Draft Genomes, Phylogenetic Reconstruction, and Comparative Genomics of Two Novel Cohabiting Bacterial Symbionts Isolated from Frankliniella occidentalis.
Draft Genomes, Phylogenetic Reconstruction, and Comparative Genomics of Two Novel Cohabiting Bacterial Symbionts Isolated from Frankliniella occidentalis.
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DOI：
10.1093/gbe/evv136
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发表时间：
2015-07-15
影响因子：
3.3
通讯作者：
Del Sol R
中科院分区：
文献类型：
--
作者：
Facey PD;Méric G;Hitchings MD;Pachebat JA;Hegarty MJ;Chen X;Morgan LV;Hoeppner JE;Whitten MM;Kirk WD;Dyson PJ;Sheppard SK;Del Sol R
专性细菌共生体广泛存在于许多无脊椎动物中，它们通常局限于专门的宿主细胞，并直接从母体传递给后代。越来越多的这些细菌正在被鉴定，但关于它们的种群结构和进化的问题仍然存在。在这里，我们采取比较基因组学的方法来调查两个突出的细菌共生体（BFO 1和BFO 2）分离的地理上分离的种群的西部花蓟马，花蓟马。我们对这些共生体进行分类的多方面方法包括串联多位点序列分析（MLSA）同源性，核糖体多位点序列分型（rMLST），全基因组同源性的构建和深入的基因组比较。我们发现，BFo 1基因组聚类更接近欧文氏菌属的物种，是一个假定的密切关系欧文氏菌aphidicola。BFo 1也可能与梨叶欧文氏菌（Erwinia pyrifoliae/Erwinia amylovora）和非致病性塔斯马尼欧文氏菌（Erwinia tasmaniensis）有共同的祖先，遗传特征与比林氏欧文氏菌（Erwinia billingiae）相似。BFo 1基因组含有在欧文氏菌属中发现的毒力因子，但代表了一个不同的谱系。相比之下，我们发现BFo 2属于肠杆菌目，但与目前已知的任何细菌物种都不密切相关。串联的MLSA系统发育表明，它可能与欧文氏菌属和泛菌属有共同的祖先，并且根据rMLST基因的聚类，它与菠萝泛菌关系最密切，但代表了一个不同的谱系。我们重建了欧文氏菌和泛菌的假定共同祖先的核心基因组，并将其与BFo细菌的基因组进行了比较。BFo 2不具有在欧文氏菌属和泛菌属中无所不在的毒力决定因素。总之，这些数据是一致的BFo 2代表一个高度新的物种，可能与已知的泛菌。
Obligate bacterial symbionts are widespread in many invertebrates, where they are often confined to specialized host cells and are transmitted directly from mother to progeny. Increasing numbers of these bacteria are being characterized but questions remain about their population structure and evolution. Here we take a comparative genomics approach to investigate two prominent bacterial symbionts (BFo1 and BFo2) isolated from geographically separated populations of western flower thrips, Frankliniella occidentalis. Our multifaceted approach to classifying these symbionts includes concatenated multilocus sequence analysis (MLSA) phylogenies, ribosomal multilocus sequence typing (rMLST), construction of whole-genome phylogenies, and in-depth genomic comparisons. We showed that the BFo1 genome clusters more closely to species in the genus Erwinia, and is a putative close relative to Erwinia aphidicola. BFo1 is also likely to have shared a common ancestor with Erwinia pyrifoliae/Erwinia amylovora and the nonpathogenic Erwinia tasmaniensis and genetic traits similar to Erwinia billingiae. The BFo1 genome contained virulence factors found in the genus Erwinia but represented a divergent lineage. In contrast, we showed that BFo2 belongs within the Enterobacteriales but does not group closely with any currently known bacterial species. Concatenated MLSA phylogenies indicate that it may have shared a common ancestor to the Erwinia and Pantoea genera, and based on the clustering of rMLST genes, it was most closely related to Pantoea ananatis but represented a divergent lineage. We reconstructed a core genome of a putative common ancestor of Erwinia and Pantoea and compared this with the genomes of BFo bacteria. BFo2 possessed none of the virulence determinants that were omnipresent in the Erwinia and Pantoea genera. Taken together, these data are consistent with BFo2 representing a highly novel species that maybe related to known Pantoea.