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Function of Epithelium BRG1 in colitis and CAC II

ABSTRACT: Here we show that epithelial BRG1, the catalytic subunit of SWI/SNF complex is critical for colitis and colitis-associated-cancer. Depletion of BRG1 in colonrectal epithelial cells make mice develop Spontaneous colitis. To dissect underlying mechanism, we conducted gene expression profile analysis (RNA-Seq) by using primary colonrectal epithelial cells isolated from BRG1CTRL and BRG1IEC-KO(Tamoxifen induced BRG1 knock-out) mice to gain molecular insights into the affected biological processes. To this end, colorectal epithelial cells were isolated after 7 days of tamoxifen treatment, on which day BRG1-depleted mice showed little morphological defects in colon in comparison with control littermates. IECs were isolated by EDTA isolation buffer. Each sample contains pooled mRNA from 3 mice, and was subjected to Hiseq RNA-Seq, performed by Guangzhou RiboBio Co., Ltd. (Guangzhou, China)using IlluminaHiSeq 3000 platform.

ORGANISM(S): Mus musculus

PROVIDER: GSE121206 | GEO | 2019/03/01

REPOSITORIES: GEO

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Function of Epithelium BRG1 in colitis and CAC

Project description:Here we show that epithelial BRG1, the catalytic subunit of SWI/SNF complex is critical for colitis and colitis-associated-cancer. Depletion of BRG1 in colonrectal epithelial cells make mice develop Spontaneous colitis. To dissect underlying mechanism, we conducted gene expression profile analysis (RNA-Seq) by using primary colonrectal epithelial cells isolated from BRG1CTRL and BRG1IEC-KO(Tamoxifen induced BRG1 knock-out) mice to gain molecular insights into the affected biological processes. To this end, colorectal epithelial cells were isolated after 14 days of tamoxifen treatment, on which day BRG1-depleted mice showed little morphological defects in colon in comparison with control littermates. IECs were isolated by EDTA isolation buffer. Each sample contains pooled mRNA from 3 mice, and was subjected to Hiseq RNA-Seq, performed by BGI Tech Solutions Co., Ltd.

2019-03-01 | GSE112069 | GEO

Genome-wide assay of BRG1 regulated genes in inflamed colon epithelial cells

Project description:Here we focus on the function of BRG1 in colitis and colitis-associated-cancer, in the aim of finding the direct target genes of BRG1 which may response for the phenotype we observed in BRG1 conditional knock-out mice, ChIP-Seq assay is used. The cells used for ChIP-Seq is colon epithelial cells which isolated from DSS treated mice.

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Exosomes from microglia attenuate photoreceptor injury and neovascularisation in an animal model of retinopathy of prematurity

Project description:Total RNAs from exosomes was used for miRNA library preparation and sequencing.The preparation and sequencing of exosome miRNA were performed by Ribobio (Guangzhou, China). First, total RNA samples were fractionated by using 15% Tris-borate-EDTA (TBE) polyacrylamide gel (Invitrogen), then small RNAs ranging from 18 to 30 nucleotides were used for library preparation. Amplification of these small RNAs was then accomplished by PCR. Next, the Illumina HiSeq 2500 platform was used to sequence these RNAs.

2019-04-25 | GSE128278 | GEO

BRG1 attenuates colonic inflammation and tumorigenesis through autophagy-dependent oxidative stress sequestration

Project description:We report that BRG1, an ATPase subunit of the SWI/SNF chromatin remodeling complex, was required for the homeostatic maintenance of colonic epithelial cells (IECs) to prevent the inflammation and tumorigenesis. Consistent with the reduced BRG1 expression in IBD patients, adult mice with IEC ablation of BRG1 developed spontaneous colitis and exhibited increased susceptibility to mutagen-induced tumor growth. Conversely, BRG1 overexpression protected the mice from DSS-induced epithelial damage and subsequent oncogenesis. Mechanistically, BRG1 emerged as a key regulator that directly governs the transcription of Atg16l1, Ambra1, Atg7 and Wipi2, which are important for autophagosome biogenesis. Thus, defective autophagy in BRG1-deficient IECs resulted in excess reactive oxygen species (ROS), which led to the defects in cellular apoptosis and barrier integrity.

