Genome-wide survey and expression analysis of the calcium-dependent protein kinase gene family in cassava.
Calcium-dependent protein kinases (CPKs) play important roles in regulating plant tolerance to abiotic stress and signal transduction; however, no data are currently available regarding the CPK family in cassava. Herein, we identified 27 CPK genes from cassava based on our previous genome sequencing data. Phylogenetic analysis showed that cassava CPKs could be clustered into three groups, which was further supported by gene structure and conserved protein motif analyses. Global expression analysis suggested that MeCPK genes showed distinct expression patterns in different tissues between wild subspecies and cultivated varieties, indicating their involvement in the functional diversity of different varieties. Transcriptomics, interaction networks, and co-expression assays revealed a broad transcriptional response of cassava CPKs and CPK-mediated networks to drought stress and their differential expression profiles in different varieties, implying their contribution to drought stress tolerance in cassava. Expression analysis of eight MeCPK genes suggested a comprehensive response to osmotic stress, salt, cold, abscisic acid, and H2O2, which indicated that cassava CPKs might be convergence points for different signaling pathways. This study provides a basis for crop improvements and understanding of abiotic stress responses and signal transduction mediated by CPKs in cassava.
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. huwei2010916@126.com.
Wei
W
Hu
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. 458754669@qq.com.
Xiaowan
X
Hou
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. xiazhiqiang@itbb.org.cn.
Zhiqiang
Z
Xia
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. yoyoyan7758@163.com.
Yan
Y
Yan
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. 984258575@qq.com.
Yunxie
Y
Wei
College of Life Science and Engineering, Henan University of Urban Construction, Pingdingshan, 467000, Henan, People's Republic of China. jijy99@126.com.
Lianzhe
L
Wang
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. zoumeiling@itbb.org.cn.
Meiling
M
Zou
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. lucheng@itbb.org.cn.
Cheng
C
Lu
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. wangwenquan@itbb.org.cn.
Wenquan
W
Wang
Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, 571101, Hainan, People's Republic of China. mmpeng_2000@yahoo.com.
Ming
M
Peng
D000040:Abscisic Acid / Q000235:genetics; D020816:Amino Acid Motifs / Q000235:genetics; D002874:Chromosome Mapping / Q000379:methods; D055864:Droughts; D020869:Gene Expression Profiling / Q000379:methods; D018506:Gene Expression Regulation, Plant / Q000235:genetics*; D018745:Genome, Plant / Q000235:genetics*; D055106:Genome-Wide Association Study / Q000379:methods; D002365:Manihot / Q000235:genetics*; D005810:Multigene Family / Q000235:genetics*; D009997:Osmotic Pressure / Q000502:physiology; D010802:Phylogeny; D010940:Plant Proteins / Q000235:genetics*; D011494:Protein Kinases / Q000235:genetics*; D015398:Signal Transduction / Q000235:genetics; D013312:Stress, Physiological / Q000235:genetics*; D017871:Calcium-Calmodulin-Dependent Protein Kinases
D000040:Abscisic Acid; D010940:Plant Proteins; D011494:Protein Kinases; D017871:Calcium-Calmodulin-Dependent Protein Kinases
Abiotic stress; CPK; Expression; Response; Signaling