Systematic Analysis of the Maize PHD-Finger Gene Family Reveals a Subfamily Involved in Abiotic Stress Response.
Systematic Analysis of the Maize PHD-Finger Gene Family Reveals a Subfamily Involved in Abiotic Stress Response.
复制标题
玉米 PHD-Finger 基因家族的系统分析揭示了参与非生物胁迫反应的亚家族
DOI：
10.3390/ijms161023517
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发表时间：
2015-09-30
影响因子：
5.6
通讯作者：
Cheng B
中科院分区：
文献类型：
--
作者：
Wang Q;Liu J;Wang Y;Zhao Y;Jiang H;Cheng B
植物同源结构域指蛋白广泛存在于真核生物中，是调控转录和染色质结构的关键分子。许多PHD指蛋白在动物体内的结构和功能已得到了很好的研究。然而，目前植物PHD指蛋白的研究较少，且大多数PHD指蛋白的功能尚不清楚。本研究对玉米PHD家系进行了全面的分析。通过序列分析和内含子/外显子分析，将67个玉米PHD指基因分为10个类群。这些基因不均匀地分布在10条染色体上，包含12个片段重复事件，表明片段重复是玉米PHD家族扩展的主要贡献者。旁系同源基因在重复事件后主要经历基于Ka/Ks比率的限制性功能分歧的纯化选择。基因数字表达分析表明，PHD家族在玉米发育过程中具有广泛的表达谱。此外，通过启动子顺式元件和表达分析，共检测到15个潜在的胁迫应答基因。ZmPHD 14和ZmPHD 19蛋白定位于细胞核。这些结果为进一步研究玉米PHD-finger家族的功能基因组奠定了基础，并为鉴定和克隆响应非生物胁迫的潜在候选基因提供了重要线索。
Plant homeodomain (PHD)-finger proteins were found universally in eukaryotes and known as key players in regulating transcription and chromatin structure. Many PHD-finger proteins have been well studied on structure and function in animals. Whereas, only a few of plant PHD-finger factors had been characterized, and majority of PHD-finger proteins were functionally unclear. In this study, a complete comprehensive analysis of maize PHD family is presented. Sixty-seven PHD-finger genes in maize were identified and further divided into ten groups according to phylogenetic analysis that was supported by motif and intron/exon analysis. These genes were unevenly distributed on ten chromosomes and contained 12 segmental duplication events, suggesting that segmental duplications were the major contributors in expansion of the maize PHD family. The paralogous genes mainly experienced purifying selection with restrictive functional divergence after the duplication events on the basis of the Ka/Ks ratio. Gene digital expression analysis showed that the PHD family had a wide expression profile in maize development. In addition, 15 potential stress response genes were detected by promoter cis-element and expression analysis. Two proteins ZmPHD14 and ZmPHD19 were located in the nucleus. These results provided a solid base for future functional genome study of the PHD-finger family in maize and afforded important clues for characterizing and cloning potentially important candidates in response to abiotic stresses.