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  • Single-Cell RNA Sequencing ...
    Rodda, Lauren B.; Lu, Erick; Bennett, Mariko L.; Sokol, Caroline L.; Wang, Xiaoming; Luther, Sanjiv A.; Barres, Ben A.; Luster, Andrew D.; Ye, Chun Jimmie; Cyster, Jason G.

    Immunity (Cambridge, Mass.), 05/2018, Letnik: 48, Številka: 5
    Journal Article

    Stromal cells (SCs) establish the compartmentalization of lymphoid tissues critical to the immune response. However, the full diversity of lymph node (LN) SCs remains undefined. Using droplet-based single-cell RNA sequencing, we identified nine peripheral LN non-endothelial SC clusters. Included are the established subsets, Ccl19hi T-zone reticular cells (TRCs), marginal reticular cells, follicular dendritic cells (FDCs), and perivascular cells. We also identified Ccl19lo TRCs, likely including cholesterol-25-hydroxylase+ cells located at the T-zone perimeter, Cxcl9+ TRCs in the T-zone and interfollicular region, CD34+ SCs in the capsule and medullary vessel adventitia, indolethylamine N-methyltransferase+ SCs in the medullary cords, and Nr4a1+ SCs in several niches. These data help define how transcriptionally distinct LN SCs support niche-restricted immune functions and provide evidence that many SCs are in an activated state. Display omitted •Single-cell RNA sequencing of lymph node stromal cells reveals nine clusters•Known subsets TRCs, MRCs, FDCs, and perivascular cells identified•Five additional stromal cell clusters identified and anatomical locations determined•Two clusters, Cxcl9+ TRCs and Nr4a1+ SCs, are defined by activation signatures Lymph node stromal cells support diverse processes, but bulk assessments obscure their niche-specific functions. Rodda et al. identify transcriptional profiles for nine lymph node stromal cell clusters using single-cell RNA sequencing, validate subset markers in situ, and suggest niche-restricted functions.