Computational analysis and expression profiling of two-component system (TCS) gene family members in mango (Mangifera indica) indicated their roles in stress response
Muhammad Sadaqat A , Kinza Fatima A , Farrukh Azeem
A , Tayyaba Shaheen A , Mahmood-ur- Rahman A , Tehreem Ali A , Wafa Abdullah I. Al-Megrin B and Muhammad Tahir ul Qamar A *
A
B
Abstract
The two-component system (TCS) gene family is among the most important signal transduction families in plants and is involved in the regulation of various abiotic stresses, cell growth and division. To understand the role of TCS genes in mango (Mangifera indica), a comprehensive analysis of TCS gene family was carried out in mango leading to identification of 65 MiTCS genes. Phylogenetic analysis divided MiTCSs into three groups (histidine kinases, histidine-containing phosphotransfer proteins, and response regulators) and 11 subgroups. One tandem duplication and 23 pairs of segmental duplicates were found within the MiTCSs. Promoter analysis revealed that MiTCSs contain a large number of cis-elements associated with environmental stresses, hormone response, light signalling, and plant development. Gene ontology analysis showed their involvement in various biological processes and molecular functions, particularly signal transduction. Protein–protein interaction analysis showed that MiTCS proteins interacted with each other. The expression pattern in various tissues and under many stresses (drought, cold, and disease) showed that expression levels varied among various genes in different conditions. MiTCSs 3D structure predictions showed structural conservation among members of the same groups. This information can be further used to develop improved cultivars and will serve as a foundation for gaining more functional insights into the TCS gene family.
Keywords: abiotic stress, enrichment analysis, gene expression, histidine kinase, interaction analysis, mango, phylogenetics, two-component system.
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