|
| Status |
Public on Apr 15, 2020 |
| Title |
RNA-Seq of CD8+ T cell subsets during LCMV infection I |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Tissue-resident memory CD8+ T cells (Trm) provide host protection through continuous surveillance of non-lymphoid tissues. While the relevance of Trm in diverse diseases ranging from infection to cancer is appreciated, the development and functional heterogeneity of Trm remain poorly understood. Using single-cell RNA-sequencing (scRNA-seq) and genetic reporter mice, we identified discrete lineages of intestinal antigen-specific CD8+ T cells, including a Blimp1hiId3lo tissue-resident effector cell population most prominent in the early phase of acute viral and bacterial infections, and a molecularly distinct Blimp1loId3hi tissue-resident memory population that subsequently accumulated at later infection timepoints. These distinct Trm populations where characterized by unique transcriptional programs including differential roles for transcriptional regulators Blimp1, T-bet, Id2, and Id3 in supporting and maintaining intestinal Trm heterogeneity during infection. Extending our analysis to malignant tissue, we also identified discrete populations of effector-like and memory-like CD8+ T cell populations with tissue-resident gene-expression signatures within tumors that shared features of terminally-exhausted and progenitor-exhausted T cells, respectively. Clarification of CD8+ T cell ontogeny and heterogeneity in non-lymphoid tissues holds broad implications for enhancing vaccination and immunotherapy approaches.
|
| |
|
| Overall design |
14 samples, 1-2 replicates each, Day 7 or Day 35 LCMV infection CD8+ T cell subsets
|
| |
|
| Contributor(s) |
Omilusik KD, Milner JJ, Goldrath AW |
| Citation(s) |
32433949 |
| |
| Submission date |
Mar 16, 2020 |
| Last update date |
Jul 15, 2020 |
| Contact name |
Ananda Goldrath |
| E-mail(s) |
[email protected]
|
| Organization name |
UCSD
|
| Department |
Molecular Biology
|
| Lab |
Goldrath Lab
|
| Street address |
9500 Gilman Dr
|
| City |
San diego |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
|
| Samples (27)
|
|
| This SubSeries is part of SuperSeries: |
| GSE147502 |
Heterogeneity of tissue-resident CD8+ T cells in response to infection and malignancy |
|
| Relations |
| BioProject |
PRJNA613614 |
| SRA |
SRP253452 |
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