In silico study: identification and characterization of heat shock protein 90 (HSP90) in Arabica coffee (Coffea arabica L.)
DOI:
https://doi.org/10.22302/iribb.jur.mp.v93i2.663Keywords:
bioinformatics, biotic and abiotic stress , C3 plant, heat stressAbstract
The use of low-quality planting material and extreme weather conditions caused by global warming are major factors contributing to low Arabica coffee productivity in Indonesia. The development of new cultivars and the improvement of Arabica coffee adaptability play crucial roles in preventing productivity decline. This study aims to identify and characterize HSP90 proteins in Arabica coffee through in silico analysis, focusing on their adaptability to biotic and abiotic stress conditions. This study was conducted using DNA and HSP90 protein sequences from Arabica coffee retrieved from various databases. The analysis included assessments of physicochemical properties, gene structure analysis, protein subcellular localization prediction, cis-acting element analysis, protein interaction analysis, and phylogenetic analysis. The results identified a total of twenty CaHSP90 genes distributed across 11 Arabica coffee chromosomes. Characterization revealed that the HSP90 protein family has diverse physicochemical properties, with varying sequence lengths and molecular weights. Most members are acidic, hydrophilic proteins localized in the cytoplasm. Analysis of the CaHSP90 gene expression based on cis-acting elements and phylogenetics showed that HSP90 in Arabica coffee is expressed in response to biotic and abiotic stresses as well as defense against pathogens. The results of this study provide a foundation for the development of new Arabica coffee cultivars with improved resistance to biotic and abiotic stresses, and support the selection of candidate CaHSP90 genes for breeding programs.
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