Genomic characteristics analysis of imported 2019-nCoV in Gansu province
10.3760/cma.j.cn112866-20210227-00037
- VernacularTitle:甘肃省境外输入新型冠状病毒基因组特征分析
- Author:
Baodi LI
1
;
Zhixiao CHEN
;
Hongyu LI
;
Jianhua CHEN
;
Xueying WANG
;
Hui ZHANG
;
Congshan XU
;
Zhongyi JIANG
;
Haizhuo WU
;
Qian KANG
;
Zhe ZHAO
;
Huimin ZHANG
;
Peng WANG
;
Deshan YU
;
Xiang ZHAO
;
Lei MENG
Author Information
1. 甘肃省疾病预防控制中心 甘肃省传染病病原学重点实验室，兰州 730000
- Keywords:
2019-nCoV;
Genome;
Phylogenetic analysis;
Mutation
- From:
Chinese Journal of Experimental and Clinical Virology
2021;35(6):687-693
- CountryChina
- Language:Chinese
-
Abstract:
Objective:To disclose the genome characteristics and mutations of 2019 novel coronavirus (2019-nCoV) strains from the imported cases of Coronavirus Disease 2019 (COVID-19) in Gansu province, thereby to provide scientific reference for the prevention and control of COVID-19 in Gansu province. Methods:The respiratory tract specimens of imported COVID-19 cases from seven countries in Gansu province in 2020 were collected. The virus genome was sequenced by the second-generation sequencing technology, the whole genome sequences were compared and analyzed, and the MEGA software was used to construct a phylogenetic tree based on the neighbor-joining method.Results:A total of 46 2019-nCoV genome sequences with a length of 29 605~29 903 bp were obtained. Compared with the Wuhan reference strain (GenBank ID: NC_045512.2), it was found that the median (minimum to maximum) number of the nucleotide mutations of the 2019-nCoV genome sequence of the imported cases was 10 (7-24). A total of 134 nucleotide mutation sites were found in all 2019-nCoV genome sequences from 7 entry countries in Gansu province, distributed in 11 open reading frames (ORFs). The top three nucleotide mutations in different proteins: ORF1ab (78), S(20), N(12). Among the 134 nucleotide mutations, 82 caused amino acid mutations, and all of them were missense mutations. No insertions or deletions were seen. Types of deletion mutations, the top three amino acid mutations in different proteins: ORF1ab (46), S(11), N(10); the key sites of the receptor binding domain (RBD) of the S protein have not been mutated.Conclusions:No imported cases in Gansu province have been found to carry the reported mutations that can clearly lead to changes in the spread and pathogenicity of 2019-nCoV.
