Developmental gene expression profiling of mammalian, fetal orofacial tissue

• Published in: Birth defects research. A Clinical and molecular teratology 2004-12, Vol.70 (12), p.912-926
• Main Authors: Mukhopadhyay, Partha, Greene, Robert M., Zacharias, Wolfgang, Weinrich, Martin C., Singh, Saurabh, Young Jr, William W., Pisano, M. Michele
• Format: Article
• Language: English
• Subjects: Animals; Biological and medical sciences; development; DNA Fingerprinting; Embryology: invertebrates and vertebrates. Teratology; Face - embryology; Female; fetal; Fetal Development - genetics; Fundamental and applied biological sciences. Psychology; Gene Expression Profiling - methods; Gene Expression Regulation, Developmental; Humans; Male; Mice; Mice, Inbred ICR; microarray; Models, Animal; Mouth - embryology; Oligonucleotide Array Sequence Analysis; orofacial; Polymerase Chain Reaction; Teratology. Teratogens
• ISSN: 1542-0752; 1542-0760
• DOI: 10.1002/bdra.20095

BACKGROUND The embryonic orofacial region is an excellent developmental paradigm that has revealed the centrality of numerous genes encoding proteins with diverse and important biological functions in embryonic growth and morphogenesis. DNA microarray technology presents an efficient means of acquiring novel and valuable information regarding the expression, regulation, and function of a panoply of genes involved in mammalian orofacial development. METHODS To identify differentially expressed genes during mammalian orofacial ontogenesis, the transcript profiles of GD‐12, GD‐13, and GD‐14 murine orofacial tissue were compared utilizing GeneChip arrays from Affymetrix. Changes in gene expression were verified by TaqMan quantitative real‐time PCR. Cluster analysis of the microarray data was done with the GeneCluster 2.0 Data Mining Tool and the GeneSpring software. RESULTS Expression of >50% of the ∼12,000 genes and expressed sequence tags examined in this study was detected in GD‐12, GD‐13, and GD‐14 murine orofacial tissues and the expression of several hundred genes was up‐ and downregulated in the developing orofacial tissue from GD‐12 to GD‐13, as well as from GD‐13 to GD‐14. Such differential gene expression represents changes in the expression of genes encoding growth factors and signaling molecules; transcription factors; and proteins involved in epithelial‐mesenchymal interactions, extracellular matrix synthesis, cell adhesion, proliferation, differentiation, and apoptosis. Following cluster analysis of the microarray data, eight distinct patterns of gene expression during murine orofacial ontogenesis were selected for graphic presentation of gene expression patterns. CONCLUSIONS This gene expression profiling study identifies a number of potentially unique developmental participants and serves as a valuable aid in deciphering the complex molecular mechanisms crucial for mammalian orofacial development. Supplementary material for this article can be found at http://www.mrw.interscience.wiley.com/suppmat/1542‐0752/suppmat/2004/70/v70.mukhopadhyay.html Birth Defects Research (Part A), 2004. © 2004 Wiley‐Liss, Inc.