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Series GSE244742 Query DataSets for GSE244742
Status Public on Dec 27, 2023
Title Lymph Node Stromal Cell Responses to Perinatal T Cell Waves, A Temporal Atlas [scRNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The perinatal period is a critical time-window in establishing T-cell tolerance. Regulatory T cells (Tregs) made during the first two weeks of life are key drivers of perinatal tolerance induction, but how these cells are generated and operate has not been established. To elucidate the unique environment murine perinatal Tregs encounter within the lymph nodes (LNs) as they first emerge from the thymus, and how it evolves over the succeeding days, we employed single-cell RNA sequencing to generate an atlas of the early LN niche. A highly dynamic picture emerged, the stromal-cell compartment showing the most striking changes and putative interactions with other LN cell compartments. In particular, LN stromal cells showed increasing potential for lymphocyte interactions with age. Analogous studies on mice lacking α:β T cells or enriched for autoreactive α:β T cells revealed an acute stromal-cell response to α:β T cell dysfunction, largely reflecting dysregulation of Tregs. Punctual ablation of perinatal Tregs induced stromal-cell activation that was dependent on both interferon-gamma signaling and activation of conventional CD4+ T cells. These findings elucidate some of the earliest cellular and molecular events in perinatal induction of T-cell tolerance, providing a framework for future explorations.
 
Overall design Pooled inguinal, axillary and brachial LNs were isolated from female WT and KO littermates aged D4-6, D12-15 and D30-45. Each replicate was processed, encapsulated, and sequenced independently. Samples were gently digested and cytofluorometrically sorted according to CD45.2 expression and encapsulated using the Chromium Single cell 3’ v3 (10x Genomics).
 
Contributor(s) Teshika J, Mathis D, Benoist C
Citation(s) 38079541
Submission date Oct 05, 2023
Last update date Dec 28, 2023
Contact name CBDM Lab
E-mail(s) cbdm@hms.harvard.edu
Phone 617-432-7747
Organization name Harvard Medical School
Department Microbiology and Immunobiology
Lab CBDM
Street address 77 Avenue Louis Pasteur
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
 
Platforms (1)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (8)
GSM7828297 GEX: CD45+ lymph node cells from D5 Aire WT/KO mice, W2 Aire WT/KO mice, W5 Aire WT/KO mice,
GSM7828298 GEX: CD45- lymph node cells from D5 Aire WT/KO mice, W2 Aire WT/KO mice, W5 Aire WT/KO mice
GSM7828299 GEX: CD45+ lymph node cells from D5 TCRb WT/KO mice, W2 TCRb WT/KO mice, W5 TCRb WT/KO mice, 2
This SubSeries is part of SuperSeries:
GSE244743 Lymph Node Stromal Cell Responses to Perinatal T Cell Waves, A Temporal Atlas
Relations
BioProject PRJNA1024481

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE244742_RAW.tar 482.4 Mb (http)(custom) TAR (of MTX, TSV)
GSE244742_readme.txt 3.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA

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