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| Status |
Public on Dec 01, 2012 |
| Title |
Gene Expression in Rats Fed a Western Diet |
| Organism |
Rattus norvegicus |
| Experiment type |
Expression profiling by array
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| Summary |
Resistant starches (RS), fed as high amylose maize starch (HAMS) or butyrylated HAMS (HAMSB), oppose dietary protein-induced colonocyte DNA damage in rats. In this study, rats were fed diets high in fat (19%) and protein (20%) with different forms of digestible starch (low amylose maize starch (LAMS) or low amylose whole wheat (LAW)) or RS (HAMS, HAMSB, or a whole high amylose wheat (HAW) generated by RNA interference (RNAi)) for 11 wk. A control diet contained 7% fat, 13% protein and LAMS. The aim of this study was to detect changes in the expression of DNA damage and repair genes in response to the above dietary treatments.
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| Overall design |
Distal colon tissues from Sprague Dawley rats fed a variety of diets (see summary) were removed from RNAlater stabilisation reagent (Sigma, Australia) they had been stored in,, placed in 1 ml of TRIzol® Reagent (Invitrogen, Australia) and homogenised usingbeads (mix of 2.5 mm glass and 0.1 - 1.0 mm diameter silicon-zirconian beads) in a MiniBeadbeater-8 (BioSpec Products Inc., USA). Total RNA was extracted (using TRIzol® Reagent manufacturer's instructions) and further purified using RNAeasy mini spin columns (QIAGEN, Australia) with a DNase on-column digestion as per manufacturer's instructions.RNA integrity was checked using a Bioanalyzer 2100 (Agilent Technologies, USA) andquantified using a NanoDrop® ND-1000 Spectrophotometer (Thermo Fisher Scientific, USA). RNA samples with insufficinet quality and quantity were not assayed.
The numbers of rats arrayed from each diet were as follows: CON, 5;LAMS, 7; HAMS, 8; HAMSB, 9; LAW, 6; HAW , 8. This gives a total of 43 arrays.
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| Contributor(s) |
Conlon MA, Kerr CA, McSweeney CS, Dunne RA, Shaw JM, Kang S, Bird AR, Morell MK, Lockett TJ, Molloy PL, Regina A, Toden S, Clarke JM, Topping DL |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Sep 22, 2011 |
| Last update date |
Nov 06, 2013 |
| Contact name |
Robert Dunne |
| Organization name |
CSIRO
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| Street address |
Locked Bag 17
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| City |
North Ryde |
| State/province |
New South Wales |
| ZIP/Postal code |
1760 |
| Country |
Australia |
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| Platforms (1) |
| GPL6247 |
[RaGene-1_0-st] Affymetrix Rat Gene 1.0 ST Array [transcript (gene) version] |
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| Samples (43)
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| Relations |
| BioProject |
PRJNA147299 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE32312_RAW.tar |
165.5 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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