 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Aug 08, 2022 |
| Title |
Differential gene expression in iPSC-derived human intestinal epithelial cell layers following exposure to two concentrations of the Short Chain Fatty Acids butyrate, propionate and acetate |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Intestinal epithelial cells and the intestinal microbiota are in a mutualistic relationship that is dependent on communication. This communication is multifaceted, but one aspect is communication through compounds produced by the microbiota such as the short-chain fatty acids (SCFAs) butyrate, propionate and acetate. Studying the effects of SCFAs and especially butyrate in intestinal epithelial cell lines like Caco-2 cells has been proven problematic. In contrast to the in vivo intestinal epithelium, Caco-2 cells do not use butyrate as an energy source, leading to a build-up of butyrate. Therefore, we used human induced pluripotent stem cell derived intestinal epithelial cells, grown as a cell layer, to study the effects of butyrate, propionate and acetate on whole genome gene expression in the cells. For this, cells were exposed to concentrations of 1 and 10 mM of the individual short-chain fatty acids for 24 hours. Unique gene expression profiles were observed for each of the SCFAs in a concentration-dependent manner. Evaluation on both an individual gene level and pathway level showed that butyrate induced the biggest effects followed by propionate and then acetate. Several known effects of SCFAs on intestinal cells were confirmed, such as effects on metabolism and immune responses. The changes in metabolic pathways in the intestinal epithelial cell layers in this study demonstrate that there is a switch in energy source from glucose to SCFAs, thus induced pluripotent stem cell derived intestinal epithelial cell are responding in a similar manner to SCFAs as in vivo intestinal tissues.
|
| |
|
| Overall design |
Induced pluripotent stem cell derived intestinal epithelial cells were exposed to butyric acid (NaB; 1 or 10mM), acetic acid (NaA 1 or 10 mM), propionic acid, (NaP 1 or 10 mM) or control treatment (water) for 24 hours, and subjected to gene expression profiling by RNA-sequencing.
|
| |
|
| Contributor(s) |
Grouls M, Janssen AF, Duivenvoorde LM, Hooiveld GJ, Bouwmeester H, van de Zande M |
| Citation(s) |
35977967 |
| Submission date |
Apr 06, 2022 |
| Last update date |
Aug 26, 2022 |
| Contact name |
Menno Grouls |
| E-mail(s) |
menno.grouls@outlook.com
|
| Organization name |
Wageningen University & Research
|
| Department |
Toxicology
|
| Street address |
Postbus 8000
|
| City |
Wageningen |
| ZIP/Postal code |
6700 EA |
| Country |
Netherlands |
| |
|
| Platforms (1) |
|
| Samples (21)
|
| GSM6030852 |
iPSC IEC, butyrate 1 mM treatment, replicate 1 |
| GSM6030853 |
iPSC IEC, butyrate 1 mM treatment, replicate 2 |
| GSM6030854 |
iPSC IEC, butyrate 1 mM treatment, replicate 3 |
| GSM6030855 |
iPSC IEC, butyrate 10 mM treatment, replicate 1 |
| GSM6030856 |
iPSC IEC, butyrate 10 mM treatment, replicate 2 |
| GSM6030857 |
iPSC IEC, butyrate 10 mM treatment, replicate 3 |
| GSM6030858 |
iPSC IEC, acetate 1 mM treatment, replicate 1 |
| GSM6030859 |
iPSC IEC, acetate 1 mM treatment, replicate 2 |
| GSM6030860 |
iPSC IEC, acetate 1 mM treatment, replicate 3 |
| GSM6030861 |
iPSC IEC, acetate 10 mM treatment, replicate 1 |
| GSM6030862 |
iPSC IEC, acetate 10 mM treatment, replicate 2 |
| GSM6030863 |
iPSC IEC, acetate 10 mM treatment, replicate 3 |
| GSM6030864 |
iPSC IEC, propionate 1 mM treatment, replicate 1 |
| GSM6030865 |
iPSC IEC, propionate 1 mM treatment, replicate 2 |
| GSM6030866 |
iPSC IEC, propionate 1 mM treatment, replicate 3 |
| GSM6030867 |
iPSC IEC, propionate 10 mM treatment, replicate 1 |
| GSM6030868 |
iPSC IEC, propionate 10 mM treatment, replicate 2 |
| GSM6030869 |
iPSC IEC, propionate 10 mM treatment, replicate 3 |
| GSM6030870 |
iPSC IEC, control treatment, replicate 1 |
| GSM6030871 |
iPSC IEC, control treatment, replicate 2 |
| GSM6030872 |
iPSC IEC, control treatment, replicate 3 |
|
| Relations |
| BioProject |
PRJNA824040 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE200309_TxImport.GeneLevel.counts.GEO.txt.gz |
1.5 Mb |
(ftp)(http) |
TXT |
| GSE200309_txi.counts.annotated.GEO.Rdata.gz |
14.2 Mb |
(ftp)(http) |
RDATA |
| GSE200309_txi.lengthScaledTPM.annotated.GEO.Rdata.gz |
16.6 Mb |
(ftp)(http) |
RDATA |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...