Department of Genetics and Plant Breeding, Faculty of Agriculture, Sri Sri University, Cuttack 754006, Odisha, India.
Krishi Vigyan Kendra, Bikaner II, Swami Keshwanand Rajasthan Agricultural University, Bikaner 334603, Rajasthan, India.
Plant Sci. 2023 Sep;334:111749. doi: 10.1016/j.plantsci.2023.111749. Epub 2023 May 25.
Proline-rich extensin-like receptor kinases (PERKs) play a crucial role in a wide range of biological processes in plants. In model plants like Arabidopsis, the PERK gene family has been well investigated. Conversely, no information available on the PERK gene family and their biological functions largely remained unknown in rice. This study analyzed the basic physicochemical properties, phylogeny, gene structure, cis-acting elements, Gene ontology (GO) annotation and protein-protein interaction of OsPERK gene family members using various bioinformatics tools based on the whole-genome data of O. sativa. Thus, in this work, 8 PERK genes in rice were identified, and their roles in plant development, growth, and response to various stresses were studied. A phylogenetic study revealed that OsPERKs are grouped into seven classes. Chromosomal mapping also displayed that 8 PERK genes were unevenly distributed on 12 chromosomes. Further, the prediction of subcellular localization indicated that OsPERKs were mainly located at the endomembrane system. Gene structure analysis of OsPERKs has shown a distinctive evolutionary path. In addition, synteny analysis exhibited the 40 orthologous gene pairs in Arabidopsis thaliana, Triticum aestivum, Hordeum vulgare and Medicago truncatula. Furthermore, Ka to Ks proportion shows that most OsPERK genes experienced resilient purifying selection during evolutionary processes. The OsPERK promoters contained several cis-acting regulatory, which are crucial for plant development processes, phytohormone signaling, stress, and defense response. Moreover, the expression pattern of OsPERK family members showed differential expression patterns in different tissues and various stress conditions. Taken together, these results provide clear messages for a better understanding the roles of OsPERK genes in various development stages, tissues, and multifactorial stress as well as enriched the related research of OsPERK family members in rice.
富含脯氨酸的扩展素样受体激酶（PERKs）在植物的广泛生物过程中发挥着关键作用。在模式植物如拟南芥中，PERK 基因家族已得到充分研究。相反，在水稻中，关于 PERK 基因家族及其生物学功能的信息在很大程度上仍然未知。本研究利用各种生物信息学工具，基于 O. sativa 的全基因组数据，分析了 OsPERK 基因家族成员的基本理化性质、系统发育、基因结构、顺式作用元件、基因本体（GO）注释和蛋白质-蛋白质相互作用。因此，在这项工作中，鉴定了水稻中的 8 个 PERK 基因，并研究了它们在植物发育、生长和对各种胁迫的反应中的作用。系统发育研究表明，OsPERKs 分为七个类。染色体定位也显示，8 个 PERK 基因不均匀分布在 12 条染色体上。此外，亚细胞定位预测表明 OsPERKs 主要位于内膜系统。OsPERKs 的基因结构分析显示出独特的进化途径。此外，共线性分析显示拟南芥、小麦、大麦和紫花苜蓿中有 40 个直系同源基因对。此外，Ka 到 Ks 的比例表明，大多数 OsPERK 基因在进化过程中经历了弹性纯化选择。OsPERK 启动子包含几个顺式作用调控元件，这些元件对植物发育过程、植物激素信号转导、胁迫和防御反应至关重要。此外，OsPERK 家族成员的表达模式显示在不同组织和各种胁迫条件下具有不同的表达模式。综上所述，这些结果为更好地理解 OsPERK 基因在不同发育阶段、组织和多因素胁迫中的作用提供了明确的信息，并丰富了水稻中 OsPERK 家族成员的相关研究。
