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Series GSE216654 Query DataSets for GSE216654
Status Public on Oct 31, 2022
Title Antigen-expanded CD8+ gd T cells with NK-like phenotype and function respond in persistent infection [scRNA-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Gamma Delta (gd) T cells play unique protective roles in different settings of acute and chronic infections. However, what they respond to and how they function in the acute versus chronic phases of the same infection remains unclear. It is well documented that cytolytic gd T cells that express Vg9Vd2 TCRs and respond to phosphoantigens (pAgs) expand in acute Mycobacterium tuberculosis (Mtb) infection in humans. However, most infections with Mtb manifest as a chronic, clinically asymptomatic state. While past work indicates that gd T cells contribute to Mtb infection control, their response during this phase of Mtb infection is not well understood. Here, we analyze peripheral blood gd T cells from a South African adolescent cohort and show that a unique CD8+ gd T cell subset with features of “memory inflation” expand in chronic Mtb infection. Using targeted scRNA-seq coupled with surface protein expression and multiparametric single cell pseudotime trajectory analysis, we identify the differentiation paths that these CD8+ gd T cells follow to develop into effectors in this infection state.
 
Overall design We performed targeted scRNA-seq and concomitant surface protein and TCR sequencing on FACS sorted gd T cells from peripheral blood samples of six donors with persistent Mtb infection.
 
Contributor(s) Chowdhury RR, Valainis JR, Sun M, Scriba TJ, Davis MM, Bendall SC, Chien Y
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Submission date Oct 26, 2022
Last update date Jan 25, 2023
Contact name Roshni Roy Chowdhury
E-mail(s) rroychowdhury@uchicago.edu
Organization name University of Chicago
Street address 924 E 57th Street
City Chicago
ZIP/Postal code 60637
Country USA
 
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (1)
GSM6685361 Total gd T cells, sample tags 7-12
This SubSeries is part of SuperSeries:
GSE216658 Antigen-expanded CD8+ gd T cells with NK-like phenotype and function respond in persistent infection
Relations
BioProject PRJNA894703

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Supplementary file Size Download File type/resource
GSE216654_RAW.tar 20.0 Mb (http)(custom) TAR (of CSV, FASTA)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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