Incongruence between multi-locus sequence analysis ( MLSA) and whole-genome-based phylogenies: Pseudomonas syringae pathovar pisi as a cautionary tale
Incongruence between multi-locus sequence analysis ( MLSA) and whole-genome-based phylogenies: Pseudomonas syringae pathovar pisi as a cautionary tale
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DOI：
10.1111/mpp.12103
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发表时间：
2014-06-01
影响因子：
4.9
通讯作者：
Foster, Jeffrey T.
中科院分区：
文献类型：
--
作者：
Baltrus, David A.;Dougherty, Kevin;Foster, Jeffrey T.
以前的系统发育，利用基因组位点的一个子集，分裂丁香假单胞菌pv。Pisi分为两个支持良好的支系，并暗示这些支系在宿主范围上趋同。在这种系统发育关系的背景下，对表型和基因型数据的分析表明，在毒力基因丢失和获得的水平上进一步趋同。我们生成了另外两个从患病豌豆植株中分离出来的丁香假单胞菌菌株的基因组组装草图，并证明了从数据子集创建的系统发育与整个基因组之间的不一致性。我们的全基因组分析表明，该菌株被归类为pv。Pisi实际上形成了一个连贯的单系进化枝，所以这种明显的趋同实际上是共同祖先的产物。我们用这个例子来提醒大家，在对密切相关的丁香假单胞菌株进行进化推断时要谨慎。
Previous phylogenies, built using a subset of genomic loci, split Pseudomonas syringae pv. pisi into two well-supported clades and implied convergence in host range for these lineages. The analysis of phenotypic and genotypic data within the context of this phylogenetic relationship implied further convergence at the level of virulence gene loss and acquisition. We generate draft genome assemblies for two additional P.syringae strains, isolated from diseased pea plants, and demonstrate incongruence between phylogenies created from a subset of the data compared with the whole genomes. Our whole-genome analysis demonstrates that strains classified as pv. pisi actually form a coherent monophyletic clade, so that apparent convergence is actually the product of shared ancestry. We use this example to urge caution when making evolutionary inferences across closely related strains of P.syringae.