伊拉克患者分离的Omicron (B.1.1.529)变异SARS-CoV-2刺突糖蛋白的计算机突变分析

Dana Khdr Sabir
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摘要

自2019年12月首次爆发以来,严重急性呼吸综合征冠状病毒2 (SARS-CoV-2)已经影响了全球数百万人的生活。病毒一直在迅速变异,各种突变的积累促成了几种新变种的出现。欧米克隆变体(B.1.1.529谱系)于2021年11月在博茨瓦纳和南非首次被发现。从那时起,由于超突变,出现了几个欧米克隆亚谱系。本研究对从伊拉克患者分离的SARS-CoV-2 Omicron变体的381刺突糖蛋白(S蛋白)进行了计算分析。全长S蛋白序列(1273个氨基酸)来自可公开访问的共享所有流感数据全球倡议数据库。共识别出60个突变位点:49个替代位点,10个缺失位点和1个插入位点。K417N和N440K是最常见的突变(n = 379, 99.4%),其次是G339D (n = 377, 98.9%)和S373P和S375F (n = 367, 96.3%)。BA.1.1 (n = 198, 52%)和BA.1 (n = 91, 14%)是本研究中主要的变异类型。目前的工作提供了来自伊拉克患者的SARS-CoV-2 Omicron变体的数据。这项研究的数据可以帮助设计更有效的针对该病毒的疫苗和/或抗病毒药物,并提供对SARS-CoV-2进化的基本了解,并关注其致病性。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
In silico mutation analysis of the SARS-CoV-2 Spike glycoprotein in the Omicron (B.1.1.529) variant isolated from the Iraqi patients
Since its first breakout in December 2019, the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has impacted the lives of millions of people worldwide. The virus has been rapidly mutating, and the accumulation of various mutations has precipitated the emergence of several new variants. The Omicron variant (B.1.1.529 lineage) was first identified in Botswana and South Africa back in November 2021. Since then, several Omicron sub-lineages have emerged as a result of hypermutations. In this study, a computational analysis of the 381 spike glycoprotein (S protein) of the SARS-CoV-2 Omicron variants isolated from Iraqi patients was performed. The full-length S protein sequences (1273 amino acids) were obtained from the publicly accessible Global Initiative on Sharing All Influenza Data database. A total of 60 mutation sites were recognized: 49 substitution sites, ten deletions, and one insertion. K417N and N440K were the most prevalent mutations (n = 379, 99.4%), followed by G339D (n = 377, 98.9%) and S373P and S375F (both n = 367, 96.3%). Both BA.1.1 (n = 198, 52%) and BA.1 (n = 91, 14%) were the predominant variant types encountered throughout this study. The current work offers the data of SARS-CoV-2 Omicron variants derived from the Iraqi patients. The data from this study could assist in the molecular design of more potent vaccines and/or antiviral drugs against the virus and also provide a fundamental understanding of SARS-CoV-2 evolution with concerns about their pathogenicity.
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