| Evidence |
Among epithelial cells, we identified epithelial progenitors (expressing SOX4), type II alveolar cells (AT2, expressing SFTPB), ciliated cells (FOXJ1), ionocytes (CFTR), goblet cells (MUC5B), and club cells (SCGB1A1; Figure S3B). Lymphoid cells consisted several subtypes of CD4+ T cells, including naive CD4+ T cells (expressing CCR7), regulatory T cells (Treg, expressing FOXP3), and T follicular helper cells (Tfh, expressing CXCL13 and PDCD1), but also diverse CD8+ subsets, such as NK cells (NCAM1), resident memory CD8+ T cells (Trm , CD8A, and ZNF683), effector CD8+ T cells (GZMA and GZMK), and cytotoxic CD8+ T cells (GNLY, PRF1), as well as B cells (CD79A; Figure S3C). The myeloid compartment exhibited a high diversity of cell states, including neutrophils (FCGR3B), mast cells (CPA3), alveolar macrophages (FABP4), dendritic cells (DCs; FSCN1), and plasmacytoid DCs (pDC; TCF4) as well as a large diversity of monocytes (FCN1) and monocyte-derived macrophages (SPP1) sub-populations (Figure S3D). |
