Utility of Multilocus Variable-Number Tandem-Repeat Analysis as a Molecular Tool for Phylogenetic Analysis of Shigella sonnei
Utility of Multilocus Variable-Number Tandem-Repeat Analysis as a Molecular Tool for Phylogenetic Analysis of Shigella sonnei
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DOI：
10.1128/jcm.01607-08
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发表时间：
2009-04-01
影响因子：
9.4
通讯作者：
Tung, Sheng Kai
中科院分区：
文献类型：
--
作者：
Chiou, Chien-Shun;Watanabe, Haruo;Tung, Sheng Kai
一组916株，包括703密切相关的IST1分离株，其特征在于间IS1间隔区分型（IST），脉冲场凝胶电泳（PFGE），和多位点可变数目串联重复序列（VNTR）分析（MLVA），以评估MLVA作为分子工具的系统发育分析的宋内志贺菌的效用。通过IST、PFGE和MLVA确定的全球系统发育模式是一致的。MLVA使用26个VNTR基因座进行，具有一定范围的变异程度。703 IST1菌株的MLVA数据显示，密切相关的菌株之间的多样化主要归因于四个高度可变的基因座。亲缘关系密切的分离株的系统发育模式，确定使用MLVA配置文件的8个高度可变的基因座是一致的，确定使用26个基因座配置文件。利用18个变异有限的基因座进行聚类分析，在IST克隆群之间建立了明确的系统发育关系。因此，MLVA是一个有用的工具，S。sonnei。具有较高变异性的组合VNTR基因座是用于解析密切相关的分离株的有用标记，而具有较低变异性的组合基因座适合于在已经进化了较长时间尺度的菌株或克隆之间建立明确的系统发育关系。
A panel of 916 isolates, including 703 closely related IST1 isolates, were characterized by inter-IS1 spacer typing (IST), pulsed-field gel electrophoresis (PFGE), and multilocus variable-number tandem-repeat (VNTR) analysis (MLVA) to evaluate the utility of MLVA as a molecular tool for the phylogenetic analysis of Shigella sonnei. The global phylogenetic patterns determined by IST, PFGE, and MLVA were concordant. MLVA was carried out using 26 VNTR loci with a range of degrees of variability. MLVA data for the 703 IST1 isolates revealed that diversification among the closely related isolates was attributed mainly to four highly variable loci. The phylogenetic pattern for the closely related isolates determined using MLVA profiles of 8 highly variable loci was in agreement with that determined using the 26-locus profiles. A clustering analysis using the profiles of 18 loci with limited variability established clear phylogenetic relationships among IST clonal groups. Accordingly, MLVA is a useful tool for the phylogenetic analysis of S. sonnei. Combined VNTR loci with higher variability are useful markers for resolving closely related isolates, whereas combined loci with lower variability are suitable for establishing clear phylogenetic relationships between strains or clones that have evolved over a longer timescale.