摘要
目的探索快速识别新型冠状病毒的方法,为新冠肺炎防控提供技术支撑。方法分别运用基于三代纳米孔测序技术平台MinION Mk1C和基于二代测序技术平台Ion Torrent S5的新型冠状病毒(SARS-CoV-2)靶向全基因组测序技术对1例境外输入新冠肺炎确诊病例进行基因组测序。使用artic-ncov2019软件、CLC Genomics Workbench(Version 21.0)软件和DNAstar软件等进行数据处理和分析。结果基于三代纳米孔测序技术平台MinION Mk1C和基于二代测序技术平台Ion Torrent S5分别在7 h和30 h左右获得SARS-CoV-2全基因组数据,分别为29848bp和29801bp,两者共同29801bp数据部分同源性100%,经分析为新冠病毒B.1.1.7变异株。结论在对该病例样本的全基因测序中,基于三代纳米孔测序技术平台MinION Mk1C的SARS-CoV-2靶向全基因组测序技术将检测周期缩短至7 h左右,能够实现快速、准确地对SARS-CoV-2进行实时测序。
Objective Exploring the method of rapid identified of COVID-19 for providing a technical support for New Coronavirus's prevention and control.Methods The genome sequencing of novel coronavirus pneumonia diagnosed by overseas patients was carried out using New Coronavirus(SARS-CoV-2)based on MinION Mk1C platform and Ion Torrent S5 platform.The artic-ncov2019 software,CLC genomics workbench(version 21.0)software and DNAStar software were used for data processing and analysis.Results Based on minion mk1c platform and ion torrent S5 platform,the whole genome data of sars-cov-2 were 29848 BP and 29801 BP in 7 hours and 30 hours respectively.The shared 29801 BP data shared 100%homology,and they were identified as new coronavirus b1.1.7 variant.Conclusion The whole genome sequencing technology based on minion mk1c platform can shorten the detection cycle to about 7 hours,which can realize rapid and accurate real-time sequencing of sars-cov-2.
作者
李健雄
施勇
徐刚
肖大瑾
刘师文
熊英
龚甜
LI Jianxiong;SHI Yong;XU Gang;XIAO Dajin;LIU Shiwen;XIONG Ying;GONG Tian(Jiangxi Provincial Center for Disease Control and Prevention,Nanchang 330029,China)
出处
《实验与检验医学》
CAS
2024年第2期131-133,共3页
Experimental and Laboratory Medicine
基金
国家科技重大专项“传染病发热呼吸道等五大重要症候群病原流行规律研究”,编号2017ZX10103005-004。
