Whole-Genome Identification, Phylogeny, and Evolution of the Cytochrome P450 Family 2 (CYP2) Subfamilies in Birds.
Whole-Genome Identification, Phylogeny, and Evolution of the Cytochrome P450 Family 2 (CYP2) Subfamilies in Birds.
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DOI：
10.1093/gbe/evw041
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发表时间：
2016-04-13
影响因子：
3.3
通讯作者：
Antunes A
中科院分区：
文献类型：
--
作者：
Almeida D;Maldonado E;Khan I;Silva L;Gilbert MT;Zhang G;Jarvis ED;O'Brien SJ;Johnson WE;Antunes A
细胞色素 P450 (CYP) 超家族可保护生物体免受内源性和有毒环境化合物的侵害，因此对于生存至关重要。然而，除了哺乳动物之外，人们对 CYP2 亚家族的分子进化知之甚少。在这里，我们对代表所有主要现存鸟类进化枝的 48 个鸟类全基因组中的 CYP2 家族进行了表征。总体而言，确定了 12 个 CYP2 亚家族，包括首次描述鸟类基因组中的 CYP2F、CYP2G 和几个 CYP2AF 基因。一些先前被描述为谱系特异性的 CYP2 基因，例如 CYP2K 和 CYP2W，在所有鸟类群体中都普遍存在。此外，我们还发现了大量的 CYP2J 拷贝，这些拷贝先前已与水重吸收相关。我们在禽类 CYP2C、CYP2D、CYP2H、CYP2J、CYP2K 和 CYP2AC 亚科中检测到正选择。此外，我们还确定了在显着正选择下影响 CYP2 结构和功能的新底物识别位点（SRS0、SRS2_SRS3 和 SRS3.1）和血红素结合区域。鸟类 CYP2D 中的一些阳性选择位点位于先前与植物毒素代谢相关的同一 SRS1 区域内。此外，我们发现一些鸟类 CYP2 亚科的选择性约束变化始终与不同的摄食习惯（CYP2H 和 CYP2J）、栖息地（CYP2D、CYP2H、CYP2J 和 CYP2K）和迁徙行为（CYP2D、CYP2H 和 CYP2J）相关。总的来说，我们的研究结果表明，CYP2 亚家族存在活性酶位点选择，以及与鸟类不同生活史性状相关的差异选择。
The cytochrome P450 (CYP) superfamily defends organisms from endogenous and noxious environmental compounds, and thus is crucial for survival. However, beyond mammals the molecular evolution of CYP2 subfamilies is poorly understood. Here, we characterized the CYP2 family across 48 avian whole genomes representing all major extant bird clades. Overall, 12 CYP2 subfamilies were identified, including the first description of the CYP2F, CYP2G, and several CYP2AF genes in avian genomes. Some of the CYP2 genes previously described as being lineage-specific, such as CYP2K and CYP2W, are ubiquitous to all avian groups. Furthermore, we identified a large number of CYP2J copies, which have been associated previously with water reabsorption. We detected positive selection in the avian CYP2C, CYP2D, CYP2H, CYP2J, CYP2K, and CYP2AC subfamilies. Moreover, we identified new substrate recognition sites (SRS0, SRS2_SRS3, and SRS3.1) and heme binding areas that influence CYP2 structure and function of functional importance as under significant positive selection. Some of the positively selected sites in avian CYP2D are located within the same SRS1 region that was previously linked with the metabolism of plant toxins. Additionally, we find that selective constraint variations in some avian CYP2 subfamilies are consistently associated with different feeding habits (CYP2H and CYP2J), habitats (CYP2D, CYP2H, CYP2J, and CYP2K), and migratory behaviors (CYP2D, CYP2H, and CYP2J). Overall, our findings indicate that there has been active enzyme site selection on CYP2 subfamilies and differential selection associated with different life history traits among birds.