Whole genome analysis of 2019-nCoV in confirmed COVID-19 cases in Tianjin city
10.3760/cma.j.cn112866-20201221-00308
- VernacularTitle:天津市新型冠状病毒肺炎确诊病例新型冠状病毒全基因组特征分析
- Author:
Ming ZOU
1
;
Xin GAO
;
Zhichao ZHUANG
;
Zhaolin TAN
;
Xiaoyan LI
Author Information
1. 天津市疾病预防控制中心病原生物检测室 300011
- Keywords:
2019-nCoV;
COVID-19;
Lineage;
Mutation
- From:
Chinese Journal of Experimental and Clinical Virology
2021;35(6):694-699
- CountryChina
- Language:Chinese
-
Abstract:
Objective:To collect the upper respiratory tract specimens from both domestically-spread and imported Coronavirus Disease 2019 (COVID-19) confirmed cases, sequence the whole genome of 2019 novel coronavirus (2019-nCoV) and analyze the genetic variation and the phylogenetic characteristics.Methods:The viral nucleic acids of all specimens were extracted, the sequencing library was constructed following the manufacturing instructions, and the sequencing data were analyzed by bioinformatics software.Results:The whole genomes of 2019-nCoV strains from 24 samples were all obtained and had high similarity with the genome of the reference strain Wuhan-Hu-1 (GenBank ID: NC_045512) and the similarity rates were all greater than 99.9%. Six 2019-nCoV strains from domestically-spread cases were classified into L-lineage and the others were S-lineage. The 2019-nCoV strains from the imported cases had 48 nucleotide mutation positions, but those from the domestically-spread cases only had 14 mutation positions. Most of 2019-nCoV strains from the imported cases (15/16) had the specific D614G mutation site in spike protein, while those from the domestically-spread cases had none.Conclusions:The 2019-nCoV strains from the imported cases in Tianjin city had more mutation sites than those from the domestically-spread cases, and most of 2019-nCoV strains from the imported cases had D614G mutations in spike protein which had more transmissive rates and were easier to spread among humans.
