title: Genome-wide identification, classification, and expression analysis of CDPK and its closely related gene families in poplar (Populus trichocarpa).
abstract: Calcium-dependent protein kinases (CDPKs) are Ca(2+)-binding proteins known to play crucial roles in Ca(2+) signal transduction pathways which have been identified throughout plant kingdom and in certain types of protists. Genome-wide analysis of CDPKs have been carried out in Arabidopsis, rice and wheat, and quite a few of CDPKs were proved to play crucial roles in plant stress responsive signature pathways. In this study, a comprehensive analysis of Populus CDPK and its closely related gene families was performed, including phylogeny, chromosome locations, gene structures, and expression profiles. Thirty Populus CDPK genes and twenty closely related kinase genes were identified, which were phylogenetically clustered into eight distinct subfamilies and predominately distributed across fifteen linkage groups (LG). Genomic organization analyses indicated that purifying selection has played a pivotal role in the retention and maintenance of Populus CDPK gene family. Furthermore, microarray analysis showed that a number of Populus CDPK and its closely related genes differentially expressed across disparate tissues and under various stresses. The expression profiles of paralogous pairs were also investigated to reveal their evolution fates. In addition, quantitative real-time RT-PCR was performed on nine selected CDPK genes to confirm their responses to drought stress treatment. These observations may lay the foundation for future functional analysis of Populus CDPK and its closely related gene families to unravel their biological roles.
authors.affiliation: CAS Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy Genetics, Qingdao Institute of BioEnergy and BioProcess Technology, Chinese Academy of Sciences, Qingdao, Shandong, People's Republic of China. zuoran@qibebt.ac.cn
authors.forename: Ran
authors.initials: R
authors.lastname: Zuo
authors.forename: Ruibo
authors.initials: R
authors.lastname: Hu
authors.forename: Guohua
authors.initials: G
authors.lastname: Chai
authors.forename: Meiling
authors.initials: M
authors.lastname: Xu
authors.forename: Guang
authors.initials: G
authors.lastname: Qi
authors.forename: Yingzhen
authors.initials: Y
authors.lastname: Kong
authors.forename: Gongke
authors.initials: G
authors.lastname: Zhou
mesh_terms: D002874:Chromosome Mapping; D016000:Cluster Analysis; D055864:Droughts; D020440:Gene Duplication; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D023061:Gene Order; D055106:Genome-Wide Association Study; D005810:Multigene Family; D010802:Phylogeny; D032107:Populus / Q000235:genetics* / Q000378:metabolism; D011494:Protein Kinases / Q000145:classification / Q000235:genetics* / Q000378:metabolism; D013312:Stress, Physiological / Q000235:genetics; D017871:Calcium-Calmodulin-Dependent Protein Kinases
chemical_list: D011494:Protein Kinases; D017871:Calcium-Calmodulin-Dependent Protein Kinases