 71
页数:16
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