背景:严重急性呼吸综合征冠状病毒2(SARS-CoV-2)是一种新出现的冠状病毒,可引起2019年冠状病毒病(COVID-19)。SARS-CoV-2的全基因组追踪增强了我们对疾病机制的理解,control,和预防COVID-19。
方法:我们分析了来自伊朗的3368个SARS-CoV-2蛋白序列,并将其与GISAID数据库中的1560万个全球序列进行了比较,以武汉-胡-1株为参照。
结果:我们的调查显示,NSP12-P323L,ORF9c-G50N,NSP14-I42V,膜-A63T,Q19E,发现NSP3-G489S是伊朗SARS-CoV-2序列中最常见的突变。此外,据观察,超过94%的SARS-CoV-2基因组,包括NSP7,NSP8,NSP9,NSP10,NSP11和ORF8,与武汉-Hu-1菌株相比没有突变。最后,我们的数据表明ORF3a-T24I,NSP3-G489S,NSP5-P132H,NSP14-I42V,信封-T9I,核衣壳-D3L,膜-Q19E,膜A63T突变可能是伊朗SARS-CoV-2Omicron变异波激增的原因。
结论:实时基因组监测对于检测新的SARS-CoV-2变种至关重要,更新诊断工具,设计疫苗,了解适应新环境。
BACKGROUND: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a new emerging coronavirus that caused coronavirus disease 2019 (COVID-19). Whole-genome tracking of SARS-CoV-2 enhanced our understanding of the mechanism of the disease, control, and prevention of COVID-19.
METHODS: we analyzed 3368 SARS-CoV-2 protein sequences from Iran and compared them with 15.6 million global sequences in the GISAID database, using the Wuhan-Hu-1 strain as a reference.
RESULTS: Our investigation revealed that NSP12-P323L, ORF9c-G50N, NSP14-I42V, membrane-A63T, Q19E, and NSP3-G489S were found to be the most frequent mutations among Iranian SARS-CoV-2 sequences. Furthermore, it was observed that more than 94% of the SARS-CoV-2 genome, including NSP7, NSP8, NSP9, NSP10, NSP11, and ORF8, had no mutations when compared to the Wuhan-Hu-1 strain. Finally, our data indicated that the ORF3a-T24I, NSP3-G489S, NSP5-P132H, NSP14-I42V, envelope-T9I, nucleocapsid-D3L, membrane-Q19E, and membrane-A63T mutations might be responsible factors for the surge in the SARS-CoV-2 Omicron variant wave in Iran.
CONCLUSIONS: real-time genomic surveillance is crucial for detecting new SARS-CoV-2 variants, updating diagnostic tools, designing vaccines, and understanding adaptation to new environments.