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Microarrays analysis of SREBP-1a and SREBP-1c target genes identify new regulatory pathways.

ABSTRACT: In this study we have identified the target genes of SREBP1a and SREBP1c in primary cultures of human skeletal muscle cells using adenoviral vectors expressing the mature nuclear form of human SREBP1a or SREBP1c combined with oligonucleotide microarrays. Keywords: comparison of human myotubes infected either by SREBP1a or 1C

ORGANISM(S): Homo sapiens

PROVIDER: GSE10918 | GEO | 2008/06/19

SECONDARY ACCESSION(S): PRJNA107219

REPOSITORIES: GEO

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Microarrays analysis of SREBP-1a and SREBP-1c target genes identify new regulatory pathways.

Project description:In this study we have identified the target genes of SREBP1a and SREBP1c in primary cultures of human skeletal muscle cells using adenoviral vectors expressing the mature nuclear form of human SREBP1a or SREBP1c combined with oligonucleotide microarrays. Keywords: comparison of human myotubes infected either by SREBP1a or 1C Human myotubes were prepared from 3 different skeletal muscle biopsies. After 7 days of differentiation, myotubes were infected for 48 hours with recombinant adenovirus expressing either Renilla, nuclear SREBP1a or nuclear SREBP1c. Each SREBP1a or SREBP1c infected myotubes culture was compared to Renilla infected myotubes culture. Renilla infected myotubes were considered as the control. Three biological replicates were processed.

2010-05-26 | E-GEOD-10918 | biostudies-arrayexpress

FTO: gene expression and function in skeletal muscle

Project description:We identified the target genes of FTO ("fat mass and obesity associated") in primary cultures of human skeletal muscle cells using adenoviral vectors expressing FTO or GFP and oligonucleotide microarrays. Human myotubes were prepared from 4 different skeletal muscle biopsies. After differentiation, myotubes were infected for 48 hours with recombinant adenovirus expressing either GFP or FTO. Each FTO-infected myotubes culture was compared to GFP-infected myotubes culture. GFP-infected myotubes were regarded as the control. Four biological replicates were processed.

2011-07-05 | E-GEOD-22857 | biostudies-arrayexpress

Microarray analysis of BHLHB2 and BHLHB3 target genes in human skeletal muscle cells

Project description:In this study we have identified the target genes of BHLHB2 and BHLHB3 in primary cultures of human skeletal muscle cells using adenoviral vectors expressing either BHLHB2 or BHLHB3, and oligonucleotide microarrays. Human myotubes were prepared from 4 different skeletal muscle biopsies. After 7 days of differentiation, myotubes were infected for 48 hours with recombinant adenovirus expressing either GFP, BHLHB2 or BHLHB3. Each BHLHB2- or BHLHB3-infected myotubes culture was compared to GFP-infected myotubes culture. GFP-infected myotubes were considered the control. Four biological replicates were processed.

2010-04-11 | E-GEOD-12947 | biostudies-arrayexpress

?-Linolenic acid suppresses cholesterol and triacylglycerol biosynthesis pathway by suppressing SREBP-2, SREBP-1a and -1c expression.

Project description:?-Linolenic acid (ALA), a major fatty acid in flaxseed oil, has multiple functionalities such as anti-cardiovascular and anti-hypertensive activities. In this study, we investigated the effects of ALA on lipid metabolism and studied the possible mechanisms of its action in differentiated 3T3-L1 adipocytes using DNA microarray analysis. From a total of 34,325 genes in the DNA chip, 87 genes were down-regulated and 185 genes were up-regulated at least twofold in differentiated 3T3-L1 adipocyte cells treated with 300 ?M ALA for a week, 5-12 days after induction of cell differentiation, compared to ALA-untreated 3T3-L1 adipocytes (control). From the Reactome analysis results, eight lipid metabolism-related genes involved in cholesterol and triacylglycerol biosynthesis pathway and lipid transport were significantly down-regulated by ALA treatment. Furthermore, ALA significantly decreased the mRNA expressions of sterol regulatory element binding protein (SREBP)-2, SREBP-1a, SREBP-1c and fatty acid synthase (FAS) in 3T3-L1 adipocyte cells. On the other hand, the average levels of the gene expressions of carnitine palmitoyltransferase 1a (CPT-1a) and leptin in 300 ?M ALA treatment were increased by 1.7- and 2.9-fold, respectively, followed by an increase in the intracellular ATP content. These results show that ALA is likely to inhibit cholesterol and fatty acid biosynthesis pathway by suppressing the expression of transcriptional factor SREBPs. Furthermore, ALA promotes fatty acid oxidation in 3T3-L1 adipocytes, thereby increasing its health benefits.

