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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Gene expression data from liver of rat fed a high-fat diet and high-fructose water without/with Eucommia ulmoides leaves

ABSTRACT: To investigate effects of intake of Eucommia ulmoides leaves on hyperlipidemia, we performed gene expression profiling on rat liver by microarray analysis. Microarray analysis revealed that Eucommia ulmoides leaves up-regulated the gene expression involved in alpha-, beta-, and omega-oxidation of fatty acids, mainly relating to peroxisome proliferator-activated receptor signaling pathway. Rats were fed a high-fat diet and high-fructose water without/with orally administration of Eucommia ulmoides leaves for 5 weeks. Livers were taken for RNA extraction and hybridization on Agilent microarrays.

ORGANISM(S): Rattus norvegicus

SUBMITTER: Yukihiro Kobayashi

PROVIDER: E-GEOD-24377 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Facilitative effects of Eucommia ulmoides on fatty acid oxidation in hypertriglyceridaemic rats.

Kobayashi Yukihiro Y Hiroi Tetsuya T Araki Mayumi M Hirokawa Takahiko T Miyazawa Maki M Aoki Nobuyoshi N Kojima Takashi T Ohsawa Toshiyuki T

Journal of the science of food and agriculture 20110804 2

<h4>Background</h4>Tea made from Eucommia ulmoides leaves is widely consumed as a health food, since recent studies have revealed various pharmacological effects of the tea, e.g. a hypotriglyceridaemic effect. This study was conducted to elucidate the mechanisms underlying the plasma triglyceride-lowering effect of E. ulmoides leaves.<h4>Results</h4>Rats were divided into four groups: a normal group, a group fed a high-fat/high-fructose diet (untreated group) and two groups fed a high-fat/high-f ...[more]

PMID: 21815167

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Gene expression data from liver of rat fed a high-fat diet and high-fructose water without/with Eucommia ulmoides leaves

Project description:To investigate effects of intake of Eucommia ulmoides leaves on hyperlipidemia, we performed gene expression profiling on rat liver by microarray analysis. Microarray analysis revealed that Eucommia ulmoides leaves up-regulated the gene expression involved in alpha-, beta-, and omega-oxidation of fatty acids, mainly relating to peroxisome proliferator-activated receptor signaling pathway.

2011-08-22 | GSE24377 | GEO

High Fructose-Driven Epigenetic and Metabolic Reprogramming in Glomerular Podocyte

Project description:High fructose diet has been proposed as a major contributor to metabolic syndrome, which is usually accompanied with proteinuria due to glomerular podocyte injury. However, the underlying pathological mechanisms of fructose-induced podocyte injury remain elusive. In this study, we have used an iTRAQ based quantitative proteomic strategy to comprehensively characterize the dynamic proteome changes in glomeruli of high fructose-fed rats, and revealed global fructose-induced glomerular metabolic reprogramming at four different stages during the progression of high fructose modeling.

2022-05-19 | PXD017849 | Pride

Gene expression data from liver of rat fed a high-fat diet without/with mulberry leaves

Project description:To investigate effects of intake of mulberry leaves on hyperlipidemia, we performed gene expression profiling on rat liver by microarray analysis. Microarray analysis revealed that mulberry leaves up-regulated the genes involved in alpha-, beta-, and omega-oxidation of fatty acids, mainly relating to peroxisome proliferator-activated receptor signaling pathway, and down-regulated the gene expression involved in lipogenesis. Furthermore, the genes relating to response to oxidative stress were up-regulated in rats administrated mulberry leaves.

2011-01-01 | GSE21075 | GEO

Comparative proteomics analysis of growth-primed adult dorsal root ganglia reveals key molecular mediators for peripheral nerve regeneration

Project description:Peripheral nerve injuries due to physical insults or chronic diseases are quite common, yet no pharmacological therapies are available for the effective repair of injured nerves. The slow growth rate of adult nerves and insufficient access to growth factors pose major hurdles in timely reinnervating target tissues and restoring functions after nerve injuries. A better understanding of the molecular changes that occur during the immediate regenerative reprogramming of neurons, stated here as in vivo priming, following nerve injury may reveal ideal candidates for future therapies. Hence, molecular profiling of neuronal soma within the first week of nerve injury has been the gold standard for revealing molecular candidates critical for nerve regeneration. A complementary in vitro regenerative priming approach was recently shown to induce enhanced outgrowth in adult sensory neurons. In this work, we exploited the in vitro priming model to reveal novel candidates for adult nerve regeneration. We performed the whole tissue proteomics analysis of in vitro primed DRGs and compared their molecular profile with that of the in vivo primed, and control DRGs. Through this approach, we identified several commonly and uniquely altered molecules in the in vitro and in vivo primed DRGs that have the potential to modulate adult nerve regrowth. We further validated the growth inducing potential of mesencephalic astrocyte-derived neurotrophic factor (MANF), one of the hits identified in our proteomics analysis, in primary adult sensory neurons. Overall, this study showed that in vitro priming partially reproduces the molecular features in in vivo primed adult sensory neurons. The shortlisted candidates presented here from the two priming approaches may serve as potential therapeutic targets for adult nerve regeneration.

