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SRX16978131: GSM6435827: Dnmt3aVillin723, RNA; Mus musculus; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 41.2M spots, 4.2G bases, 1.3Gb downloads

External Id: GSM6435827_r1
Submitted by: Cell biology Lab, Institute of Clinical Molecular Biology
Study: DNA methyltransferase 3A controls intestinal epithelial barrier function and regeneration in the colon [RNA-seq]
show Abstracthide Abstract
Genetic variants in the DNMT3A locus have been associated with inflammatory bowel disease (IBD). DNMT3A is part of the epigenetic machinery physiologically involved in DNA methylation. We show that DNMT3A plays a critical role in maintaining intestinal homeostasis and gut barrier function. DNMT3A expression is downregulated in intestinal epithelial cells (IECs) from IBD patients and upon TNF treatment in murine intestinal organoids. Ablation of DNMT3A in Caco-2 cells results in global DNA hypomethylation, which is linked to impaired regenerative capacity, transepithelial resistance and intercellular junction formation. Genetic deletion of Dnmt3a in IECs (Dnmt3a?IEC) in mice confirms the phenotype of an altered epithelial ultrastructure with shortened apical-junctional complexes, reduced Goblet cell numbers and increased intestinal permeability in the colon in vivo. Dnmt3a?IEC mice suffer from increased susceptibility to experimental colitis, characterized by reduced epithelial regeneration. These data demonstrate a critical role for DNMT3A in orchestrating intestinal epithelial homeostasis and response to tissue damage and suggest an involvement of impaired epithelial DNMT3A function in the etiology of IBD. Overall design: For the in vitro experiment with Caco-2 cells, 4 groups have been analyzed with 4 replicates each. For in vivo experiment using purified intestinal epithelial cells from Dnmt3a ?IEC in steady state, 4 wild type mice and 4 Dnmt3a ?IEC mice were used.
Sample: Dnmt3aVillin723, RNA
SAMN30191993 • SRS14564934 • All experiments • All runs
Organism: Mus musculus
Library:
Name: GSM6435827
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: RNA was isolated from Caco-2 cells and purified IECs using RNeasy kit (Qiagen) according to manufacturer´s instructions. RNA samples from Caco-2 cells were sequenced on HiSeq3000 (Illumina, San Diego, United States) (2 X 75 bp) while that from mice IECs were sequenced NovaSeq 6000 (2 X 50 bp) using Illumina total RNA stranded TruSeq protocol.
Runs: 1 run, 41.2M spots, 4.2G bases, 1.3Gb
Run# of Spots# of BasesSizePublished
SRR2095956141,243,7814.2G1.3Gb2022-09-21

ID:
23755589

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