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Analysis of transcriptome profiling in liver tissues of wild-type and SREBP1c knockout mice using RNA-seq

Project description:Sterol regulatory element-binding protein 1c (SREBP1c) plays important roles in lipid metabolism and cell proliferation. To identify novel target genes of SREBP1c, particularly, in cell cycle regulation, we analyzed transcriptome profiling (RNA-seq) in liver tissue of wild-type and SREBP1c knockout mice. Liver transcriptome profiles of 12-week-old wild-type (C57BL/6) and SREBP1c KO mice were generated by mRNA-seq, in duplicate, using Illumina HiSeq4000 by MACROGEN, Inc (Korea).

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Expression data from 10 months old sciatic nerves of Sterol regulatory element binding factor 1c (SREBF-1c) KO mice and relative littermates

2015-02-10 | GSE65754 | GEO

E4BP4 is an insulin-induced stabilizer of nuclear SREBP-1c and promotes SREBP-1c-mediated lipogenesis.

Project description:Upon food intake, insulin stimulates de novo lipogenesis (DNL) in hepatocytes via the AKT-mTORC1-sterol regulatory element-binding protein (SREBP)-1c pathway. How insulin maintains the maximal SREBP-1c activities during the entire feeding state remains elusive. We previously reported that insulin induced b-ZIP transcription factor, E4-binding protein 4 (E4BP4), in hepatocytes. In the current study, we show that insulin injection increases hepatic E4bp4 expression by activating the AKT-mTORC1-SREBP-1c pathway in hepatocytes. E4bp4-deficient hepatocytes not only fail to maintain robust DNL but also become resistant to SREBP-1c-induced lipogenesis. In vivo, acute depletion of E4bp4 in the liver by adenoviral shRNA reduces the expression of lipogenic enzymes and results in reduced levels of serum triglycerides and cholesterol during the postprandial phase. In hepatocytes, E4BP4 interacts with nuclear SREBP-1c to preserve its acetylation, and subsequently protects it from ubiquitination-dependent degradation. In conclusion, the current studies uncover a novel positive feedback pathway mediated by E4BP4 to augment SREBP-1c-mediated DNL in the liver during the fed state.

| S-EPMC4918851 | biostudies-literature

RNA-Seq of Ewing sarcoma shA673-1c cells

Project description:Ewing sarcoma shA673-1c cells were treated with ActD and RNA sequenced to examine RNA stability

2022-03-10 | GSE198177 | GEO

Retinoid X receptors orchestrate osteoclast differentiation and postnatal bone remodeling [SREBP]

Project description:Data from SREBP1c binding to the genome was visualized using Genome Browser (UCSC) in order to test its role in Mafb transcriptional regulation

2015-02-04 | GSE63697 | GEO

Expression data from 10 months old sciatic nerves of Sterol regulatory element binding factor 1c (SREBF-1c) KO mice and relative littermates

Project description:SREBF-1c is a transcription factor regulating fatty acid biosynthesis. We have charaterized the impact of the abcence of SREBF-1c on the development of peripheral neuropathy In this dataset we included expression data from dissected sciatic nerve from 10 months old SREBF-1c KO mice and relative littermates. 6 total samples were analyzed (3 wild type and 3 SREBF-1c KO). Data handling was mainly done using TAC and Partek Genomic Suite software. The Robust Multichip Average (RMA) method was employed to calculate probe set intensity. RMA is a robust multi-chip average expression method that estimates the probe-level data from a set of chips: the perfect-match (PM) values are background-corrected, normalized and finally summarized resulting in a set of expression measures. The identification of differentially expressed genes was addressed using Fold Change (FC) and ANOVA. For each experimental condition the probesets whose fold change are higher or equal than 1.5 with an ANOVA unadjusted p-value lower than 0,05 are selected as significantly modulated.

2015-02-10 | E-GEOD-65754 | biostudies-arrayexpress

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