The effects of repeated whole genome duplication events on the evolution of cytokinin signaling pathway.
The effects of repeated whole genome duplication events on the evolution of cytokinin signaling pathway.
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DOI：
10.1186/s12862-018-1153-x
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发表时间：
2018-05-29
影响因子：
3.4
通讯作者：
Heyl A
中科院分区：
文献类型：
--
作者：
Kaltenegger E;Leng S;Heyl A
据认为，在全基因组复制（WGD）后，大部分复制的基因拷贝随着时间的推移而丢失，而保留的复制品很少。哪些因素促进了复制品的存活或死亡仍不清楚，其潜在机制也知之甚少。根据基因剂量平衡模型，预测编码相互作用蛋白的基因在WGD后优先共保留。其中包括编码参与复合物或信号转导的蛋白质的基因。我们已经调查了在陆地植物进化过程中重复的WGD影响细胞分裂素信号传导的方式，以研究在这一重要的信号转导途径中基因可复制性和共保留的模式。通过整合系统发育分析与基因组共线性的比较，我们发现，细胞分裂素受体介导的信号输入被证明是高度保守的，在长期的进化时间尺度，与受体主要表现出基因丢失后，重复WGD。然而，下游元件，例如，响应调节因子，主要保留后WGD，从而形成基因家族在大多数植物谱系。WGDs后的共滞留表明相互作用组分之间的基因剂量平衡似乎在细胞分裂素信号通路的进化中起次要作用。总的来说，细胞分裂素信号传导的核心基因显示出WGD后基因保留的高度异质性模式，反映了形成重复基因长期命运的各种因素之间的复杂关系。本文的在线版本（10.1186/s12862-018-1153-x）包含补充材料，可供授权用户使用。
It is thought that after whole-genome duplications (WGDs), a large fraction of the duplicated gene copies is lost over time while few duplicates are retained. Which factors promote survival or death of a duplicate remains unclear and the underlying mechanisms are poorly understood. According to the model of gene dosage balance, genes encoding interacting proteins are predicted to be preferentially co-retained after WGDs. Among these are genes encoding proteins involved in complexes or in signal transduction. We have investigated the way that repeated WGDs during land plant evolution have affected cytokinin signaling to study patterns of gene duplicability and co-retention in this important signal transduction pathway. Through the integration of phylogenetic analyses with comparisons of genome collinearity, we have found that signal input mediated by cytokinin receptors proved to be highly conserved over long evolutionary time-scales, with receptors showing predominantly gene loss after repeated WGDs. However, the downstream elements, e,g. response regulators, were mainly retained after WGDs and thereby formed gene families in most plant lineages. Gene dosage balance between the interacting components indicated by co-retention after WGDs seems to play a minor role in the evolution of cytokinin signaling pathway. Overall, core genes of cytokinin signaling show a highly heterogeneous pattern of gene retention after WGD, reflecting complex relationships between the various factors that shape the long-term fate of a duplicated gene. The online version of this article (10.1186/s12862-018-1153-x) contains supplementary material, which is available to authorized users.
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