National Institute of Plant Genome Research, Aruna Asaf marg, New Delhi, India.
Water-deficit or dehydration is the most crucial environmental factor that adversely affects most crop species and reduces crop yield worldwide. Therefore, understanding the molecular mechanism of dehydration response and functional association network of nuclear proteome on plant growth and development is significant for crop improvement. The aim of the present study was to understand the protein circuitry in IR-64, a dehydration-sensitive rice cultivar, using functional association network. A detailed bioinformatic analysis was performed on the nucleus-specific dehydration-responsive protein (DRP) data set as generated by mass spectrometry. Each of the DRPs was searched against NCBI Conserved Domain Database (CDD) to obtain domain information. The redundant proteins were filtered out, and proteins with unique domain were considered for the construction of functional association network. We predicted the network by selecting corresponding functionally similar genes from Arabidopsis datasets, downloaded by GeneMANIA version 2.1 (http://www.genemania.org/ plugin/) plugin, visualised in Cytoscape. Network analysis revealed members from the input gene list with physical and predicted interactions. Several proteins were found to participate in dehydration-responsive pathway in the network, for instance, WRKY53 was found to interact with MEKK1 and 14-3-3 superfamily member, GRF1 (guanine nucleotide exchange factor 1) was found to be physically associated with GIF1 (GRF1 interacting factor 1). These proteins are known positive regulators of cell proliferators involved in plant growth and development and might play important role in dehydration adaptation. Read More …