title: Gene expression profiling of drug metabolism and toxicology markers using a low-density DNA microarray.
abstract: DNA microarrays are useful tools to study changes of gene expression in response to a treatment with drugs. Here, we describe the optimization of conditions for the cDNA synthesis and hybridization protocols to be used for a low-density DNA microarray called 'Rat HepatoChips.' This DNA microarray with 59 carefully selected genes could be used to study changes in gene expression levels due to a treatment with xenobiotic. These 59 genes (including 8 housekeeping genes) have been selected among potential toxic markers involved in basic cellular processes and drug metabolism related genes. Using the optimized conditions, the results were shown to be reproducible, with 6% variation between the duplicated spots and 10% between arrays. Conditions were optimized to allow quantification with a dynamic range of four log units. In order to demonstrate the major advantage of these tool for studying gene expression, samples of control rat liver were compared with those of animals dosed with phenobarbital (PB) or pregnenolone-16 alpha-carbonitrile (PCN), two compounds well known to induce cytochrome P450 isoforms of 2B and 3A subfamilies, respectively. This microarray has shown that other genes apart from the corresponding CYP P450 genes have been changed due to PB and PCN treatment. Apoptosis-related genes have shown to be changed due to PB and PCN treatment, which confirms results from previous work.
authors.affiliation: Laboratory of Biochemistry and Cellular Biology, University of Namur, Rue de Bruxelles, Namur, Belgium. francoise.delongueville@fundp.ac.be
authors.forename: Françoise
authors.initials: F
authors.lastname: de Longueville
authors.forename: Dominic
authors.initials: D
authors.lastname: Surry
authors.forename: Georgina
authors.initials: G
authors.lastname: Meneses-Lorente
authors.forename: Vincent
authors.initials: V
authors.lastname: Bertholet
authors.forename: Valérie
authors.initials: V
authors.lastname: Talbot
authors.forename: Stephanie
authors.initials: S
authors.lastname: Evrard
authors.forename: Nathalie
authors.initials: N
authors.lastname: Chandelier
authors.forename: Andrew
authors.initials: A
authors.lastname: Pike
authors.forename: Phil
authors.initials: P
authors.lastname: Worboys
authors.forename: Jean Paul
authors.initials: JP
authors.lastname: Rasson
authors.forename: Béatrice
authors.initials: B
authors.lastname: Le Bourdellès
authors.forename: José
authors.initials: J
authors.lastname: Remacle
mesh_terms: D000818:Animals; D019921:Biotinylation; D005260:Female; D015870:Gene Expression / Q000187:drug effects*; D020869:Gene Expression Profiling; D008099:Liver / Q000187:drug effects / Q000502:physiology; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis; D010634:Phenobarbital / Q000378:metabolism / Q000494:pharmacology*; D011285:Pregnenolone Carbonitrile / Q000378:metabolism / Q000494:pharmacology*; D012333:RNA, Messenger / Q000187:drug effects / Q000378:metabolism; D051381:Rats; D017207:Rats, Sprague-Dawley; D014158:Transcription, Genetic / Q000187:drug effects
chemical_list: D012333:RNA, Messenger; D011285:Pregnenolone Carbonitrile; D010634:Phenobarbital