2023-01-06 | PXD031927 | Pride

Gene expression profiles of livers from mice fed high-fat diet and high fructose-glucose solution for 8 weeks

Project description:The lack of a preclinical model of nonalcoholic steatohepatitis (NASH) and hepatocellular cancer (HCC) that recapitulates human disease is a major barrier to therapeutic development. We report a high fat-high sugar diet-induced NASH and HCC in a stable isogenic 129S1/SvImJ crossed with C57Bl/6J mice. Following diet initiation, there was sequential development of steatosis (4-8 weeks), steatohepatitis with ballooning and Mallory-Denk bodies (12-16 weeks), progressive fibrosis (16 week onwards) and spontaneous HCC (32-52 weeks). The mice developed obesity, insulin resistance and dyslipidemia. There was concordance with the human NASH transcriptome (FDR 0.001) with activation of lipogenic, inflammatory and apoptotic pathways relevant in humans. The HCC gene signature resembled S1 and S2 human HCC subclass (FDR 0.01 for both). This simple model of NASH and HCC that resembles human disease in terms of its triggers, physiological and biochemical parameters, histology, transcriptomic profile, and outcomes can facilitate preclinical development for these conditions. 129S1/SvImJ;C57Bl/6J (129/B6) mice were fed with high-fat diet (Western Diet) and high fructose-glucose solution (Sugar Water) (WD SW) or chow diet (CD) for 8 weeks, and total RNA samples were isolated from liver tissues for genome-wide expression profiling.

2016-07-25 | E-GEOD-67678 | biostudies-arrayexpress

Gene expression profiles of livers and liver tumors from mice fed high-fat diet and high fructose-glucose solution for 52 weeks

Project description:The lack of a preclinical model of nonalcoholic steatohepatitis (NASH) and hepatocellular cancer (HCC) that recapitulates human disease is a major barrier to therapeutic development. We report a high fat-high sugar diet-induced NASH and HCC in a stable isogenic 129S1/SvImJ crossed with C57Bl/6J mice. Following diet initiation, there was sequential development of steatosis (4-8 weeks), steatohepatitis with ballooning and Mallory-Denk bodies (12-16 weeks), progressive fibrosis (16 week onwards) and spontaneous HCC (32-52 weeks). The mice developed obesity, insulin resistance and dyslipidemia. There was concordance with the human NASH transcriptome (FDR 0.001) with activation of lipogenic, inflammatory and apoptotic pathways relevant in humans. The HCC gene signature resembled S1 and S2 human HCC subclass (FDR 0.01 for both). This simple model of NASH and HCC that resembles human disease in terms of its triggers, physiological and biochemical parameters, histology, transcriptomic profile, and outcomes can facilitate preclinical development for these conditions. 129S1/SvImJ;C57Bl/6J (129/B6) mice were fed with high-fat diet (Western Diet) and high fructose-glucose solution (Sugar Water) (WD SW) or chow diet (CD) for 52 weeks, and total RNA samples were isolated from liver and tumor tissues for genome-wide expression profiling.

2016-07-25 | E-GEOD-67679 | biostudies-arrayexpress

Aspergillus nidulans : Wild type Fructose x Xylose

Project description:Transcriptional profiling of A. nidulans comparing Xylose and Fructose grown on Wild type strain. The main objective was to identifiy genes related to Xylose transport. The experiment was further validated by real-time PCR. Three-condition experiment : A. nidulans strains grown during 16 h on fructose and transfered to xylose for 6, 12 and 24h.

2013-08-31 | E-GEOD-50485 | biostudies-arrayexpress

Modulation of rat serum microRNA expression by omega-3 and omega-6 PUFA diet

Project description:To better understand the mechanisms of miRNAs in PUFA-modulated cellular pathways, we compared physical signs and immune statuses of PUFA-treated rats. The results indicated that omega-3 PUFAs decreased production of pro-inflammatory cytokines such as interleukin-6, C-reactive protein, and tumor necrosis factor-a, at the same time, increased proportion of CD8+ suppressor T cells and regulatory T cells in rats. The changes of these biological parameters showed that the PUFA diet-induced autoimmune (AI)-prone and AI-averse rat models were successfully established. As following steps, differentially expressed miRNAs were filtered in peripheral serum by microarray assay and validated in PBMC, liver, visceral fat, and pituitary gland by stem-loop real-time quantitative-PCR (RT-qPCR). Biological databases and computational algorithms were used to classify the potential target genes of these PUFA-induced differentially expressed miRNAs.

2013-04-22 | E-MTAB-1615 | biostudies-arrayexpress

Aspergillus niger : Control (fructose) vs. xylose + arabinose (XA)

Project description:Transcriptional profiling of A. niger comparing different strains (WT, M-NM-^TXlnR, M-NM-^TaraR and M-NM-^TaraRM-NM-^TXlnR) treated with 25mM xylose + 25mM arabinose for 2 and 8h. The main objective was to identifiy genes related to primary metabolism and carbohydrate metabolism in general, for instance, cellulases and hemicellulases. The study will compare the differences between WT strain and the strains with the disrupted xylanolytic transcriptional activator gene, XlnR, the arabinolytic transcriptional activator gene, AraR, and the double mutant,after treatment with xylose+arabinose (XA treatment). The experiment was further validated by real-time PCR and enzymatic assays. Two-condition experiment : A. niger mutant strains on XA for 2 and 8 h at 30 oC in batch culture. Firstly, the strains were pre-grown in minimal medium with fructose as carbon source (control), and then transferred to xylose+arabinose (25 mM each) as carbon source.

2012-05-06 | E-GEOD-37760 | biostudies-arrayexpress

Gene expression profiles in liver of Sprague-Dawley rat using two types of anesthesia.

Project description:To reveal influence of anesthesia in toxicogenomics study, gene expression analysis of liver of Sprague-Dawley rat after isoflurane anesthesia or CO2/O2 anesthesia was performed. The liver samples were excised from each rat after isoflurane anesthesia or CO2/O2 anesthesia. The gene expression profiles in liver were measureed by Agilent microarray. In animal study, corn oil was administrated for three days in Sprague-Dawley rats of 9-week-old. Rats were killed after isoflurane anesthesia (n=3) or CO2/O2 anesthesia (n=3). Microarray analysis was performed one replicate per array.

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