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Epigenetic Activation of BCL11B Mediates Profibrotic Cardiac Remodeling Triggered by Colitis-Associated Gut Dysbiosis

GSE268069 Mus musculus (mouse) RNA-seq (gene expression) 19 samples Submitted 2025/12/31 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 19 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Mus musculus (mouse)
Samples
19 samples: 5 × Mouse heart, M_DM vs 5 × Mouse heart, F_NM vs 5 × Mouse heart, F_DM vs 4 × Mouse heart, M_NMGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Summary (written by the submitters)
Inflammatory bowel disease (IBD) is linked to elevated cardiovascular risk, but the mechanisms connecting gut dysbiosis to heart pathology are unclear. This study investigated whether transplanting a dysbiotic microbiome (DM) from colitic mice could alter cardiac function in germ-free recipients. Results showed that DM transplantation impaired cardiac contractility and increased collagen deposition, indicating fibrosis.
Read the full summary ↓
Transcriptomic analysis revealed widespread gene upregulation, particularly in females, with enrichment in histone acetylation and immune signaling pathways. Key epigenetic regulators, Nat8f7 and Tet1, were significantly upregulated, leading to increased histone acetylation and reduced DNA methylation at the Bcl11b promoter. This enhanced RNA polymerase II recruitment and Bcl11b transcription. In a model of dextran sodium sulfate (DSS)-induced colitis, similar upregulation of Nat8f7, Tet1, and Bcl11b occurred alongside increased fibrotic markers. Crucially, fecal microbiota transplantation from healthy donors reversed these molecular and fibrotic changes, normalizing Bcl11b expression and epigenetic status. Furthermore, functional assays demonstrated that BCL11B overexpression drives fibroblast proliferation and collagen production. In conclusion, these findings identify a novel gut-heart axis where a dysbiotic microbiome promotes cardiac fibrosis through the epigenetic activation of Bcl11b, and restoring a healthy microbiome mitigates these effects, pointing to microbiome-targeted strategies as potential therapies for IBD-related cardiovascular complications.
This dataset
Open GSE268069 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE268069_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1114124 and SRA study SRP509080. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
5 × Mouse heart, M_DM vs 5 × Mouse heart, F_NM vs 5 × Mouse heart, F_DM vs 4 × Mouse heart, M_NM

Supports a between-group comparison across 19 samples.

How we read this: 4 replicated groups read from 19 sample titles; they account for 19 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study
Datasets on a similar topic

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Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.