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首页> 外文期刊>Journal of Clinical Microbiology >Proposal for Standardization of Optimized Mycobacterial Interspersed Repetitive Unit-Variable-Number Tandem Repeat Typing of Mycobacterium tuberculosis
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Proposal for Standardization of Optimized Mycobacterial Interspersed Repetitive Unit-Variable-Number Tandem Repeat Typing of Mycobacterium tuberculosis

机译：结核分枝杆菌的优化分枝杆菌散布重复单位-可变数串联重复重复输入的标准化建议

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Molecular typing based on 12 loci containing variable numbers of tandem repeats of mycobacterial interspersed repetitive units (MIRU-VNTRs) has been adopted in combination with spoligotyping as the basis for large-scale, high-throughput genotyping of Mycobacterium tuberculosis. However, even the combination of these two methods is still less discriminatory than IS6110 fingerprinting. Here, we define an optimized set of MIRU-VNTR loci with a significantly higher discriminatory power. The resolution and the stability/robustness of 29 loci were analyzed, using a total of 824 tubercle bacillus isolates, including representatives of the main lineages identified worldwide so far. Five loci were excluded for lack of robustness and/or stability in serial isolates or isolates from epidemiologically linked patients. The use of the 24 remaining loci increased the number of types by 40%—and by 23% in combination with spoligotyping—among isolates from cosmopolitan origins, compared to those obtained with the original set of 12 loci. Consequently, the clustering rate was decreased by fourfold—by threefold in combination with spoligotyping—under the same conditions. A discriminatory subset of 15 loci with the highest evolutionary rates was then defined that concentrated 96% of the total resolution obtained with the full 24-locus set. Its predictive value for evaluating M. tuberculosis transmission was found to be equal to that of IS6110 restriction fragment length polymorphism typing, as shown in a companion population-based study. This 15-locus system is therefore proposed as the new standard for routine epidemiological discrimination of M. tuberculosis isolates and the 24-locus system as a high-resolution tool for phylogenetic studies.
机译：基于12个基因座的分子分型，该基因座包含可变数目的分枝杆菌重复单元（MIRU-VNTRs）串联重复序列，并已与spoligotyping相结合，作为结核分枝杆菌。但是，即使这两种方法的组合也比IS 6110 指纹识别方法具有更少的歧视性。在这里，我们定义了具有显着更高的鉴别能力的一组MIRU-VNTR基因座。使用总共824个结核杆菌分离株分析了29个基因座的分辨率和稳定性/鲁棒性，包括迄今为止在世界范围内鉴定出的主要谱系的代表。由于连续分离株或流行病学相关患者分离株缺乏稳健性和/或稳定性，排除了五个基因座。与从最初的12个基因座获得的分离株相比，使用剩下的24个基因座使来自世界性起源的分离株中类型的数量增加了40％（与血吸虫分型相结合，增加了23％）。因此，在相同条件下，聚类率降低了四倍（结合了盲目分型法降低了三倍）。然后定义了具有最高进化率的15个基因座的歧视性子集，该子集集中了全24位基因组获得的总分辨率的96％。其对评估 M的预测价值。一项基于人群的研究表明，结核病的传播与IS 6110 限制性片段长度多态性分型相同。因此，建议将该15个位点的系统作为 M常规流行病学鉴别的新标准。结核病隔离株和24位点系统是系统发育研究的高分辨率工具。

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