Literature DB >> 18998058

Genome-wide targeted prediction of ABA responsive genes in rice based on over-represented cis-motif in co-expressed genes.

Sangram K Lenka1, Bikash Lohia, Abhay Kumar, Viswanathan Chinnusamy, Kailash C Bansal.   

Abstract

Abscisic acid (ABA), the popular plant stress hormone, plays a key role in regulation of sub-set of stress responsive genes. These genes respond to ABA through specific transcription factors which bind to cis-regulatory elements present in their promoters. We discovered the ABA Responsive Element (ABRE) core (ACGT) containing CGMCACGTGB motif as over-represented motif among the promoters of ABA responsive co-expressed genes in rice. Targeted gene prediction strategy using this motif led to the identification of 402 protein coding genes potentially regulated by ABA-dependent molecular genetic network. RT-PCR analysis of arbitrarily chosen 45 genes from the predicted 402 genes confirmed 80% accuracy of our prediction. Plant Gene Ontology (GO) analysis of ABA responsive genes showed enrichment of signal transduction and stress related genes among diverse functional categories.

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Year:  2008        PMID： 18998058     DOI： 10.1007/s11103-008-9423-4

Source DB:  PubMed          Journal:  Plant Mol Biol        ISSN： 0167-4412            Impact factor:   4.076


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