Figure 5.

Transcriptomic analysis by scRNA-seq of HSPCs subsets during the PCA2 infection and in response to a secondary infection. (A) Lin^– c-Kit⁺ cells were isolated from the bone marrow of non-infected mice (BMd0), bone marrow of 24 h (BM24h) and bone marrow and spleen of 7-day (BMd7 and SPd7, respectively) PCA2-infected mice, or from the bone marrow or the spleen 24 h after a secondary infection with the ATCC 26555 strain (BMd8 and SPd8, respectively). (B) UMAP projection of jointly-analyzed HSPC subsets, defined using prior established reference cell populations in the software cellHarmony. (C) GO terms significantly upregulated in HSPCs subsets. (D) Violin plots of indicated genes in each HSPC subset. Statistical significance was assessed by the Wicoxon signed-rank test as implemented in the ggpubr R package (*P < 0.05, **P < 0.01, ***P < 0.001, and ****P < 0.0001). n.a., not analyzed. See also Supplementary Figure 4 .