成都口岸输入性新冠病毒全基因组测序分析
Whole genome sequencing analysis of imported SARS-CoV-2 at Chengdu port
石莹 1田绿波 1陈萍 1樊学军1
作者信息
- 1. 口岸疫病疫情监测四川省重点实验室,四川成都 610041
- 折叠
摘要
目的 分析成都口岸输入性新冠病毒全基因组序列,掌握成都口岸输入性新冠病毒变异株的分布情况.方法 随机选取2022年10月-2023年3月成都口岸58例新冠病毒感染者的鼻咽拭子样本,采用第三代Nanopore纳米孔测序平台进行新冠病毒全基因组测序,应用Baiyi全基因组分析软件系统判定Pangolin分型及覆盖度,分析输入性新冠病毒变异株分布情况.结果 测序共获得58条新冠病毒全基因组序列,其中序列覆盖度大于99％的53例,Pan-golin 分型均为 Omicron变异株.数量最多的5种变异株依次是BA.5(21株,36.21％),XBB.1(9株,15.52％),BQ.1(7株,12.07％),BF.7(5株,8.62％),BA.2(3株,5.17％),与全球主导流行株基本一致.结论 成都口岸境外输入性新冠病毒变异株与全球的流行趋势基本一致.
Abstract
Objective To analyze the whole genome sequence of imported severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)isolated at Chengdu port,and to understand the distribution of imported SARS-CoV-2 variants at Chengdu port.Methods Nasal and pharyngeal swab samples of 58 SARS-CoV-2 infected patients at Chengdu port from October 2022 to March 2023 were randomly selected,whole genome of SARS-CoV-2 was sequenced using the third-generation Nanopore sequencing platform,and the classification and coverage of Pangolin was determined using Baiyi whole genome analysis software system.The distribution of imported SARS-CoV-2 variants was analyzed.Results A total of 58 whole genome sequences of SARS-CoV-2 were obtained,of which 53 cases with sequence coverage greater than 99％were Omicron variants.The five most numerous variants were BA.5(21 strains,36.21％),XBB.l(9 strains,15.52％),BQ.1(7 strains,12.07％),BF.7(5 strains,8.62％),BA.2(3 strains,5.17％),which were consistent with the dominant strains in the world.Conclusion The imported SARS-CoV-2 variants distribution at Chengdu port was consistent with the global epidemic trend.
关键词
新冠病毒/变异株/全基因组测序Key words
SARS-CoV-2/Variant strain/Whole genome sequencing引用本文复制引用
出版年
2024
NETL
NSTL
万方数据