Abstract
Elucidating the key players of molecular mechanism that mediate the complex stress-responses in plants system is an important step to develop improved variety of stress tolerant crops. Understanding the effects of different types of biotic and abiotic stress is a rapidly emerging domain in the area of plant research to develop better, stress tolerant plants. Information about the transcription factors, transcription factor binding sites, function annotation of proteins coded by genes expressed during abiotic stress (for example: drought, cold, salinity, excess light, abscisic acid, and oxidative stress) response will provide better understanding of this phenomenon. STIFDB is a database of abiotic stress responsive genes and their predicted abiotic transcription factor binding sites in Arabidopsis thaliana. We integrated 2269 genes upregulated in different stress related microarray experiments and surveyed their 1000 bp and 100 bp upstream regions and 5′UTR regions using the STIF algorithm and identified putative abiotic stress responsive transcription factor binding sites, which are compiled in the STIFDB database. STIFDB provides extensive information about various stress responsive genes and stress inducible transcription factors of Arabidopsis thaliana. STIFDB will be a useful resource for researchers to understand the abiotic stress regulome and transcriptome of this important model plant system.
Highlights
The challenge of maintaining a balance between a swelling population and the capacity to produce food is increasing day by day
We describe the availability of a database designed around stress genes involved in abiotic stress regulation in Arabidopsis thaliana
STIFDB is a database of abiotic stress responsive genes, identified as responsive to various abiotic stress signals based on publicly available, genome wide stress microarray data
Summary
The challenge of maintaining a balance between a swelling population and the capacity to produce food is increasing day by day. Environmental stresses like drought, salinity, high and low temperatures, high light, and so forth, along with biotic agents like pests and diseases, reduce agricultural yields significantly and affect food security. Developing crops that tolerate environmental stresses, while maintaining productivity, will become a critical requirement for enhancing agriculture in the twenty first century [1]. Understanding the molecular mechanisms that underlie stress tolerance would be the first step in the generation of abiotic stress tolerant crops. To understand plant stress responses, unravelling the mechanisms of regulation of stress responsive genes assumes paramount importance. Gene regulation by Transcription Factors (TFs) is an important facet of stress responsive signal transduction cascades. Transcriptional regulation of genes in response to abiotic stresses like drought, cold, salinity, high light, abscisic acid (ABA), oxidative stress, and so forth, is an emerging area of plant research.
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