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Series GSE106489 Query DataSets for GSE106489
Status Public on Sep 25, 2018
Title Neonatal imprinting of mesenteric lymph node stroma modulates tolerogenic properties of dendritic cells [scRNA-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Gut-draining mesenteric lymph nodes (mLNs) play a key role in peripheral tolerance towards food and commensal antigens by providing an optimal microenvironment for efficient de novo induction of Foxp3+ regulatory T cells (Tregs). We recently identified mLN stromal cells as critical cellular players in this process and demonstrated that their tolerogenic properties are imprinted by microbiota. Here, we show that this imprinting process already takes place in the neonatal phase and renders the mLN stromal cell compartment resistant to inflammatory perturbations later in life. Utilizing LN transplantation, RNA-seq and single-cell RNA-seq allowed identification of stably imprinted expression signatures in mLN fibroblastic stromal cells. We dissected common stromal cell subsets across gut-draining mLNs and skin-draining LNs with location-specific immunomodulatory functions, such as subset-specific expression of Aldh1a2/3. Accordingly, mLN stromal cells shaped resident dendritic cells to attain high Treg-inducing capacity in a Bmp2-dependent manner. Thus, crosstalk between mLN stromal and resident dendritic cells provides a robust feedback mechanism for the maintenance of intestinal tolerance.
Overall design Single-cell transcriptomic analysis of skin-draining pLNs (inguinal and axillary) or mLNs (small intestinal and colon/caecum-draining) cell populations.
Contributor(s) Pezoldt J, Pasztoi M, Zou M, Wiechers C, Beckstette M, Thierry G, Vafadarnejad E, Floess S, Arampatzi P, Buettner M, Schweer J, Fleissner D, Vital M, Pieper DH, Basic M, Dersch P, Strowig T, Hornef M, Bleich A, Bode U, Pabst O, Bajenoff M, Saliba A, Huehn J
Citation(s) 36227687
Submission date Nov 03, 2017
Last update date Jan 05, 2023
Contact name Joern Pezoldt
Phone 0041766040171
Organization name EPFL
Department SV
Lab Laboratory Systems Biology and Genetics
Street address Station 19, SV 3818.A
City Lausanne
ZIP/Postal code 1015
Country Switzerland
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (4)
GSM2838916 L1700566
GSM2838917 L1700567
GSM3162136 B5
This SubSeries is part of SuperSeries:
GSE116633 Neonatally imprinted mesenteric lymph node stromal cell subsets induce tolerogenic dendritic cells
BioProject PRJNA417026
SRA SRP123573

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
GSE106489_DE-MULTIPLEXING_README.txt 162 b (ftp)(http) TXT
GSE106489_DE-MULTIPLEXING_README_Bsamples.txt 150 b (ftp)(http) TXT
GSE106489_RAW.tar 996.3 Mb (http)(custom) TAR (of CSV, H5)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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