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Series GSE223798 Query DataSets for GSE223798
Status Public on Jan 01, 2024
Title Donor regulatory T cells rapidly adapt to recipient tissues to control acute graft-versus-host disease [scRNA-seq & scTCR-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Adoptive transfer of donor regulatory T cells (Treg) is a promising treatment option for Graft-versus-Host disease (GvHD), but has not yet found its way into routine clinical practice. To map distinctive properties of protective Treg (generated by either polyclonal or allogeneic in vitro expansion), we followed their fate in recipient organs (spleen, liver, colon) in a prophylactic mouse model of MHC-mismatched bone-marrow transplantation (BMT). Using comprehensive gene expression and T cell receptor profiling, we show that both in vitro expansion protocols generated Treg products that preserved hallmark Treg properties, ameliorated GvHD symptoms, retained their phenotypic plasticity and rapidly acquired organ-specific gene expression profiles after BMT, comparable to their tissue-resident counterparts. When co-transplanted with GvHD-inducing T cells, Treg enabled hallmark suppressive and cytotoxic features, most evidently in the colon. Dominant Treg T cell receptor clonotypes were evenly distributed between organs and across recipients, suggesting a major role of ubiquitous alloantigen-specific Treg in controlling GvHD. Effective protection inversely correlated with the relative abundance of organ-specific Treg, that were transcriptionally distinct, less “activated” and preferentially accumulated in the colon of recipients receiving polyclonally expanded Treg. In summary, we provide a detailed atlas of Treg selection and adaptation in the prophylactic therapy of GvHD.
Overall design Donor Treg were reisolated from recipient mice in a GvHD model and sequenced (singleCell RNASeq, TCRSeq)
Contributor(s) Dittmar D, Pielmeier F, Stanewsky H, Rehli M, Strieder N
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Submission date Jan 26, 2023
Last update date Jan 01, 2024
Contact name Michael Rehli
Organization name University Hospital Regensburg
Department Internal Med III
Street address F.-J.-Strauss-Allee 11
City Regensburg
ZIP/Postal code 93042
Country Germany
Platforms (2)
GPL21626 NextSeq 550 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (21)
GSM6995994 scRNA-seq_Colon recipient 1
GSM6995995 scRNA-seq_Liver recipient 1
GSM6995996 scRNA-seq_Spleen recipient 1
This SubSeries is part of SuperSeries:
GSE223800 Donor regulatory T cells rapidly adapt to recipient tissues to control acute graft-versus-host disease
BioProject PRJNA928408

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
GSE223798_Counts_Colon_filtered.tsv.gz 24.4 Mb (ftp)(http) TSV
GSE223798_Counts_Colon_filtered_annotation.tsv.gz 128.8 Kb (ftp)(http) TSV
GSE223798_Counts_Colon_filtered_metainfo_TCRchain_TRA.tsv.gz 1.0 Mb (ftp)(http) TSV
GSE223798_Counts_Colon_filtered_metainfo_TCRchain_TRB.tsv.gz 1.0 Mb (ftp)(http) TSV
GSE223798_Counts_filtered.tsv.gz 63.1 Mb (ftp)(http) TSV
GSE223798_Counts_filtered_annotation.tsv.gz 321.1 Kb (ftp)(http) TSV
GSE223798_Counts_filtered_metainfo_TCRchain_TRA.tsv.gz 2.5 Mb (ftp)(http) TSV
GSE223798_Counts_filtered_metainfo_TCRchain_TRB.tsv.gz 2.5 Mb (ftp)(http) TSV
GSE223798_RAW.tar 476.6 Mb (http)(custom) TAR (of LOOM, TAR)
GSE223798_Seurat_Sel_anndata_02062022.h5ad.gz 2.4 Mb (ftp)(http) H5AD
GSE223798_Seurat_SingleCellRNA_plusTCR.rds.gz 4.5 Gb (ftp)(http) RDS
GSE223798_SingleCellRNA_full_zk.h5ad.gz 4.8 Gb (ftp)(http) H5AD
GSE223798_anndata_colon_p36_scvelo.h5ad.gz 11.5 Mb (ftp)(http) H5AD
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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