GEO series

Effector differentiation by stem-like intraepithelial γδ T cells is required for host defense against infection

GSE309993 Mus musculus Expression profiling by high throughput sequencing 25 samples Submitted 2026/04/13 Platform GPL28457Platform GPL24247

Summary

Intraepithelial γδ T cells (γδIELs) are crucial for maintaining intestinal homeostasis, yet their functional regulation remains incompletely understood. Here, we identified two distinct γδIEL subsets: CD160+TCF1+BCL6+ stem-like and granzymeB+BLIMP1+ effector-like cells; the latter exhibited cytotoxic activity. Stem-like γδIELs differentiated into effector-like cells in response to microbiota and pathogen infection. IL-12, in cooperation with IL-15 and TCR signaling, activated a STAT4-BLIMP1 pathway to induce effector differentiation, and IL-12 signaling was required for their cytotoxic function. Tcf7 deletion significantly reduced stem-like but not effector-like γδIELs, while Bcl6 deficiency increased effector-like γδIELs selectively. In contrast, the absence of Prdm1 not only abolished the development of effector-like γδIELs but also impaired the clearance of enterogenous pathogens. Taken together, these findings define two functionally distinct γδIEL subsets with a hierarchical regulatory program linking microbial signals and cytokine pathways to their cytotoxic function in the gut.

Published in

Xie S, Xing Q, Zhang Q et al. · Immunity 2026 · PMID 41747734 · doi:10.1016/j.immuni.2026.01.006

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Direct links to NCBI, no account and no request form: the whole study as GSE309993_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 25 samples. Raw sequencing reads are also available from ENA.

Whole study · RAW.tar ↓ Series matrix ↓ All supplementary files ↗ Raw reads on ENA ↗

Also filed as BioProject PRJNA1357327 and SRA study SRP641196. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41747734) ↗

Study design

11 conditions, mostly in duplicate

SI_gd_Bcl6n ×3 SI_gd_Bcl6p ×3 LI_gd_Bcl6p ×2 CD160p_gd_Bcl6_WT ×2 CD160p_gd_Bcl6_KO ×2 total_gd_Prdm1_WT ×2 total_gd_Prdm1_KO ×2 CD160p_gd_Tcf7_WT ×2 +4 more

Supports a between-group comparison across 24 samples.

11 replicated groups read from 25 sample titles; they account for 24 of them. Check it against the sample list below before relying on it.

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