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| Status |
Public on Jul 23, 2018 |
| Title |
Large-scale single cell mapping of the thymic stroma identifies a new thymic epithelial cell lineage [ATAC-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
T cell development and selection is orchestrated in the thymus by a specialized niche of diverse stromal populations. By transcriptional single cell sorting, we de novo characterize the entire stromal compartment of the thymus. We identified dozens of cell states within the thymic stroma, with thymic epithelial cells (TEC) showing the highest degree of heterogeneity. Our analysis highlights four major medullary TEC (mTEC I-IV) populations, with distinct molecular functions, epigenetic landscapes and lineage regulators. Specifically, mTEC-IV constitutes a new and highly divergent TEC lineage with molecular characteristics of the gut chemosensory epithelial tuft cells. Mice deficient of Pou2f3, a tuft cells master regulator, resulted in complete and specific depletion of mTEC-IV, without affecting other TEC populations. Overall, our study comprehensively defines all stroma cells in the thymus and identifies a new TEC lineage associated with chemosensory properties that may potentially link the adaptive immune system to environmental and neurological signals.
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| |
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| Overall design |
Transcriptional profiling of single cells from the stroma of mouse thymus, generated from deep sequencing of tens of thousands of cells, reveled 4 subpopulations of medullary epithelial cells. ATAC-seq assay profile the accessible chromatin landscape of these subpopulation.
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| |
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| Contributor(s) |
Amit I, Abramson J, Bornstein C, Nevo S, Giladi A, Kadouri N |
| Citation(s) |
30022162 |
| |
| Submission date |
Sep 18, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Ido Amit |
| E-mail(s) |
ido.amit@weizmann.ac.il
|
| Phone |
972-8-9343338
|
| Organization name |
Weizmann Institute of Science
|
| Department |
Immunology
|
| Street address |
234 Herzl st.
|
| City |
Rehovot |
| ZIP/Postal code |
760001 |
| Country |
Israel |
| |
|
| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE103970 |
Large-scale single cell mapping of the thymic stroma identifies a new thymic epithelial cell lineage |
|
| Relations |
| BioProject |
PRJNA407805 |
| SRA |
SRP117952 |
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