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Series GSE130609 Query DataSets for GSE130609
Status Public on Jun 18, 2019
Title The impact of TCR affinity on resident memory T cell formation during influenza virus infection
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Resident memory T (TRM) cells in the lung are vital for heterologous protection against influenza A virus (IAV). Environmental factors are necessary to establish lung TRM, however the role of T cell intrinsic factors like T cell receptor (TCR) signal strength have not been elucidated. Here we investigated the impact of TCR signal strength on the generation and maintenance of lung TRM cells after IAV infection. We inserted high and low affinity OT-I epitopes into IAV and infected mice after transfer of OT-I T cells. We uncovered a bias in TRM formation in the lung elicited by lower affinity TCR stimulation. TCR affinity did not impact the overall phenotype or long-term maintenance of lung TRM cells. Overall, these findings demonstrate that TRM formation is negatively correlated with increased TCR signal strength. Lower affinity cells may have an advantage in forming TRM to ensure diversity in the antigen-specific repertoire in tissues.
 
Overall design OT-I CD8+ T cells were transferred into mice and animals were challenged with 40 PFU of IAV_N4 or IAV_T4. After 34 days, lungs were harvested after CD8-alpha iv staining, and single cell suspensions were sorted for live CD4-B220-F4/80-CD8+iv-CD45.1+CD45.2-Valpha2+CD44hi cells. Cells were FACS sorted directly into cell cysis buffer for RNA extraction. cDNA libraries were prepared using the SMARTer Universal Low Input RNA Kit (Takara Bio). Samples were then profiled by illumina sequencing
 
Contributor(s) Fiege JK, Stone IA, Fay EJ, Markman MW, Wijeyesinghe S, Macchietto MG, Shen S, Masopust D, Langlois RA
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Submission date May 02, 2019
Last update date Jun 21, 2019
Contact name Ryan Langlois
E-mail(s) langlois@umn.edu
Phone 6126253633
Organization name University of Minnesota
Street address 689 23rd Ave SE, 1-117 MRF
City MINNEAPOLIS
State/province MN
ZIP/Postal code 55401
Country USA
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (10)
GSM3744742 1_NA_N4_50000
GSM3744743 2_NA_N4_50000
GSM3744744 3_NA_N4_50000
Relations
BioProject PRJNA540769
SRA SRP194519

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE130609_RAW.tar 2.0 Mb (http)(custom) TAR (of TXT)
GSE130609_raw_counts_all_samples.txt.gz 512.7 Kb (ftp)(http) TXT
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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