Analysis of whole genome of 25 novel coronaviruses in Jiangsu province
10.3760/cma.j.cn112866-20200320-00083
- VernacularTitle:江苏省25株新型冠状病毒全基因组分析
- Author:
Kangchen ZHAO
1
;
Xiaojuan ZHU
;
Yiyue GE
;
Tao WU
;
Yin CHEN
;
Bin WU
;
Fengcai ZHU
;
Baoli ZHU
;
Lunbiao CUI
Author Information
1. 江苏省疾病预防控制中心 国家卫生健康委员会肠道病原微生物重点实验室，南京 210009
- Keywords:
2019-novel coronavirus;
Genome;
Single nucleotide polymorphisms;
Evolution
- From:
Chinese Journal of Experimental and Clinical Virology
2020;34(4):352-356
- CountryChina
- Language:Chinese
-
Abstract:
Objective:The entire genome sequences of 25 novel coronaviruses in Jiangsu province were analyzed and their evolutionary characteristics were studied.Methods:High-throughput sequencing was used to sequence the throat swab samples from confirmed cases. Single nucleotide polymorphisms were analyzed using CLC Genomics Workbench 12.0 software. Evolution characteristics were analyzed by MEGA 5.1.Results:A total of 52 single-base substitution mutations were detected in 25 strains. Phylogenetic analysis showed 25 stains were clustered into two clades. Viruses in clade 1 contain 8 682 and 28 144 CT SNP links. While viruses in clade 2 contain mutations in those two bases, i. e., 8 682 (ORF1ab: C8 517T, synonymous mutation) and 28 144 (ORF8: T251C, L84S). Among clade 2, five stains subclustered into one group based on SNP links in 24 034 (S: C2 472T, synonymous mutation), 26 729 (M: T207C, synonymous mutation), and 28 077 (ORF8: G184C, V62 L). There were no significant differences in the distribution of different clades/subclusters in the population and the disease types.Conclusions:We have found some SNPs occurred in new coronaviruses. The effects of different SNPs on virus transmission and pathogenicity need to be further studied.
