Comment[ArrayExpressAccession]	E-GEOD-41734
MAGE-TAB Version	1.1								
Public Release Date	2013-04-24
Investigation Title	Effect of Lactobacillus brevis 119-2 isolated from turnip M-bM-^@M-^\Tsuda kabuM-bM-^@M-^] on hepatic cholesterol level in cholesterol-administrated rat								
Comment[Submitted Name]	Effect of Lactobacillus brevis 119-2 isolated from turnip M-bM-^@M-^\Tsuda kabuM-bM-^@M-^] on hepatic cholesterol level in cholesterol-administrated rat
Experiment Description	In previous in vitro study, we reported potential mechanism of cholesterol-lowering effect of Lactobacillus brevis119-2 (119-2) isolated from turnip M-bM-^@M-^\Tsuda kabuM-bM-^@M-^] is due to incorporation of cholesterol into 119-2 cell. In this study, we analyzed serum cholesterol and hepatic gene expression of Sprague-Dawley (SD) rat fed diet containing cholesterol with or without 119-2 for 2 weeks, to evaluate the cholesterol-lowering effect of 119-2 in vivo. Serum cholesterol of SD rat fed diet with 119-2 significantly decreased compared to SD rat fed diet without 119-2, and both viable and dead 119-2 indicated the effect. The result of hepatic gene analysis using DNA microarray suggested that potential mechanism of the cholesterol-lowering effect of 119-2 in vivo is inhibiting the activity of 3-hydroxy-3-methylglutaryl-CoA reductase by Insig (insulin induced gene) that is endoplasmic reticulum membrane protein, and catabolizing cholesterol to bile acid by Cyp7a1 (cytochrome P450 a1) that is the rate-limiting enzyme in the synthesis of bile acid from cholesterol. In addition, we concluded feeding 119-2 decreased serum low density lipoprotein (LDL) cholesterol by overexpression of Ldlr (LDL receptor gene). On the other hand, feeding Lactobacillus acidophilus ATCC43121 (ATCC) increased high density lipoprotein (HDL) cholesterol by over expression of Abca1 (ATP binding cassette sub-family A member 1 gene) and Angplt3 (Angiopoietin-like 3). These results suggested that 119-2 decrease the risk of atherosclerosis by serum cholesterol-lowering effect and improving effect of fatty liver and the LH (LDL cholesterol / HDL cholesterol) ratio. Lactobacillus brevis119-2 (119-2) was isolated from turnip M-bM-^@M-^\Tsuda kabuM-bM-^@M-^] harvested in Matsue city, Shimane Prefecture, Japan, and was stored at Shimane Institute for industrial Technology. Male Jcl: SD rat (4 weeks of age) were obtained from CLEA Japan, Inc. (Tokyo, Japan). Rats were maintained under controlled environmental conditions (temperature 23 M-BM-1 3 M-KM-^ZC, relative humidity 55% M-BM-1 25%, 12/12hr light - dark cycle) and given food and water ad libitum. All rats were acclimated 1 week prior to the experiment. Two groups of 11 rats each were treated respective group diets for 2weeks. Control group was fed high-cholesterol diet containing 10 g cholesterol/kg, 5 g cholic acid/kg, 985 g mouse & rat & rabbit diet (CRF-1) /kg obtained from Oriental yeast Co., Ltd (Tokyo, Japan). The other group was fed same highcholesterol diet with 10 g freeze-dried viable 119-2 /kg. This study and all procedures were approved by regulations and code of ethics in experimental animals Chitose Japan Food Research Laboratories.								
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl							
Person Last Name	Nakai	Watanabe	Katsube	Hattori	Sato	Ishijima	Nakai	Abe	Sonomoto
Person First Name	Yuji	Shinobu	Takuya	Hideki	Hiromasa	Tomoko	Yuji	Keiko	Kenji
Person Email	geo@ncbi.nlm.nih.gov								
Person Affiliation	The University of Tokyo								
Person Address	The University of Tokyo, 1-1-1, Yayoi, Bunkyo-ku, Tokyo, Japan								
Person Roles	submitter								
Protocol Name	P-GSE41734-1	P-GSE41734-3	P-GSE41734-4	P-GSE41734-2	P-GSE41734-5				
Protocol Description	CEL files were quantified with the Factor Analysis for Robust Microarray Summarization (FARMS) method, using the statistical language R and Bioconductor. ID_REF =  VALUE = FARMS summarized signal	biotinylated aRNA was obtained from 100 ng of purified total RNA using a GeneChip 3M-bM-^@M-^Y IVT Express Kit (Affymetrix, Santa Clara, CA, USA).	Following fragmentation, 12.5 M-5g cRNA were hybridized for 16 hr at 45M-0C on Affymetrix GeneChip Rat Genome 230 2.0 Array. GeneChips were washed and stained in the Affymetrix GeneChip Fluidics Station 450.	Total RNA was isolatedusing Trizol reagent (Invitrogen Life Technologies Corp.), then purified with an RNeasy mini kit (Qiagen K.K., Tokyo, Japan).	GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.				
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	nucleic acid extraction protocol	array scanning protocol				
Publication Title	Effect of Lactobacillus brevis 119-2 isolated from Tsuda kabu red turnips on cholesterol levels in cholesterol-administered rats.								
Publication Author List	Watanabe S, Katsube T, Hattori H, Sato H, Ishijima T, Nakai Y, Abe K, Sonomoto K								
PubMed ID	23415664								
Publication DOI	10.1016/j.jbiosc.2013.01.009								
Comment[SecondaryAccession]	GSE41734								
Comment[GEOReleaseDate]	2013-04-24								
Comment[ArrayExpressSubmissionDate]	2012-10-22								
Comment[GEOLastUpdateDate]	2013-04-25								
Comment[AEExperimentType]	transcription profiling by array								
SDRF File	E-GEOD-41734.sdrf.txt