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Series GSE236666 Query DataSets for GSE236666
Status Public on Apr 10, 2024
Title Innate-like T cell subset commitment in the murine thymus is independent of TCR characteristics and occurs during proliferation
Organism Mus musculus
Experiment type Other
Summary we compare the TCR repertoires of MAIT1 and MAIT17 cells from the mouse thymus using 5’ scRNAseq and scTCRseq of MR1:5-OP-RU tetramer positive thymocytes. A thorough analysis of TCR features between MAIT sub-populations did not show any difference between the repertoires of MAIT1 and MAIT17 subsets. Quantitative simulation of clonotype distributions of MAIT1 and MAIT17 cells allowed us to investigate the role of TCR characteristics in MAIT fate choice, and to pinpoint the stage at which lineage commitment occurs. Our results indicate that the TCR characteristics are not instructive in MAIT lineage choice and that MAIT1/17 commitment takes place during MAIT cell proliferation in the thymus. Finally, we performed analogous analysis of a published scRNA-seq and scTCR-seq dataset of iNKT from mouse thymus and demonstrated that our conclusions are also relevant for iNKT1 vs iNKT17 fate commitment.
Overall design Cd3e-/-Mr1-/- mice were sublethally irradiated (420 rads) and reconstituted intravenously with 1 million bone marrow cells from B6-MAITCast RorcGFP mice. Seven weeks after reconstitution, thymus was harvested for further analysis of MR1:5-OP-RU restricted thymocytes. Single-cell suspension of thymus was obtained
Contributor(s) Karnaukhov VK, Le Gac A, Bilonda Mutala L, Darbois-Delahousse A, Perrin L, Legoux F, Walczak AM, Mora T, Lantz O
Citation(s) 38530897
Submission date Jul 06, 2023
Last update date Apr 10, 2024
Contact name Anne-laure Le gac
Phone 0630777988
Organization name Institut Curie
Department U932
Lab Olivier Lantz
Street address 26 rue d'ulm
ZIP/Postal code 75005
Country France
Platforms (2)
GPL16417 Illumina MiSeq (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (3)
GSM7567334 CD3KO_MR1KO_chimera
GSM7567335 HTO_CD3KO_MR1KO_chimera
GSM7567336 TCR_CD3KO_MR1KO_chimera
BioProject PRJNA991993

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Supplementary file Size Download File type/resource
GSE236666_barcodes.tsv.gz 21.5 Kb (ftp)(http) TSV
GSE236666_consensus_annotations.csv.gz 223.1 Kb (ftp)(http) CSV
GSE236666_demultiplexing_README.txt 487 b (ftp)(http) TXT
GSE236666_features.tsv.gz 284.1 Kb (ftp)(http) TSV
GSE236666_filtered_contig_annotations.csv.gz 291.0 Kb (ftp)(http) CSV
GSE236666_matrix.mtx.gz 38.1 Mb (ftp)(http) MTX
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Raw data are available in SRA
Processed data are available on Series record

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