Genotypic diversity analysis of Mycobacterium tuberculosis strains collected from Beijing in 2009, using spoligotyping and VNTR typing.
Genotypic diversity analysis of Mycobacterium tuberculosis strains collected from Beijing in 2009, using spoligotyping and VNTR typing.
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利用Spoligotyping和VNTR分型对2009年北京采集的结核分枝杆菌菌株进行基因型多样性分析
DOI：
10.1371/journal.pone.0106787
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Li C
中科院分区：
文献类型：
--
作者：
Liu Y;Tian M;Wang X;Wei R;Xing Q;Ma T;Jiang X;Li W;Zhang Z;Xue Y;Zhang X;Wang W;Wang T;Hong F;Zhang J;Wang S;Li C
背景 结核病（TB）在中国是一个严重的问题。虽然在全国范围内对结核分枝杆菌（M. tuberculosis）基因分型进行了一些研究，但在人口众多的中国首都北京，详细的研究却很少。这里，采用经典方法对2009年在北京采集的结核分枝杆菌临床菌株进行了基因分型。方法/主要发现 我们的目的是分析北京都市区结核分枝杆菌菌株的遗传多样性。我们使用两种标准方法对这些菌株进行了表征：spoligotyping (n = 1585) 和可变数量串联重复 (VNTR) 分型 (n = 1053)。我们发现最突出的基因型是北京家族基因型。其他基因型包括MANU、T和H家族等。Spoligotyping得到137种类型，其中包括101个非簇菌株和1484个簇，分为36个簇。在VNTR分型分析中，我们选择了12位点（QUB-11b、MIRU10、Mtub21、MIRU 23、MIRU39、MIRU16、MIRU40、MIRU31、Mtub24、Mtub04、MIRU20和QUB-4156c）并将其命名为12位点（BJ）VNTR。 VNTR 产生 869 个类型模式，包括 796 个非簇菌株和 257 个簇，分为 73 个簇。它与 24 位点 VNTR 具有几乎相同的辨别力。结论/意义我们的研究提供了北京结核分枝杆菌基因型多样性的详细特征。结合 spoligotyping 和 VNTR 分型来研究结核分枝杆菌的基因分型比单独使用这些技术时获得了更好的结果。我们的结果表明，北京家族菌株仍然是北京最流行的结核分枝杆菌。此外，利用12位点（BJ）VNTR成功完成了北京结核分枝杆菌菌株的VNTR分型分析。该方法用于北京地区菌株基因分型具有可比性。本研究不仅将为结核病研究者的相关研究提供有价值的信息，也为北京市结核病的防控提供指导。
Background Tuberculosis (TB) is a serious problem in China. While there have been some studies on the nationwide genotyping of Mycobacterium tuberculosis (M. tuberculosis), there has been little detailed research in Beijing, the capital of China, which has a huge population. Here, M. tuberculosis clinical strains collected in Beijing during 2009 were genotyped by classical methods. Methodology/Principal Findings Our aim was to analyze the genetic diversity of M. tuberculosis strains within the Beijing metropolitan area. We characterized these strains using two standard methods, spoligotyping (n = 1585) and variable number of tandem repeat (VNTR) typing (n = 1053). We found that the most prominent genotype was Beijing family genotype. Other genotypes included the MANU, T and H families etc. Spoligotyping resulted in 137 type patterns, included 101 unclustered strains and 1484 strains clustered into 36 clusters. In VNTR typing analysis, we selected 12-locus (QUB-11b, MIRU10, Mtub21, MIRU 23, MIRU39, MIRU16, MIRU40, MIRU31, Mtub24, Mtub04, MIRU20, and QUB-4156c) and named it 12-locus (BJ) VNTR. VNTR resulted in 869 type patterns, included 796 unclustered strains and 257 strains clustered into 73 clusters. It has almost equal discriminatory power to the 24-locus VNTR. Conclusions/Significance Our study provides a detailed characterization of the genotypic diversity of M. tuberculosis in Beijing. Combining spoligotyping and VNTR typing to study the genotyping of M. tuberculosis gave superior results than when these techniques were used separately. Our results indicated that Beijing family strains were still the most prevalent M. tuberculosis in Beijing. Moreover, VNTR typing analyzing of M. tuberculosis strains in Beijing was successfully accomplished using 12-locus (BJ) VNTR. This method used for strains genotyping from the Beijing metropolitan area was comparable. This study will not only provide TB researchers with valuable information for related studies, but also provides guidance for the prevention and control of TB in Beijing.
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DOI：
10.5588/ijtld.11.0255
发表时间：
2012-04-01
影响因子：
4
作者：
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作者：
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