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MICRORNA-208a DYSREGULATES APOPTOSIS GENES EXPRESSION

Project description:\miR-208a is a cardiac specific microRNA whose expression is dysregulated in several cardiac diseases including myocardial infarction (MI) and dilated cardiomyopathy in which it is associated with adverse outcomes. Given that there is increased apoptosis in these pathologies, we investigated if miR-208a has any effect on apoptosis genes expression. we also investigated its effect on genes in other pathways such as autophagy, ion channels, angiogenesis. Methods and Results The effect of miR-208a on apoptosis during ischemia was studied in cultured neonatal mice myocytes transfected with agomir or antagomir. Differential gene expression induced by miR-208a was assessed using microarrays. Microarray profiling was done on custom made array chips by a service provider ( Ribobio co. Guangzhou China), using total RNA isolated from cultured cardiomyocytes transfected with miR-208a agomir or control for 72hrs. Up and down regulated genes are available as additional files in this submission https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3477/files/

2015-08-19 | E-MTAB-3477 | biostudies-arrayexpress

5-hydroxytryptamine synthesized in the Aorta-Gonad-Mesonephros regulates hematopoietic stem and progenitor cell survival

Project description:Whole-genome gene expression analysis was performed using the AGMs from two littermate pairs of tph2+/+, tph2+/- or tph2-/- at E11.5. The total RNA was extracted using TRNzol (Tiangen, Beijing) and cDNA samples were sequenced using Illumina HiSeq3000 (RiboBio Co. Ltd, Guangzhou). The reference Mus musculus genome and gene information were downloaded from the National Center for Biotechnology Information Database (NCBI: http://www.ncbi.nlm.nih.gov/).

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RNAseq of mouse colon epithelial cell fraction in Lingo2 and WT mice

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The Role of Epithelium EZH2 in Experimental Colitis

Project description:Despite recent progress, the contribution of epigenetic mechanisms to govern Inflammatory bowel disease (IBD) pathogenesis remains elusive. Here we show that epithelial EZH2, the catalytic subunit of PRC2 is critical for experimental colitis. Depletion of EZH2 in intestinal epithelial cells sensitized the cells to DSS-induced colitis in mice. To dissect underlying mechanism, we conducted gene expression profile analysis (RNA-Seq) by using primary Intestinal epithelial cells (IECs) isolated from EZH2 WT and KO mice to gain molecular insights into the affected biological processes. To this end, colorectal epithelial cells were isolated after 3 days of 2% DSS treatment, in which day EZH2-depleted mice did not display the obviously morphological defects in comparison with control littermates. IECs were isolated by EDTA isolation buffer. Each sample contains pooled prostate RNA from 5 mice, and was subjected to Hiseq RNA-Seq, performed by BGI Tech Solutions Co., Ltd. There was total 1018 genes up-regulated after EZH2 depletion, respectively. Gene ontology (GO) analysis revealed that the most prominent biological processes altered were associated with immune and inflammatory response. Likewise, unbiased Ingenuity Pathway Analysis (IPA) indicated that TNF-alpha and INF-gamma serve as the top upstream regulators to modulate gene changes in EZH2-depleted cells. In addition, a sub-set of apoptotic were altered after EZH2 depletion.

2017-08-22 | GSE84857 | GEO

Small intestinal tissue and epithelial regeneration after 12 Gy whole-body irradiation of C57BL/6 wild type mice

Project description:C57BL/6 wild type mice were exposed to 12 Gy whole-body irradiation. Before irradiation (t=0) and at t=24, 48 and 96 hours after irradiation, mice (n=10 per time point) were euthanized. From n=5 mice per time point RNA was isolated from small-intestinal (jejunum) tissue, from n=5 mice per time point RNA was isolated from EDTA-isolated epithelial cells from small-intestinal tissue (jejunum).

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RNAseq of mouse colon epithelial cell fraction in Lingo3, and WT mice

Project description:The purpose of this experiment is to deep sequence transcripts in WT mice and mice lacking Lingo3, and compare gene expression in the epithelial cells of the colon between wild type and mutant mice. Colon tissue was isolated from each mouse, and epithelial cells were removed from the colon by washing the tissue with 5 mM EDTA + 2.5 mM DTT solution.

2022-07-11 | GSE134172 | GEO

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