GEO series
H2A.Z regulates memory CD8+ T cell recall response [4]
GSE273195
Mus musculus
Genome binding/occupancy profiling by high throughput sequencing
34 samples
Submitted 2025/07/29
Platform GPL24247
Summary
The rapid response of memory CD8+ T cells is crucial for the body's defense against infection and cancer. However, the mechanisms underlying memory recall responses remain unclear. Here we show that the rapid response of memory T cells is accompanied by the induction of gene expression associated with memory CD8+ T cell activation-recalled genes, which participate in various biological functions, such as response to antigen signals, intracellular phosphorylation kinase signaling pathways, and cytokine production. And the expression of ARGs in memory T cells is closely associated with their epigenetic features. We found that the genomic loci of ARGs in memory T cells exhibit active epigenetic marks, such as increased H2A.Z binding, elevated levels of H3K27 acetylation, enhanced binding of Pol II S5P, and reduced levels of repressive histone mark H3K27me3. Interestingly, H2A.Z plays a crucial role in modulating these epigenetic features. Depletion of H2A.Z results in a reduction in H3K27ac levels, decreased binding of Pol II, increased levels of H3K27me3, and a decrease in chromatin accessibility. Functionally, H2A.Z is essential in quiescent memory CD8+ T cells for generating effector CD8+ T cells, producing effector molecules and effectively eliminating pathogens during recall responses. In addition, H2A.Z deposition at specific ARG gene loci in the genome is mainly regulated by TCR/CD28 signals, and may be partly regulated by IL-7 and IL-15. Overall, these findings demonstrate that H2A.Z orchestrates the epigenetic landscape at ARG gene loci to regulate the recall responses of memory T cells.
Published in
Liang W, Ding J, Chai Q et al.
· Nature communications 2025
· PMID 40817373
· doi:10.1038/s41467-025-62976-4
This dataset
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Direct links to NCBI, no account and no request form: the whole study as GSE273195_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 34 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA1140587 and SRA study SRP522436. Searching any of these in the dataset finder brings you back here.
Study design
17 conditions, mostly in duplicate
TN_PolIIS5P-CUTandTag ×2
TM_PolIIS5P-CUTandTag ×2
TN_H2A.Z-CUTandTag ×2
WT-TM_H2A.Z-CUTandTag ×2
cKO-TM_H2A.Z-CUTandTag ×2
WT-TM_ATAC-seq ×2
cKO-TM_ATAC-seq ×2
WT-TM_H3K4me3-CUTandTag ×2
+9 more
Supports a between-group comparison across 34 samples.
17 replicated groups read from 34 sample titles; they account for 34 of them. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM8423863 TN_PolIIS5P-CUTandTag_rep1
- GSM8423864 TN_PolIIS5P-CUTandTag_rep2
- GSM8423865 TM_PolIIS5P-CUTandTag_rep1
- GSM8423866 TM_PolIIS5P-CUTandTag_rep2
- GSM8423867 TN_H2A.Z-CUTandTag_rep1
- GSM8423868 TN_H2A.Z-CUTandTag_rep2
- GSM8423869 WT-TM_H2A.Z-CUTandTag_rep1
- GSM8423870 WT-TM_H2A.Z-CUTandTag_rep2
- GSM8423871 cKO-TM_H2A.Z-CUTandTag_rep1
- GSM8423872 cKO-TM_H2A.Z-CUTandTag_rep2
- GSM8423873 WT-TM_ATAC-seq_rep1
- GSM8423874 WT-TM_ATAC-seq_rep2
- GSM8423875 cKO-TM_ATAC-seq_rep1
- GSM8423876 cKO-TM_ATAC-seq_rep2
- GSM8423877 WT-TM_H3K4me3-CUTandTag_rep1
- GSM8423878 WT-TM_H3K4me3-CUTandTag_rep2
- GSM8423879 cKO-TM_H3K4me3-CUTandTag_rep1
- GSM8423880 cKO-TM_H3K4me3-CUTandTag_rep2
- GSM8423881 WT-TM_H3K27me3-CUTandTag_rep1
- GSM8423882 WT-TM_H3K27me3-CUTandTag_rep2
- GSM8423883 cKO-TM_H3K27me3-CUTandTag_rep1
- GSM8423884 cKO-TM_H3K27me3-CUTandTag_rep2
- GSM8423885 WT-TM_PolIIS5P-CUTandTag_rep1
- GSM8423886 WT-TM_PolIIS5P-CUTandTag_rep2
- GSM8423887 cKO-TM_PolIIS5P-CUTandTag_rep1
- GSM8423888 cKO-TM_PolIIS5P-CUTandTag_rep2
- GSM8423889 WT-TM_Input-ChIP-seq_rep1
- GSM8423890 WT-TM_Input-ChIP-seq_rep2
- GSM8423891 cKO-TM_Input-ChIP-seq_rep1
- GSM8423892 cKO-TM_Input-ChIP-seq_rep2
- GSM8423893 WT-TM_H3K27ac-ChIP-seq_rep1
- GSM8423894 WT-TM_H3K27ac-ChIP-seq_rep2
- GSM8423895 cKO-TM_H3K27ac-ChIP-seq_rep1
- GSM8423896 cKO-TM_H3K27ac-ChIP-seq_rep2
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