Immunoselection and characterization of a human genomic PPAR binding fragment located within POTE genes

• Published in: Biochimie 2007-03, Vol.89 (3), p.329-336
• Main Authors: Murad, Hossam, Collet, Philippe, Brunner, Emilie, Schohn, Hervé, Bécuwe, Philippe, Devignes, Marie-Dominique, Dauça, Michel, Domenjoud, Lionel
• Format: Article
• Language: English
• Subjects: Base Sequence; Binding Sites - genetics; Biochemistry, Molecular Biology; Bioinformatics; Blotting, Southern; Caco-2 Cells; Cell Line, Tumor; Computer Science; DNA - immunology; DNA - isolation & purification; DNA - metabolism; Electrophoretic Mobility Shift Assay; Gene Expression Regulation; Genome, Human; Genomics; HCT116 Cells; Humans; Immunoprecipitation; Life Sciences; Models, Genetic; Molecular Sequence Data; Oligonucleotide Array Sequence Analysis; Peroxisome proliferator-activated receptors; Peroxisome Proliferator-Activated Receptors - agonists; Peroxisome Proliferator-Activated Receptors - immunology; Peroxisome Proliferator-Activated Receptors - metabolism; POTE genes; PPAR target genes; PPARs; Protein Binding; Quantitative Methods; Response Elements - genetics; Reverse Transcriptase Polymerase Chain Reaction
• ISSN: 0300-9084; 1638-6183
• DOI: 10.1016/j.biochi.2006.09.017

Peroxisome proliferator-activated receptors (PPARs) are ligand-inducible transcription factors and belong to the nuclear hormone receptor superfamily. They form heterodimers with retinoid X receptor (RXR) and bind to specific PPAR-response elements. To identify novel PPAR target genes, we developed an affinity method to isolate human genomic fragments containing binding sites for PPARs. For this, an antibody raised against all PPAR subtypes was used. Immunoselected fragments were amplified and sequenced. One of them, ISF1029, was mapped by BLAT and BLAST searches on different human chromosomes, downstream of several POTE genes. ISF1029 contained three hexamers strongly related to the AGGTCA motif organized according to a DR0/3 motif. The latter was found to bind to PPARα in gel mobility shift and supershift assays and to exhibit a downregulation potentiality in transfection experiments under clofibrate treatment. POTE genes were shown to be highly expressed in human Caco-2 colorectal adenocarcinoma cells and downregulated by fenofibrate and 9- cis-retinoic acid, as attested by RT-PCR assays. Microarray analysis confirmed and extended to the human T98-G glioblastoma cells, the downregulation of several POTE genes expression by Wy-14,643, a potent PPARα activator. Our data provide new insights about the pleiotropic action of PPARs.