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Comprehensive genomic analysis of the SARS-CoV-2 Omicron variant BA.2.76 in Jining City, China, 2022
BMC Genomics ( IF 4.4 ) Pub Date : 2024-04-17 , DOI: 10.1186/s12864-024-10246-w Qiang Yin , Wei Liu , Yajuan Jiang , Qiang Feng , Xiaoyu Wang , Huixin Dou , Zanzan Liu , Feifei He , Yingying Fan , Baihai Jiao , Boyan Jiao
BMC Genomics ( IF 4.4 ) Pub Date : 2024-04-17 , DOI: 10.1186/s12864-024-10246-w Qiang Yin , Wei Liu , Yajuan Jiang , Qiang Feng , Xiaoyu Wang , Huixin Dou , Zanzan Liu , Feifei He , Yingying Fan , Baihai Jiao , Boyan Jiao
This study aims to analyze the molecular characteristics of the novel coronavirus (SARS-CoV-2) Omicron variant BA.2.76 in Jining City, China. Whole-genome sequencing was performed on 87 cases of SARS-CoV-2 infection. Evolutionary trees were constructed using bioinformatics software to analyze sequence homology, variant sites, N-glycosylation sites, and phosphorylation sites. All 87 SARS-CoV-2 whole-genome sequences were classified under the evolutionary branch of the Omicron variant BA.2.76. Their similarity to the reference strain Wuhan-Hu-1 ranged from 99.72 to 99.74%. In comparison to the reference strain Wuhan-Hu-1, the 87 sequences exhibited 77–84 nucleotide differences and 27 nucleotide deletions. A total of 69 amino acid variant sites, 9 amino acid deletions, and 1 stop codon mutation were identified across 18 proteins. Among them, the spike (S) protein exhibited the highest number of variant sites, and the ORF8 protein showed a Q27 stop mutation. Multiple proteins displayed variations in glycosylation and phosphorylation sites. SARS-CoV-2 continues to evolve, giving rise to new strains with enhanced transmission, stronger immune evasion capabilities, and reduced pathogenicity. The application of high-throughput sequencing technologies in the epidemic prevention and control of COVID-19 provides crucial insights into the evolutionary and variant characteristics of the virus at the genomic level, thereby holding significant implications for the prevention and control of the COVID-19 pandemic.
更新日期：2024-04-17
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