全基因组测序技术在结核病流行病学调查中的应用  

Application of whole genome sequencing technology in the epidemiology of tuberculosis

作　　者：武洁[1] 唐利红[2] 杨崇广[3] 严慧琴[2] 孙华[2] 沈鑫[1] Wu Jie Tang Lihong Yang Chongguang Yan Huiqin Sun Hua Shen Xin(Shanghai Municipal Center for Disease Control and Prevention, Shanghai 100336, China Shanghai Minhang Center for Disease Control and Prevention, Shanghai 201101, China Fudan University, Shanghai 200032, China)

机构地区：[1]上海市疾病预防控制中心,200336 [2]上海市闵行区疾病预防控制中心,201101 [3]复旦大学,上海200032

出　　处：《中华流行病学杂志》2016年第12期1644-1646,共3页Chinese Journal of Epidemiology

基　　金：国家科技重大专项（2013ZX10004903）;上海市第四轮公共卫生三年行动计划（15GWZK0801,GWTD2015S02）

摘　　要：目的 评估全基因组测序技术在结核病分子流行病学调查中的应用。方法 对2008-2012年在上海市两家结核病定点医院发现9名耐多药患者中分离的结核分枝杆菌具有相同的可变数目串联重复序列，本研究对此进行流行学调查，并对9株结核分枝杆菌进行全基因组测序，分析其传播关系。结果 全基因组序列分析将9株结核分枝杆菌分为两个有传播关系的网络，一个为包括7株结核分枝杆菌（5例和2例患者分别来自不同的医院）的大簇，一个为只有2株结核分枝杆菌的小簇。两个簇之间相差15个单核苷酸多态性（SNP）位点，提示两个簇的遗传距离相对较远，基于菌株SNP差异构建的传播链显示了每个簇内菌株的传播方向和耐药突变积累的过程。结论 基于全基因组测序数据研究耐药结核病的传播网络，能准确判断传播路径和方向，识别传染源和传播缺失环节。Objective To delineate the application of whole genome sequencing technology in the epidemiology of tuberculosis. Methods From 2009 to 2012, nine Mycobacterium tuberculosis that sharing identical variable number of tandem repeats genotype （VNTR） patterns were reported from two TB cases designated hospitals. Both whole-genome sequencing analysis （WGS） and epidemiologic investigations were performed to describe the transmission patterns of these Mycobacterium tuberculosis. Results By WGS analysis, two genomic clusters including 7 and 2 Mycobacterium tuberculosis were noticed, respectively. The cluster of 2 cases possessed more than 15 single nucleotide polymorphisms （SNPs） when compared to the cluster of 7 cases and suggesting that the transmission route was independent. The transmission chain based on the SNPs difference showed the process of the propagation direction and the accumulation of drug resistance mutations in each cluster. Conclusion Using a WGS-based genomic epidemiologic approach, we were able to reconstruct the tuberculosis transmission network, tracing the putative source of the transmission and determining the transmission direction or the missing links.

关 键 词：结核病 耐多药 全基因组测序 

分 类 号：R52[医药卫生—内科学] R181.3[医药卫生—临床医学]