Transcriptomics,Genomics

Dataset Information

17

The effect of onion exposure on gene expression profiles in intestinal Caco-2 cells


ABSTRACT: Background: Human intestinal tissue samples are barely accessible to study potential health benefits of nutritional compounds. Numbers of animals used in animal trials, however, need to be minimalized. Therefore, in this study we explored the applicability of an in vitro model, namely human intestinal Caco-2 cells, to study the effect of food compounds on (intestinal) health. In vitro digested yellow (YOd) and white onion extracts (WOd) were used as model food compounds and transcriptomics was applied to obtain more insight into their mode of actions in the intestinal cells. Methods: Caco-2 cells were incubated with in vitro digested onion extracts for 6 hours, total RNA was extracted and Affymterix Human Gene 1.1 ST arrays were used to analyze the gene expression profiles. To identify onion-induced gene expression profiles in Caco-2 cells, digested yellow onion and white onion samples were compared to a digest control samples. Results: We found that yellow onion (n=5586, p<0.05) had a more pronounced effect on gene expression than white onion (n=3688, p<0.05). However, a substantial number of genes (n=3281, p<0.05) were affected by both onion variants in the same direction. Pathway analyses revealed that mainly processes related to oxidative stress, and especially the Keap1-Nrf2 pathway, were affected by onions. Our data fit with previous in vivo studies showing that the beneficial effects of onions are mostly linked to their antioxidant properties. Conclusion: our data indicate that the in vitro Caco-2 intestinal model can be used to determine modes of action of nutritional compounds and can thereby reduce the number of animals used in conventional nutritional intervention studies. Overall design: Microarray analysis was performed on 21-days differentiated Caco-2 cells incubated with digested white onion (WOd), digested yellow onion (YOd) and saline digest (Sd = control) for 6 hours. This experiment was performed three times, so three independent biological replicates per treatment were included in the microarray analysis.

INSTRUMENT(S): [HuGene-1_1-st] Affymetrix Human Gene 1.1 ST Array [transcript (gene) version]

SUBMITTER: Nicole de Wit   

PROVIDER: GSE83893 | GEO | 2016-09-16

SECONDARY ACCESSION(S): PRJNA327311

REPOSITORIES: GEO

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Publications

Effects of Digested Onion Extracts on Intestinal Gene Expression: An Interspecies Comparison Using Different Intestine Models.

de Wit Nicole J W NJ   Hulst Marcel M   Govers Coen C   van der Meulen Jan J   van Hoef Angeline A   Stoopen Geert G   Hamers Astrid A   Hoekman Arjan A   de Vos Ric R   Bovee Toine F H TF   Smits Mari M   Mes Jurriaan J JJ   Hendriksen Peter J M PJ  

PloS one 20160915 9


Human intestinal tissue samples are barely accessible to study potential health benefits of nutritional compounds. Numbers of animals used in animal trials, however, need to be minimalized. Therefore, we explored the applicability of in vitro (human Caco-2 cells) and ex vivo intestine models (rat precision cut intestine slices and the pig in-situ small intestinal segment perfusion (SISP) technique) to study the effect of food compounds. In vitro digested yellow (YOd) and white onion extracts (WO  ...[more]

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