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Analyses to examine the effect of the iron chelator deferoxamine on 3T3-L1 pre-adipocyte cells

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Mus musculus

PROVIDER: GSE174136 | GEO | 2023/04/23

REPOSITORIES: GEO

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ChIP-seq analysis to examine the effect of the iron chelator deferoxamine on histone methylation levels in 3T3-L1 pre-adipocyte cells

Project description:Adipocyte differentiation has been shown to require iron, but the underlying mechanism remains elusive. Ferrous iron ion is known to function as a co-factor for alpha-ketoglutarate-dependent dioxygenases, including demethylases for histones, DNA, and RNA. Previously we reported several alpha-ketoglutarate-dependent histone demethylases as critical epigenetic regulators during adipogenesis. These lines of evidence led us to hypothesize that iron orchestrates epigenetic/epitranscriptional regulations during adipogenesis by controlling demethylation activities. In this study, we conducted genome-wide analysis on methylation landscapes of histones, DNA, and RNA in differentiation of 3T3-L1 pre-adipocytes. Using the iron chelator deferoxamine, we demonstrate here how dynamically methylation levels of histones, DNA, and RNA are regulated by iron during adipogenesis.

2023-04-23 | GSE174133 | GEO

RNA-seq analysis to examine the effect of the iron chelator deferoxamine on gene expression profile in 3T3-L1 pre-adipocyte cells

2023-04-23 | GSE174132 | GEO

Analyses to examine the effect of the iron chelator deferoxamine on 3T3-L1 pre-adipocyte cells

Project description:Analyses to examine the effect of the iron chelator deferoxamine on 3T3-L1 pre-adipocyte cells

| PRJNA728491 | ENA

Whole genome bisulfite sequencing analysis to examine the effect of the iron chelator deferoxamine on DNA methylation levels in 3T3-L1 pre-adipocyte cells

2023-04-23 | GSE174134 | GEO

RNA-seq analysis to examine the effect of the iron chelator deferoxamine on gene expression profile in 3T3-L1 pre-adipocyte cells

Project description:RNA-seq analysis to examine the effect of the iron chelator deferoxamine on gene expression profile in 3T3-L1 pre-adipocyte cells

| PRJNA728489 | ENA

ChIP-seq analysis to examine the effect of the iron chelator deferoxamine on histone methylation levels in 3T3-L1 pre-adipocyte cells

Project description:ChIP-seq analysis to examine the effect of the iron chelator deferoxamine on histone methylation levels in 3T3-L1 pre-adipocyte cells

| PRJNA728490 | ENA

Whole genome bisulfite sequencing analysis to examine the effect of the iron chelator deferoxamine on DNA methylation levels in 3T3-L1 pre-adipocyte cells

Project description:Whole genome bisulfite sequencing analysis to examine the effect of the iron chelator deferoxamine on DNA methylation levels in 3T3-L1 pre-adipocyte cells

| PRJNA728492 | ENA

The 3T3-L1 adipocyte glycogen proteome.

Project description:BACKGROUND:Glycogen is a branched polysaccharide of glucose residues, consisting of ?-1-4 glycosidic linkages with ?-1-6 branches that together form multi-layered particles ranging in size from 30 nm to 300 nm. Glycogen spatial conformation and intracellular organization are highly regulated processes. Glycogen particles interact with their metabolizing enzymes and are associated with a variety of proteins that intervene in its biology, controlling its structure, particle size and sub-cellular distribution. The function of glycogen in adipose tissue is not well understood but appears to have a pivotal role as a regulatory mechanism informing the cells on substrate availability for triacylglycerol synthesis. To provide new molecular insights into the role of adipocyte glycogen we analyzed the glycogen-associated proteome from differentiated 3T3-L1-adipocytes. RESULTS:Glycogen particles from 3T3-L1-adipocytes were purified using a series of centrifugation steps followed by specific elution of glycogen bound proteins using ?-1,4 glucose oligosaccharides, or maltodextrins, and tandem mass spectrometry. We identified regulatory proteins, 14-3-3 proteins, RACK1 and protein phosphatase 1 glycogen targeting subunit 3D. Evidence was also obtained for a regulated subcellular distribution of the glycogen particle: metabolic and mitochondrial proteins were abundant. Unlike the recently analyzed hepatic glycogen proteome, no endoplasmic proteins were detected, along with the recently described starch-binding domain protein 1. Other regulatory proteins which have previously been described as glycogen-associated proteins were not detected, including laforin, the AMPK beta-subunit and protein targeting to glycogen (PTG). CONCLUSIONS:These data provide new molecular insights into the regulation of glycogen-bound proteins that are associated with the maintenance, organization and localization of the adipocyte glycogen particle.

| S-EPMC3622581 | biostudies-literature

Effect of uncoupling protein-1 expression on 3T3-L1 adipocyte gene expression.

Project description:The mitochondrial respiratory uncoupling protein 1 (UCP1) partially uncouples substrate oxidation and oxidative phosphorylation to promote the dissipation of cellular biochemical energy as heat in brown adipose tissue. We have recently shown that expression of UCP1 in 3T3-L1 white adipocytes reduces the accumulation of triglycerides. Here, we investigated the molecular basis underlying UCP1 expression in 3T3-L1 adipocytes. Gene expression data showed that forced UCP1 expression down-regulated several energy metabolism pathways; but ATP levels were constant. A metabolic flux analysis model was used to reflect the gene expression changes onto metabolic processes and concordance was observed in the down-regulation of energy consuming pathways. Our data suggest that adipocytes respond to long-term mitochondrial uncoupling by minimizing ATP utilization.

| S-EPMC2246051 | biostudies-literature

3T3-L1 adipocyte protein turnover

Project description:Insulin is a potent regulator of protein metabolism. Here we describe a time-resolved map of insulin-regulated protein turnover in 3T3-L1 adipocytes using metabolic pulse-chase labelling and high-resolution mass spectrometry.

2016-10-07 | PXD003696 | Pride

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