Extended Data Fig. 9: Interferon response and viral control in SARS-CoV-2-infected mice.

a, Normalized gene expression (log₂) in Bulk RNASeq lung samples infected with 1.1 10⁵ PFU of SARS-CoV-2. Data (mean +/− s.e.m.) shown are from n = 3 at 0 and 1, 5 at 2 and 4 and 2 at 6 days p.i. b, ISG expression in uninfected or SARS-CoV-2-infected mice by RT-qPCR. The data (mean + s.e.m.) from two independent experiments (n = 1 for all strains and genders, except 0 for male K18:hACE at 0; 5F and 5M K18:hACE and K18:hACExpDC-less, 3F and 3M K18:hACExIfnar1^KO and 2F and 3M Ifnar1^KO at 2; 4F and 3M K18:hACE, 3F and 4M K18:hACExpDC-less, 2F and 3M K18:hACExIfnar1^KO and 2F and 1M Ifnar1^KO at 5 days p.i. c, d, % of pDCs (c) and absolute pDC numbers (d) in indicated mice during infection. n = 7F and 2M K18:hACE, 5F and 2M K18:hACExTlr7^KO at 0; 5F and 5M K18:hACE, 6F and 5M K18:hACExTlr7^KO at 2; 6 per strain and gender at 4 days p.i. e, SARS-CoV-2 viral burdens were measured by RT-qPCR as genome equivalent of RdRp protein/ng of total lung RNA. Each dot represents viral burden/individual, bars represent median +/− s.e.m. In e, 5F and 2M for each strain at day 0; 5F and 5M K18:hACE, 7F and 5M K18:hACExpDC-less, 6F and 5M K18:hACExTlr7^KO at day 2; 6F and 6M for each strain at day 4. f, Lung gene expression was analyzed by RT-qPCR and normalized to Actin. n = 7F and 2M K18:hACE, 5F and 2M K18:hACExpDC-less, 5F and 2M K18:hACExTlr7^KO at 0; 5F and 5M K18:hACE, 7F and 5M K18:hACExpDC-less, 6F and 5M K18:hACExTlr7^KO at 2; 6 for each strain and gender at 4 p.i.). A nonparametric one-way ANOVA (Kruskal-Wallis test with Dunn’s post-hoc test) in a, b, e, f. A two-way ANOVA with Tukey’s multiple comparison test in c, d.

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