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Series GSE157453 Query DataSets for GSE157453
Status Public on Oct 02, 2020
Title T cell receptor is required for differentiation but not maintenance of intestinal CD4+ intraepithelial lymphocytes
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The gut epithelium is populated by intraepithelial lymphocytes (IELs), a heterogeneous T cell population with cytotoxic and regulatory properties, which can be imprinted on CD4+ T cells at the epithelium. However, the role of the T cell receptor (TCR) in this process remains unclear. Single-cell transcriptomic analyses revealed distinct clonal expansions between cell states, with CD4-IELs being one of the least diverse populations. Conditional deletion of TCR on differentiating CD4+ T cells or of MHCII on intestinal epithelial cells prevented CD4-IEL differentiation. However, TCR ablation on differentiated CD4-IELs, or long-term cognate antigen withdraw, did not affect their maintenance. TCR re-engaging of antigen-specific CD4-IELs during Listeria monocytogenes infection did not alter their state but correlated with reduced bacteria invasion. Thus, local antigen recognition is an essential signal for differentiation of T cells at the epithelium but differentiated CD4-IELs are able to preserve an effector program in the absence of TCR signaling.
Overall design Full transcriptome profiles of bulk populations and single cells of intraepithelial lymphocytes (IELs) with TCR repertoire of single cells.
Contributor(s) Bilate AM, London M, Castro TR, Mesin L, Bortolatto J, Kongthong S, Harnagel A, Victora GD, Mucida D
Citation(s) 33022229
Submission date Sep 03, 2020
Last update date Jan 01, 2021
Contact name Tiago Castro
Organization name The Rockefeller University
Lab Laboratory of Mucosal Immunology
Street address 1230 York Avenue
City New York
State/province New York
ZIP/Postal code 10065
Country USA
Platforms (2)
GPL16417 Illumina MiSeq (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (28)
GSM4766479 10x mRNA Single cell sequencing of IELs 1
GSM4766480 10x mRNA Single cell sequencing of IELs 2
GSM4766481 10x TCR Single cell sequencing of IELs 1
BioProject PRJNA661330
SRA SRP280026

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Supplementary file Size Download File type/resource
GSE157453_RAW.tar 311.0 Mb (http)(custom) TAR (of CSV, FASTA, H5, JSON, LOOM, MTX, TSV, XLSX)
GSE157453_RNA.Meta.csv.gz 65.8 Kb (ftp)(http) CSV
GSE157453_TCR.Meta.csv.gz 33.2 Kb (ftp)(http) CSV
GSE157453_data.10x.rds.gz 56.7 Mb (ftp)(http) RDS
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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