Fig. 6: Characterisation of BAL cell at D2 or D7 post-aerosol inhalation using single cell RNA sequencing.

A UMAP (Uniform manifold approximation and projection) plot showing the identity of each cell cluster. Distribution of cells by group. NK cell, γδ T cell, plasmacytoid DC (pDC), conventional DC (cDC), Migratory DC (McDc), Cilliated bronchial epithelial cell (CIBE), Secretory bronchial epithelial cell (ScBE), T regulatory cell (Treg), Proliferating cells (Prl), unidentified cell type (Unk), terminally differentiated effector memory cells re-expressing CD45RA-like CD8 + T cell (EMRA CD8), Naïve (Nv), Cytotoxic-like (Ctx), non-resident Macrophage (nrMo), Macrophage (Mo), Activated macrophage (AcMo). Source data are provided as a Source Data file. B Enriched blood transcriptomic modules (BTMs; red, enrichment of upregulated genes; blue, enrichment of downregulated genes) of differentially expressed genes (DEGs) were shown for each cell type on D2 and D7. The differential gene expression analysis was between BCG (D2 or D7) and Saline. One-sided (upper tail) hypergeometric test adjusted by Benjamini-Hochberg multiple testing correction was used to test the enrichment of each gene set. Source data are provided as a Source Data file. C The T1-T17 subpopulation 1 score, subpopulation 2 score, PPD-response score in T and NK cell populations following aerosol saline or BCG challenge. Two-sided Dunn’s test adjusted by Benjamini-Hochberg multiple testing correction was used to compare the score of each cell type at time points post-aerosolised BCG challenge to that in saline controls. Bars show medians with interquartile ranges (IQR). The upper whisker extends to the largest value no further than 1.5 × IQR from the hinge. The lower whisker extends from the hinge to the smallest value at most 1.5 × IQR from the hinge. N = 6, 3, 3 biologically independent samples for Saline, D2 BCG, D7 BCG, respectively. Source data are provided as a Source Data file.