Investigation of the Evolutionary Development of the Genus Bifidobacterium by Comparative Genomics
Investigation of the Evolutionary Development of the Genus Bifidobacterium by Comparative Genomics
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DOI：
10.1128/aem.02004-14
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发表时间：
2014-10-01
影响因子：
4.4
通讯作者：
Ventura, Marco
中科院分区：
文献类型：
--
作者：
Lugli, Gabriele Andrea;Milani, Christian;Ventura, Marco
双歧杆菌属目前包括48个公认的分类群，它们已从不同的生态系统中分离出来。然而，目前biobacteria的基因型数据的相对缺乏阻碍了。在这里，我们使用基于基因组的方法重新评估了这种细菌属的分类，这表明以前的生物细菌分类学观点包含几个不一致之处。特别是，在特定的双歧杆菌分类群之间存在高度的遗传相关性，这不能证明它们作为单独物种的地位是合理的。这里所呈现的结果是基于涉及48个双歧杆菌分类群的每个类型菌株的基因组序列的平均核苷酸同一性分析，以及双歧杆菌属的预测核心基因组的系统发育比较分析。本研究的结果表明，完整的基因组序列的可用性允许重建一个更强大的biobacterium的细菌的同源性比从一个单一的基因为基础的序列比较，从而阻止分配一个新的或单独的biobacterium的分类单位没有这样的基因组为基础的验证。
The Bifidobacterium genus currently encompasses 48 recognized taxa, which have been isolated from different ecosystems. However, the current phylogeny of bifidobacteria is hampered by the relative paucity of genotypic data. Here, we reassessed the taxonomy of this bacterial genus using genome-based approaches, which demonstrated that the previous taxonomic view of bifidobacteria contained several inconsistencies. In particular, high levels of genetic relatedness were shown to exist between particular Bifidobacterium taxa which would not justify their status as separate species. The results presented are here based on average nucleotide identity analysis involving the genome sequences for each type strain of the 48 bifidobacterial taxa, as well as phylogenetic comparative analysis of the predicted core genome of the Bifidobacterium genus. The results of this study demonstrate that the availability of complete genome sequences allows the reconstruction of a more robust bifidobacterial phylogeny than that obtained from a single gene-based sequence comparison, thus discouraging the assignment of a new or separate bifidobacterial taxon without such a genome-based validation.