MAPK cascade gene family in Camellia sinensis : In-silico identification, expression profiles and regulatory network ana
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RESEARCH ARTICLE
Open Access
MAPK cascade gene family in Camellia sinensis: In-silico identification, expression profiles and regulatory network analysis Archita Chatterjee1†, Abhirup Paul1†, G. Meher Unnati1†, Ruchika Rajput2, Trisha Biswas1, Tamalika Kar1, Srijita Basak1, Neelam Mishra3, Ashutosh Pandey2* and Anurag Prakash Srivastava1*
Abstract Background: Mitogen Activated Protein Kinase (MAPK) cascade is a fundamental pathway in organisms for signal transduction. Though it is well characterized in various plants, there is no systematic study of this cascade in tea. Result: In this study, 5 genes of Mitogen Activated Protein Kinase Kinase (MKK) and 16 genes of Mitogen Activated Protein Kinase (MPK) in Camellia sinensis were found through a genome-wide search taking Arabidopsis thaliana as the reference genome. Also, phylogenetic relationships along with structural analysis which includes gene structure, location as well as protein conserved motifs and domains, were systematically examined and further, predictions were validated by the results. The plant species taken for comparative study clearly displayed segmental duplication, which was a significant candidate for MAPK cascade expansion. Also, functional interaction was carried out in C. sinensis based on the orthologous genes in Arabidopsis. The expression profiles linked to various stress treatments revealed wide involvement of MAPK and MAPKK genes from Tea in response to various abiotic factors. In addition, the expression of these genes was analysed in various tissues. Conclusion: This study provides the targets for further comprehensive identification, functional study, and also contributed for a better understanding of the MAPK cascade regulatory network in C. sinensis. Keywords: Camellia sinensis, MAPK cascade, Expression profile, Functional interaction network, In-silico
Background Eukaryotic Mitogen Activated Protein Kinase (MAPK) cascades comprising of signalling enzymes, produce intracellular responses to environmental and developmental stimuli [1]. The increasing number of MAPK modules and their role in regulating complex cellular functions determine their significance in responsiveness * Correspondence: [email protected]; [email protected]; [email protected] † Archita Chatterjee, Abhirup Paul and G. Meher Unnati contributed equally to this work. 2 National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India 1 Department of Life Sciences, Garden City University, Bangalore, Karnataka, India Full list of author information is available at the end of the article
of cells and organisms to their environment [1]. These signalling cascades have evolved into three kinases that are sequentially activated [1]. The three-kinase module has Mitogen Activated Protein Kinase Kinase Kinase (MAPKKK), Mitogen Activated Protein Kinase Kinase (MAPKK) and Mitogen Activated Protein Kinase (MAPK), which are categorized into subfamilies based on similar sequences, upstream modulation mechanism and sensitivity to the t
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