Genome-wide survey and expression analysis of calcium-dependent protein kinase in Gossypium raimondii

PLoS One. 2014 Jun 2;9(6):e98189. doi: 10.1371/journal.pone.0098189. eCollection 2014.

Abstract

Calcium-dependent protein kinases (CDPKs) are one of the largest protein kinases in plants and participate in different physiological processes through regulating downstream components of calcium signaling pathways. In this study, 41 CDPK genes, from GrCPK1 to GrCPK41, were identified in the genome of the diploid cotton, Gossypium raimondii. The phylogenetic analysis indicated that all these genes were divided into four subgroups and members within the same subgroup shared conserved exon-intron structures. The expansion of GrCPKs family in G. raimondii was due to the segmental duplication events, and the analysis of Ka/Ks ratios implied that the duplicated GrCPKs had mainly undergone strong purifying selection pressure with limited functional divergence. The cold-responsive elements in promoter regions were detected in the majority of GrCPKs. The expression analysis of 11 selected genes showed that GrCPKs exhibited tissue-specific expression patterns and the expression of GrCPKs were induced or repressed by cold treatment. These observations would lay an important foundation for functional and evolutionary analysis of CDPK gene family in Gossypium species.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Arabidopsis / genetics
  • Chromosomes, Plant / genetics
  • Gene Duplication
  • Gene Expression Profiling
  • Gene Expression Regulation, Plant*
  • Genes, Duplicate
  • Genes, Plant
  • Genetic Variation
  • Genome, Plant*
  • Gossypium / enzymology*
  • Gossypium / genetics*
  • Molecular Sequence Annotation
  • Multigene Family
  • Oryza / genetics
  • Phylogeny
  • Protein Kinases / genetics*
  • Protein Kinases / metabolism
  • Seedlings / enzymology
  • Seedlings / genetics
  • Temperature

Substances

  • Protein Kinases
  • calcium-dependent protein kinase

Grants and funding

The works are support by the National Basic Research Program (973 program, No: 2010CB126006) and the National High Technology Research and Development Program of China (2011AA10A102, 2013AA102601). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.