Bioinformatics Lab, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi, 110067, India.
Stress Signalling Lab, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi, 110067, India.
Sci Rep. 2022 Oct 7;12(1):16862. doi: 10.1038/s41598-022-20750-2.
Calcineurin B-like proteins (CBL)-interacting protein kinases (CIPKs) regulate the developmental processes, hormone signal transduction and stress responses in plants. Although the genome sequence of chickpea is available, information related to the CIPK gene family is missing in this important crop plant. Here, a total of 22 CIPK genes were identified and characterized in chickpea. We found a high degree of structural and evolutionary conservation in the chickpea CIPK family. Our analysis showed that chickpea CIPKs have evolved with dicots such as Arabidopsis and soybean, and extensive gene duplication events have played an important role in the evolution and expansion of the CIPK gene family in chickpea. The three-dimensional structure of chickpea CIPKs was described by protein homology modelling. Most CIPK proteins are localized in the cytoplasm and nucleus, as predicted by subcellular localization analysis. Promoter analysis revealed various cis-regulatory elements related to plant development, hormone signaling, and abiotic stresses. RNA-seq expression analysis indicated that CIPKs are significantly expressed through a spectrum of developmental stages, tissue/organs that hinted at their important role in plant development. The qRT-PCR analysis revealed that several CaCIPK genes had specific and overlapping expressions in different abiotic stresses like drought, salt, and ABA, suggesting the important role of this gene family in abiotic stress signaling in chickpea. Thus, this study provides an avenue for detailed functional characterization of the CIPK gene family in chickpea and other legume crops.
钙调神经磷酸酶 B 类似蛋白（CBL）-相互作用蛋白激酶（CIPK）调节植物的发育过程、激素信号转导和应激反应。尽管鹰嘴豆的基因组序列已经可用，但在这种重要的作物植物中，有关 CIPK 基因家族的信息是缺失的。在这里，共鉴定和表征了鹰嘴豆中的 22 个 CIPK 基因。我们发现鹰嘴豆 CIPK 家族在结构和进化上与拟南芥和大豆等双子叶植物高度保守。我们的分析表明，鹰嘴豆 CIPKs 与拟南芥和大豆等双子叶植物一起进化，广泛的基因复制事件在鹰嘴豆 CIPK 基因家族的进化和扩张中发挥了重要作用。通过蛋白质同源建模描述了鹰嘴豆 CIPK 的三维结构。大多数 CIPK 蛋白定位于细胞质和细胞核中，这是通过亚细胞定位分析预测的。启动子分析揭示了与植物发育、激素信号和非生物胁迫相关的各种顺式调控元件。RNA-seq 表达分析表明，CIPKs 在各种发育阶段和组织/器官中都有显著表达，暗示它们在植物发育中的重要作用。qRT-PCR 分析显示，一些 CaCIPK 基因在不同的非生物胁迫（如干旱、盐和 ABA）下具有特异性和重叠表达，表明该基因家族在鹰嘴豆非生物胁迫信号转导中起着重要作用。因此，本研究为鹰嘴豆和其他豆科作物中 CIPK 基因家族的详细功能表征提供了途径。
