title: In silico search for nitric oxide sensitive promoter elements in Arabidopsis thaliana.
abstract: A major challenge in biology is unravelling the mechanisms that regulate gene expression and an important task in this challenge is to identify binding sites for transcription factors in gene promoter regions. These binding sites are short DNA segments that are called motifs. Recent advances in genome sequence availability and in high-throughput gene expression analysis technologies have allowed for the development of computational methods for motif finding. The aim of our study was to identify NO-responsive elements in the promoter region of NO-regulated genes, based on microarray analyses. Using Genomatix Gene2Promotor and MatInspector, we identified eight families of TFBS occurred at least 15% more often in the promoter regions of the responsive genes in comparison to the promoter regions of 28447 Arabidopsis control genes. Most of these TFBSs, such as ocs element-like sequences and WRKY, were already reported to be involved in particular stresses response.
authors.affiliation: Institute for Biochemical Plant Pathology; Helmholtz Zentrum München; German Research Center for Environmental Health; Munich Germany.
authors.forename: Christian
authors.initials: C
authors.lastname: Lindermayr
authors.forename: Cristina M
authors.initials: CM
authors.lastname: Palmeri
authors.forename: Jörg
authors.initials: J
authors.lastname: Durner
references.citation: Plant Physiol. 2002 Mar;128(3):790-2
references.pmid: 11891235
references.citation: Proc Natl Acad Sci U S A. 1998 Aug 18;95(17):10328-33
references.pmid: 9707647
references.citation: Nucleic Acids Res. 1995 Dec 11;23(23):4878-84
references.pmid: 8532532
references.citation: Curr Opin Plant Biol. 2004 Aug;7(4):456-64
references.pmid: 15231270
references.citation: Cell. 1996 Sep 6;86(5):719-29
references.pmid: 8797819
references.citation: Nature. 1998 Aug 6;394(6693):585-8
references.pmid: 9707120
references.citation: Plant Physiol. 2004 Feb;134(2):849-57
references.pmid: 14739346