广东省新型冠状病毒全基因组序列测定及其影响因素分析  

Whole genome sequencing of SARS-CoV-2 isolated in Guangdong Province and factors influencing the sequencing

作　　者：梁丽君[1] 李柏生[1] 刘哲[1] 李振翠 郭前方 宋颖超[1] 庄雪 邹丽容[1] 庾健祥 武婕[1] Liang Lijun;Li Bosheng;Liu Zhe;Li Zhencui;Guo Qianfang;Song Yingchao;Zhuang Xue;Zou Lirong;Yu Jianxiang;Wu Jie(Research Center for Pathogens Detection Technology of Emerging Infectious Diseases,Key Laboratory for Repository and Application of Pathogenic Microbiology,Guangdong Provincial Key Discipline for Monitoring and Emergency Detection of Pathogenic Microorganisms,WHO Collaborating Centre for Surveillance,Guangdong Provincial Center for Disease Control and Prevention,Guangzhou 511430,China)

机构地区：[1]广东省疾病预防控制中心,广东省新发传染病病原学检测技术研究中心,广东省病原微生物种质资源保藏与利用重点实验室,广东省病原微生物监测与应急检测重点学科,WHO合作培训中心,广州511430

出　　处：《中华微生物学和免疫学杂志》2020年第3期174-177,共4页Chinese Journal of Microbiology and Immunology

基　　金：广东省自然科学基金(2019A1515012121);广东省医学科学技术研究基金项目(A2017482)。

摘　　要：目的:对呼吸道标本中新型冠状病毒进行二代测序(NGS),获取基因组序列并分析测序影响因素。方法:2020年1月,收集广东省新型冠状病毒感染病例的上呼吸道和下呼吸道标本共计8份,运用RNA建库的方法进行测序,获得新型冠状病毒的基因组序列,采用生物信息学软件包(CLC Genomics Workbench 12.0)对基因组序列进行分析比较。结果:从8例呼吸道标本中获得5个新型冠状病毒基因组序列,其中2份来自下呼吸道标本。与新冠病毒的核苷酸同源性为97.74%~99.90%。Ct值低的样本,测序深度、覆盖度和相对丰度高。结论:标本中新型冠状病毒的Ct值低,测序质量好。Objective To obtain the genome sequences of SARS-CoV-2 in respiratory specimens in Guangdong Province with next-generation sequencing(NGS)and analyze the factors influencing sequencing.Methods Eight upper and lower respiratory tract specimens were collected from patients with SARS-CoV-2 infection in Guangdong Province in January 2020.RNA library construction was used to obtain the genome sequences of SARS-CoV-2.A bio-informatics software package(CLC Genomics Workbench 12.0)was used to analyze and compare the genomic sequences.Results Five SARS-CoV-2 genome sequences were obtained from the eight specimens and two were obtained from lower respiratory tract specimens.The nucleotide homology to SARS-CoV-2 was 97.74%-99.90%.The Ct values were lower,while the sequencing depth,coverage,relative abundance and genome integrity were higher in sequencing the SARS-CoV-2 in lower respiratory tract specimens.Conclusions The low Ct value of SARS-CoV-2 in the samples was good for sequencing.

关 键 词：新型冠状病毒 二代测序 影响因素 

分 类 号：R3[医药卫生—基础医学]