Ray Swatismita, Agarwal Pinky, Arora Rita, Kapoor Sanjay, Tyagi Akhilesh K
Interdisciplinary Centre for Plant Genomics and Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, New Delhi, 110021, India.
Mol Genet Genomics. 2007 Nov;278(5):493-505. doi: 10.1007/s00438-007-0267-4. Epub 2007 Jul 18.
Calcium-dependent protein kinases (CDPKs) are important sensors of Ca(+2) flux in plants, which control plant development and responses by regulating downstream components of calcium signaling pathways. Availability of the whole genome sequence and microarray platform allows investigation of genome-wide organization and expression profile of CDPK genes in rice with a view to ultimately define their function in plant systems. Genome-wide analysis led to identification of 31 CDPK genes in rice after a thorough annotation exercise based upon HMM profiles. Twenty-nine already identified CDPK genes were verified and two new members were added to the CDPK gene family of rice. Relative expression of all these genes has been analyzed by using Affymetrix rice genome arraytrade mark during three vegetative stages, six stages of panicle (P1-P6) and five stages of seed (S1-S5) development along with three abiotic stress conditions, viz. cold, salt and desiccation, given to seedling. Thirty-one CDPK genes were found to express in at least one of the experimental stages studied. Of these, transcripts for twenty three genes accumulated differentially during reproductive developmental stages; nine of them were preferentially up-regulated only in panicle, five were up-regulated in stages of panicles as well as seed development, whereas, expression of one gene was found to be specific to the S1 stage of seed development. Eight genes were found to be down-regulated during the panicle and seed developmental stages. Six CDPK genes were found to be induced while the expression of one gene was down-regulated under stress conditions. The differential expression of CDPK genes during reproductive development and stress is suggestive of their involvement in the underlying signal transduction pathways. Furthermore, up-regulation of common genes both during reproductive development as well as stress responses is indicative of common element between reproduction and stress.
钙依赖蛋白激酶（CDPKs）是植物中钙离子通量的重要传感器，通过调节钙信号通路的下游组分来控制植物的发育和响应。全基因组序列和微阵列平台的可用性使得人们能够研究水稻中CDPK基因的全基因组组织和表达谱，以期最终确定它们在植物系统中的功能。基于隐马尔可夫模型（HMM）图谱进行全面注释后，全基因组分析在水稻中鉴定出31个CDPK基因。已鉴定的29个CDPK基因得到验证，并且在水稻的CDPK基因家族中增加了两个新成员。利用Affymetrix水稻基因组芯片，分析了所有这些基因在三个营养生长阶段、六个穗发育阶段（P1 - P6）和五个种子发育阶段（S1 - S5）以及对幼苗施加的三种非生物胁迫条件（即冷、盐和干旱）下的相对表达。发现31个CDPK基因在至少一个所研究的实验阶段表达。其中，23个基因的转录本在生殖发育阶段有差异积累；其中9个仅在穗中优先上调，5个在穗和种子发育阶段均上调，而发现一个基因的表达特异于种子发育的S1阶段。发现8个基因在穗和种子发育阶段下调。发现6个CDPK基因在胁迫条件下被诱导，而一个基因的表达下调。CDPK基因在生殖发育和胁迫期间的差异表达表明它们参与了潜在的信号转导途径。此外，在生殖发育和胁迫响应期间共同基因的上调表明生殖和胁迫之间存在共同要素。
