title: Genome-wide gene phylogeny of CIPK family in cassava and expression analysis of partial drought-induced genes.
abstract: Cassava is an important food and potential biofuel crop that is tolerant to multiple abiotic stressors. The mechanisms underlying these tolerances are currently less known. CBL-interacting protein kinases (CIPKs) have been shown to play crucial roles in plant developmental processes, hormone signaling transduction, and in the response to abiotic stress. However, no data is currently available about the CPK family in cassava. In this study, a total of 25 CIPK genes were identified from cassava genome based on our previous genome sequencing data. Phylogenetic analysis suggested that 25 MeCIPKs could be classified into four subfamilies, which was supported by exon-intron organizations and the architectures of conserved protein motifs. Transcriptomic analysis of a wild subspecies and two cultivated varieties showed that most MeCIPKs had different expression patterns between wild subspecies and cultivatars in different tissues or in response to drought stress. Some orthologous genes involved in CIPK interaction networks were identified between Arabidopsis and cassava. The interaction networks and co-expression patterns of these orthologous genes revealed that the crucial pathways controlled by CIPK networks may be involved in the differential response to drought stress in different accessions of cassava. Nine MeCIPK genes were selected to investigate their transcriptional response to various stimuli and the results showed the comprehensive response of the tested MeCIPK genes to osmotic, salt, cold, oxidative stressors, and ABA signaling. The identification and expression analysis of CIPK family suggested that CIPK genes are important components of development and multiple signal transduction pathways in cassava. The findings of this study will help lay a foundation for the functional characterization of the CIPK gene family and provide an improved understanding of abiotic stress responses and signaling transduction in cassava.
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Wei
authors.initials: W
authors.lastname: Hu
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Zhiqiang
authors.initials: Z
authors.lastname: Xia
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Yan
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Zehong
authors.initials: Z
authors.lastname: Ding
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Weiwei
authors.initials: W
authors.lastname: Tie
authors.affiliation: College of Life Science and Engineering, Henan University of Urban Construction Pingdingshan, China.
authors.forename: Lianzhe
authors.initials: L
authors.lastname: Wang
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Meiling
authors.initials: M
authors.lastname: Zou
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Yunxie
authors.initials: Y
authors.lastname: Wei
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Cheng
authors.initials: C
authors.lastname: Lu
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Xiaowan
authors.initials: X
authors.lastname: Hou
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Wenquan
authors.initials: W
authors.lastname: Wang
authors.affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences Haikou, China.
authors.forename: Ming
authors.initials: M
authors.lastname: Peng
keywords: CBL-interacting protein kinases; abiotic stress; cassava; gene expression; genome-wide; identification