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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 24, 2024 |
| Title |
JAK-STAT signaling maintains homeostasis in T cells and macrophages (spatial transcriptomics) |
| Organism |
Mus musculus |
| Experiment type |
Other
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| Summary |
Immune cells need to sustain a state of constant alertness over a lifetime. Yet, little is known about the regulatory processes that control the fluent and fragile balance that is called homeostasis. Here we demonstrate that JAK-STAT signaling, beyond its role in immune responses, is a major regulator of immune cell homeostasis. We investigated JAK-STAT-mediated transcription and chromatin accessibility across 12 mouse models, including knockouts of all STAT transcription factors and of the TYK2 kinase. Baseline JAK-STAT signaling was detected in CD8+ T cells and macrophages of unperturbed mice – but abrogated in the knockouts and in unstimulated immune cells deprived of their normal tissue context. We observed diverse transcription-regulatory programs, including gene regulation by STAT2 and IRF9 independent of STAT1. In summary, our large-scale dataset and integrative analysis of JAK-STAT mutant and wildtype mice uncovered a crucial role of JAK-STAT signaling in unstimulated immune cells, where it contributes to a poised epigenetic and transcription-regulatory state and helps prepare these cells for rapid response to immune stimuli.
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| Overall design |
4 spatial transcriptomics samples of spleen-tissue slices from wildtype and Stat1 mutant animals
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| Contributor(s) |
Fortelny N, Farlik M, Fife V, Gorki A, Lassnig C, Maurer B, Meissl K, Dolezal M, Boccuni L, Geetha AR, Karjalainen A, Shoebridge S, Mann U, Jain R, Tikoo S, Zila N, Esser-Skala W, Krausgruber T, Sitnik K, Farhat A, Penz T, Hladik A, Suske T, Akagha MJ, Zahalka S, Senekowitsch M, Barreca D, Halbritter F, Macho-Maschler S, Weninger W, Neubauer HA, Moriggl R, Knapp S, Sexl V, Strobl B, Decker T, Müller M, Bock C |
| Citation(s) |
38658806, 40025196 |
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| Submission date |
Mar 12, 2023 |
| Last update date |
Mar 20, 2025 |
| Contact name |
Christoph Bock |
| E-mail(s) |
cbock@cemm.oeaw.ac.at
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| Organization name |
CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
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| Street address |
Lazarettgasse 14
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| City |
Vienna |
| ZIP/Postal code |
1090 |
| Country |
Austria |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (4)
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| GSM7092703 |
Spleen-derived tissue slice from Stat1-ko mice 1 |
| GSM7092704 |
Spleen-derived tissue slice from Stat1-ko mice 2 |
| GSM7092705 |
Spleen-derived tissue slice from wildtype mice 1 |
| GSM7092706 |
Spleen-derived tissue slice from wildtype mice 2 |
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| This SubSeries is part of SuperSeries: |
| GSE204736 |
JAK-STAT signaling maintains homeostasis in T cells and macrophages |
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| Relations |
| BioProject |
PRJNA943499 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE227168_aggr_tissue_positions.csv.gz |
223.9 Kb |
(ftp)(http) |
CSV |
| GSE227168_filtered_feature_bc_matrix.h5 |
27.1 Mb |
(ftp)(http) |
H5 |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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