rpoB sequence analysis as a novel basis for bacterial identification
rpoB sequence analysis as a novel basis for bacterial identification
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DOI：
10.1046/j.1365-2958.1997.6382009.x
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发表时间：
1997-12-01
影响因子：
3.6
通讯作者：
Raoult, D
中科院分区：
文献类型：
--
作者：
Mollet, C;Drancourt, M;Raoult, D
比较保守基因（最常见的是编码16S rRNA的基因）的序列用于细菌基因型鉴定。在一些分类群中，如肠杆菌科，该基因内的变异不允许可靠的物种鉴定。我们研究了RNA聚合酶β亚基编码基因（rpoB）序列作为通用细菌基因型鉴定的替代工具的有用性。我们生成了一个数据库的部分rpoB的14个肠杆菌科物种，然后通过成对比较rpoB和16S rRNA基因之间的种内和种间分歧进行评估。我们发现，不同菌株的rpoB序列之间的分歧水平显着高于它们的16S rRNA基因之间。通过基于rpoB序列比较将20个盲选的临床分离株分配至正确的肠道菌种，进一步证实了这种较高的区分能力。肠杆菌科rpoB序列的比较也被用作其系统发育分析的基础，并证明克雷伯氏菌属是多系的。与rpoB获得的树是更兼容的肠杆菌科目前公认的分类比16S rRNA获得的。这些数据表明，rpoB是一个强大的鉴定工具，这可能是有用的通用细菌鉴定。
Comparison of the sequences of conserved genes, most commonly those encoding 16S rRNA, is used for bacterial genotypic identification. Among some taxa, such as the Enterobacteriaceae, variation within this gene does not allow confident species identification. We investigated the usefulness of RNA polymerase beta-subunit encoding gene (rpoB) sequences as an alternative tool for universal bacterial genotypic identification. We generated a database of partial rpoB for 14 Enterobacteriaceae species and then assessed the intra-and interspecies divergence between the rpoB and the 16S rRNA genes by pairwise comparisons. We found that levels of divergence between the rpoB sequences of different strains were markedly higher than those between their 16S rRNA genes. This higher discriminatory power was further confirmed by assigning 20 blindly selected clinical isolates to the correct enteric species on the basis of rpoB sequence comparison. Comparison of rpoB sequences from Enterobacteriaceae was also used as the basis for their phylogenetic analysis and demonstrated the genus Klebsiella to be polyphyletic. The trees obtained with rpoB were more compatible with the currently accepted classification of Enterobacteriaceae than those obtained with 16S rRNA. These data indicate that rpoB is a powerful identification tool, which may be useful for universal bacterial identification.