Three-year population-based evaluation of standardized mycobacterial interspersed repetitive-unit-variable-number tandem-repeat typing of Mycobacterium tuberculosis
Three-year population-based evaluation of standardized mycobacterial interspersed repetitive-unit-variable-number tandem-repeat typing of Mycobacterium tuberculosis
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DOI：
10.1128/jcm.02089-07
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发表时间：
2008-04-01
影响因子：
9.4
通讯作者：
Supply, Philip
中科院分区：
文献类型：
--
作者：
Allix-Beguec, Caroline;Fauville-Dufaux, Maryse;Supply, Philip
基于15和24位点的结核分枝杆菌散在重复单位可变数目串联重复序列（MIRU-VNTR）标准化分型方法已被提出用于结核分枝杆菌基因分型。到目前为止，这种优化的系统已经在德国进行的一项为期1年的基于人群的研究中进行了评估（M。C.厄勒曼河Diel，V. Vatin，W.哈斯，S. Rusch-Gerdes角Locht，S. Niemann和P. Supply，J. Clin. Microbiol. 45：691-697，2007）。在这里，我们在比利时布鲁塞尔首都地区进行了一项为期39个月的更大规模的基于人群的研究中评估了这些优化的格式。对807例患者的分离株进行了基因分型。标准化MIRU-VNTR集的分辨率，聚类和谱系鉴定进行了比较，使用标准化IS 6110-限制性片段长度多态性（RFLP），spoligotyping，和以前的12-MIRU-VNTR-位点集。在16个月期间，在代表77%病例的子集上，观察到由标准化MIRU-VNTR和IS 6110-RFLP定义的独特分离株或菌株簇之间的高度一致性（即，超过5个IS 6110频段）。当扩展到整个人口为基础的收集，歧视子集的15个位点的应变聚类率下降了近两倍相比，旧的12个位点集。9个辅助MIRU-VNTR位点和/或spoligotyping的添加仅略微进一步降低了该菌株聚类率。在48%确定的集群中发现了家庭，社会和/或地理邻近联系，并确定了众所周知的结核病传播风险因素。最后，在我们的MIRU-VNTR-间隔寡核苷酸分型菌株鉴定和MIRU-VNTRplus数据库中包括的外部参考菌株谱系之间确定了极好的对应性，并通过例如，大序列多态性我们的研究结果加强了标准化MIRU-VNTR分型的建议，作为一个新的参考基因分型方法的流行病学和系统发育筛查M。结核菌株
Standardized mycobacterial interspersed repetitive-unit-variable-number tandem repeat (MIRU-VNTR) typing based on 15 and 24 loci recently has been proposed for Mycobacterium tuberculosis genotyping. So far, this optimized system has been assessed in a single, 1-year population-based study performed in Germany (M. C. Oelemann, R. Diel, V. Vatin, W. Haas, S. Rusch-Gerdes, C. Locht, S. Niemann, and P. Supply, J. Clin. Microbiol. 45:691-697, 2007). Here, we evaluated these optimized formats in a much larger population-based study conducted during 39 months in the Brussels capital region of Belgium. Isolates from 807 patients were genotyped. The resolution power, cluster, and lineage identification by the standardized MIRU-VNTR sets were compared to those obtained using standardized IS6110- restriction fragment length polymorphism (RFLP), spoligotyping, and a previous 12-MIRU-VNTR-locus set. On a subset representing 77% of the cases during a 16-month period, a high concordance was observed between unique isolates or strain clusters as defined by standardized MIRU-VNTR and IS6110-RFLP (i.e., more than five IS6110 bands). When extended to the entire population-based collection, the discriminatory subset of 15 loci decreased the strain-clustering rate by almost twofold compared to that of the old 12-locus set. The addition of the nine ancillary MIRU-VNTR loci and/or spoligotyping only slightly further decreased this strain-clustering rate. Familial, social, and/or geographic proximity links were found in 48% of the clusters identified, and well-known risk factors for tuberculosis transmission were identified. Finally, an excellent correspondence was determined between our MIRU-VNTR-spoligotyping strain identifications and external reference strain lineages included in the MIRU-VNTRplus database and identified by, e.g., large sequence polymorphisms. Our results reinforce the proposal of standardized MIRU-VNTR typing as a new reference genotyping method for the epidemiological and phylogenetic screening of M. tuberculosis strains.