Molecular Biology Reports

, Volume 40, Issue 3, pp 2645–2662 | Cite as

Genome-wide identification, classification, and expression analysis of CDPK and its closely related gene families in poplar (Populus trichocarpa)

Article

Abstract

Calcium-dependent protein kinases (CDPKs) are Ca2+-binding proteins known to play crucial roles in Ca2+ 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.

Keywords

Populus trichocarpa CDPK Phylogenetic analysis Gene structure Expression analysis 

Supplementary material

11033_2012_2351_MOESM1_ESM.xlsx (12 kb)
Table S1 A list of probes corresponding to Populus CDPK and its closely related genes for microarray analysis
11033_2012_2351_MOESM2_ESM.xlsx (10 kb)
Table S2 Primer sequences of the selected Populus CDPK genes for qRT-PCR analysis

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Copyright information

© Springer Science+Business Media Dordrecht 2012

Authors and Affiliations

  1. 1.CAS Key Laboratory of Biofuels, Shandong Provincial Key Laboratory of Energy GeneticsQingdao Institute of BioEnergy and BioProcess Technology, Chinese Academy of SciencesQingdaoPeople’s Republic of China
  2. 2.Complex Carbohydrate Research CenterUniversity of GeorgiaAthensUSA

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