Decoding SARS-CoV-2 Transmission and Evolution and Ramifications for COVID-19 Diagnosis, Vaccine, and Medicine.,Journal of Chemical Information and Modeling

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Decoding SARS-CoV-2 Transmission and Evolution and Ramifications for COVID-19 Diagnosis, Vaccine, and Medicine.
Journal of Chemical Information and Modeling ( IF 5.6 ) Pub Date : 2020-06-12 , DOI: 10.1021/acs.jcim.0c00501
Rui Wang ₁ , Yuta Hozumi ₁ , Changchuan Yin ₂ , Guo-Wei Wei _{1,

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Affiliation

Tremendous effort has been given to the development of diagnostic tests, preventive vaccines, and therapeutic medicines for coronavirus disease 2019 (COVID-19) caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Much of this development has been based on the reference genome collected on January 5, 2020. Based on the genotyping of 15 140 genome samples collected up to June 1, 2020, we report that SARS-CoV-2 has undergone 8309 single mutations which can be clustered into six subtypes. We introduce mutation ratio and mutation h-index to characterize the protein conservativeness and unveil that SARS-CoV-2 envelope protein, main protease, and endoribonuclease protein are relatively conservative, while SARS-CoV-2 nucleocapsid protein, spike protein, and papain-like protease are relatively nonconservative. In particular, we have identified mutations on 40% of nucleotides in the nucleocapsid gene in the population level, signaling potential impacts on the ongoing development of COVID-19 diagnosis, vaccines, and antibody and small-molecular drugs.

中文翻译：

解码 SARS-CoV-2 的传播、进化以及对 COVID-19 诊断、疫苗和医学的影响。

针对由严重急性呼吸综合征冠状病毒 2 (SARS-CoV-2) 引起的 2019 年冠状病毒病 (COVID-19)，我们付出了巨大的努力来开发诊断测试、预防疫苗和治疗药物。这一进展大部分基于 2020 年 1 月 5 日收集的参考基因组。根据截至 2020 年 6 月 1 日收集的 15 140 个基因组样本的基因分型，我们报告 SARS-CoV-2 发生了 8309 个单突变，可分为六种亚型。我们引入突变率和突变h指数来表征蛋白质保守性，发现 SARS-CoV-2 包膜蛋白、主要蛋白酶和核糖核酸内切酶蛋白相对保守，而 SARS-CoV-2 核衣壳蛋白、刺突蛋白和木瓜蛋白酶-像蛋白酶一样相对不保守。特别是，我们在人群水平上发现了核衣壳基因中 40% 的核苷酸发生突变，这表明对 COVID-19 诊断、疫苗、抗体和小分子药物的持续开发存在潜在影响。

更新日期：2020-06-12

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