当前位置: X-MOL 学术Viruses › 论文详情
Our official English website, www.x-mol.net, welcomes your feedback! (Note: you will need to create a separate account there.)
Evolutionary Signatures Governing the Codon Usage Bias in Coronaviruses and Their Implications for Viruses Infecting Various Bat Species
Viruses ( IF 5.818 ) Pub Date : 2021-09-16 , DOI: 10.3390/v13091847
Naveen Kumar 1 , Rahul Kaushik 2 , Chandana Tennakoon 3 , Vladimir N Uversky 4, 5 , Anamika Mishra 1 , Richa Sood 1 , Pratiksha Srivastava 1 , Meghna Tripathi 1 , Kam Y J Zhang 2 , Sandeep Bhatia 1
Affiliation  

Many viruses that cause serious diseases in humans and animals, including the betacoronaviruses (beta-CoVs), such as SARS-CoV, MERS-CoV, and the recently identified SARS-CoV-2, have natural reservoirs in bats. Because these viruses rely entirely on the host cellular machinery for survival, their evolution is likely to be guided by the link between the codon usage of the virus and that of its host. As a result, specific cellular microenvironments of the diverse hosts and/or host tissues imprint peculiar molecular signatures in virus genomes. Our study is aimed at deciphering some of these signatures. Using a variety of genetic methods we demonstrated that trends in codon usage across chiroptera-hosted CoVs are collaboratively driven by geographically different host-species and temporal-spatial distribution. We not only found that chiroptera-hosted CoVs are the ancestors of SARS-CoV-2, but we also revealed that SARS-CoV-2 has the codon usage characteristics similar to those seen in CoVs infecting the Rhinolophus sp. Surprisingly, the envelope gene of beta-CoVs infecting Rhinolophus sp., including SARS-CoV-2, had extremely high CpG levels, which appears to be an evolutionarily conserved trait. The dissection of the furin cleavage site of various CoVs infecting hosts revealed host-specific preferences for arginine codons; however, arginine is encoded by a wider variety of synonymous codons in the murine CoV (MHV-A59) furin cleavage site. Our findings also highlight the latent diversity of CoVs in mammals that has yet to be fully explored.

中文翻译:

控制冠状病毒密码子使用偏差的进化特征及其对感染各种蝙蝠物种的病毒的影响

许多引起人类和动物严重疾病的病毒,包括 SARS-CoV、MERS-CoV 等 β 冠状病毒 (beta-CoV),以及最近发现的 SARS-CoV-2,在蝙蝠体内都有天然宿主。由于这些病毒完全依赖宿主细胞机制生存,因此它们的进化很可能受到病毒密码子使用与其宿主密码子使用之间的联系的指导。因此,不同宿主和/或宿主组织的特定细胞微环境在病毒基因组中留下了独特的分子特征。我们的研究旨在破译其中一些签名。使用多种遗传方法,我们证明了翼手目冠状病毒的密码子使用趋势是由地理上不同的宿主物种和时空分布共同驱动的。我们不仅发现翼手目动物宿主的 CoV 是 SARS-CoV-2 的祖先,而且我们还发现 SARS-CoV-2 具有与感染菊蝠属的 CoV 相似的密码子使用特征。令人惊讶的是,感染菊头蝠属的 β-CoV(包括 SARS-CoV-2)的包膜基因具有极高的 CpG 水平,这似乎是进化上保守的特征。对感染宿主的各种冠状病毒的弗林蛋白酶切割位点的解剖揭示了宿主对精氨酸密码子的特异性偏好;然而,精氨酸是由鼠科动物冠状病毒 (MHV-A59) 弗林蛋白酶切割位点中多种同义密码子编码的。我们的研究结果还强调了哺乳动物中冠状病毒的潜在多样性尚未得到充分探索。
更新日期:2021-09-16
down
wechat
bug