|
| Status |
Public on Apr 15, 2020 |
| Title |
Single Cell RNA-Seq of CD8+ T cell subsets responding to tumor |
| 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.
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| |
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| Overall design |
16 samples, 2 replicates each, Single cell RNA sequencing was performed on CD8 T cells isolated from the spleen or B16 tumors at 1 timepoint
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| |
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| 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) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
|
| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE147502 |
Heterogeneity of tissue-resident CD8+ T cells in response to infection and malignancy |
|
| Relations |
| BioProject |
PRJNA612897 |
| SRA |
SRP253013 |
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