caa a22 4500 467895317 CHVBK 20180406152801.0 cr unu---uuuuu 170328e20060901xx s 000 0 eng 10.1007/s11103-006-9017-y doi (NATIONALLICENCE)springer-10.1007/s11103-006-9017-y Computational Prediction and Experimental Verification of HVA1 -like Abscisic Acid Responsive Promoters in Rice ( Oryza sativa ) [Elektronische Daten] [Christian Ross, Qingxi Shen] Abscisic acid (ABA) is one of the central plant hormones, responsible for controlling both maturation and germination in seeds, as well as mediating adaptive responses to desiccation, injury, and pathogen infection in vegetative tissues. Thorough analyses of two barley genes, HVA1 and HVA22, indicate that their response to ABA relies on the interaction of two cis-acting elements in their promoters, an ABA response element (ABRE) and a coupling element (CE). Together, they form an ABA response promoter complex (ABRC). Comparison of promoters of barley HVA1 and it rice orthologue indicates that the structures and sequences of their ABRCs are highly similar. Prediction of ABA responsive genes in the rice genome is then tractable to a bioinformatics approach based on the structures of the well-defined barley ABRCs. Here we describe a model developed based on the consensus, inter-element spacing and orientations of experimentally determined ABREs and CEs. Our search of the rice promoter database for promoters that fit the model has generated a partial list of genes in rice that have a high likelihood of being involved in the ABA signaling network. The ABA inducibility of some of the rice genes identified was validated with quantitative reverse transcription PCR (QPCR). By limiting our input data to known enhancer modules and experimentally derived rules, we have generated a high confidence subset of ABA-regulated genes. The results suggest that the pathways by which cereals respond to biotic and abiotic stresses overlap significantly, and that regulation is not confined to the level transcription. The large fraction of putative regulatory genes carrying HVA1-like enhancer modules in their promoters suggests the ABA signal enters at multiple points into a complex regulatory network that remains largely unmapped. Springer Science+Business Media B.V., 2006 Bioinformatics nationallicence Abscisic acid nationallicence Computational modeling nationallicence Rice nationallicence Oryza sativa nationallicence Genome nationallicence Ross Christian Bioinformatics Core, Department of Biological Sciences, University of Nevada, 89154, Las Vegas, NV, USA aut Shen Qingxi Bioinformatics Core, Department of Biological Sciences, University of Nevada, 89154, Las Vegas, NV, USA aut Plant Molecular Biology Kluwer Academic Publishers 62/1-2(2006-09-01), 233-246 0167-4412 62:1-2<233 2006 62 11103 https://doi.org/10.1007/s11103-006-9017-y text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11103-006-9017-y text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Ross Christian Bioinformatics Core, Department of Biological Sciences, University of Nevada, 89154, Las Vegas, NV, USA aut NATIONALLICENCE 700 1- Shen Qingxi Bioinformatics Core, Department of Biological Sciences, University of Nevada, 89154, Las Vegas, NV, USA aut NATIONALLICENCE 773 0- Plant Molecular Biology Kluwer Academic Publishers 62/1-2(2006-09-01), 233-246 0167-4412 62:1-2<233 2006 62 11103 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer