%0 Journal Article
%T Identification of Synchronized Role of Transcription Factors, Genes, and Enzymes in Arabidopsis thaliana under Four Abiotic Stress Responsive Pathways
%A Samsad Razzaque
%A Rabab Mahdi
%A Aparna Islam
%J Computational Biology Journal
%D 2014
%I Hindawi Publishing Corporation
%R 10.1155/2014/896513
%X Microarray datasets are widely used resources to predict and characterize functional entities of the whole genomics. The study initiated here aims to identify overexpressed stress responsive genes using microarray datasets applying in silico approaches. The target also extended to build a protein-protein interaction model of regulatory genes with their upstream and downstream connection in Arabidopsis thaliana. Four microarray datasets generated treating abiotic stresses like salinity, cold, drought, and abscisic acid (ABA) were chosen. Retrieved datasets were firstly filtered based on their expression comparing to control. Filtered datasets were then used to create an expression hub. Extensive literature mining helped to identify the regulatory molecules from the expression hub. The study brought out 42 genes/TF/enzymes as the role player during abiotic stress response. Further bioinformatics study and also literature mining revealed that thirty genes from those forty-two were highly correlated in all four datasets and only eight from those thirty genes were determined as highly responsive to the above abiotic stresses. Later their protein-protein interaction (PPI), conserved sequences, protein domains, and GO biasness were studied. Some web based tools and software like String database, Gene Ontology, InterProScan, NCBI BLASTn suite, etc. helped to extend the study arena. 1. Introduction Plant stresses are the reasons for food insecurity and thus are a major threat to mankind [1]. Environmental stress is one of the biggest problems which has already been counted as a responsible phenomenon for reducing crop yields [2]. The effects of climate change like an increase in global temperatures may lead to drought, and increase in humidity is likely to increase plant susceptibility to pathogens. This has been recorded to be a major source of crop spoilage all over the world [3]. These factors are conspiring to greatly endanger food security, leading to social instability and increased poverty, particularly in developing countries. Clearly, this is not just a problem for the developing world but is a global problem affecting the entire population [4]. It is an utter necessity to understand the mechanisms by which plants adapt to environmental stresses to maintain world food supplies duly. Plants respond to environmental stresses at both cellular and molecular level by altering the expression of many genes via different types of complex molecular signaling networks [5]. The knowledge of these pathways including identification of the regulatory codes would
%U http://www.hindawi.com/journals/cbj/2014/896513/