Clustering Enrichment Analysis

Influence of Fatty Acid Diets on Gene Expression in Rat Mammary Epithelial Cells

 

Medvedovic M2, Gear R1, Freudenberg JM2, Schneider J1, Bornschein R2, Yan M3, Mistry MJ1, Hendrix H1, Karyala S2, Halbleib D2, Heffelfinger S4, Clegg DJ5, Anderson MW1

1Department of Cancer and Cell Biology, University of Cincinnati, Cincinnati, OH
2Department of Environmental Health, University of Cincinnati, Cincinnati, OH
3
Department of Internal Medicine, University of Michigan, Ann Harbor, MI
4Department of Pathology, University of Cincinnati, Cincinnati, OH
5
University of Texas Southwestern, Department of Internal Medicine, Dallas, TX

Abstract

Background: This study examines the impact of dietary fatty acids on regulation of gene expression in the mammary epithelial cells before and during puberty. 

Methods: The diets primarily consisted of n-9 monounsaturated fatty acids (olive oil), n-6 polyunsaturated fatty acids (safflower), saturated acids (butter), and the reference AIN-93G diet (soy oil).  The dietary regimen mimics the repetitive nature of fatty acid exposure in Western diets. Dietary-induced changes in gene expression were examined in the LCM (Laser Capture Microdissected) captured mammary ductal epithelial cells at day of weaning (21 days) and at the end of puberty (50 days after birth). PCNA immunohistochemistry analysis was used to compare proliferation rates between diets.

Results: Genes differentially expressed between each of the test diets and the reference diet in both age groups were significantly enriched by cell cycle genes.  Some of these genes were involved in the activation of the cell cycle pathway or the G2/M check point pathway. Although there were some differences in the level of differential expression, all diets showed qualitatively same pattern of differential expression compared to the reference diet. Cluster analysis identified an expanded set of cell cycle as well as immunity and sterol metabolism related clusters of differentially expressed genes.

 Conclusion: Fatty acid-enriched diets significantly up-regulated proliferation above the normal physiological level at day 50.  The higher cellular proliferation during puberty caused by enriched fatty acid diets pose a potential increase risk of mammary cancer in later life.  The human homologs of 27 of 62 cell cycle cluster of rat genes are included in a human breast cancer cluster of 45 cell cycle related genes further emphasizing the importance of our findings in the rat model.

Browse the functionally annotated clustering results using FTreeView

Query and analyze microarray data in Genomic Portals

View supplemental information

Download MIAMI-compliant microarray data