Extended Data Fig. 6: Altered metabolism profile in LTi-like ILC3s lacking RORγt and RORα.

a Relative expression (z-score) of key genes associated with LTi-like ILC3 identification and function in clusters 2-4 (LTi-like supercluster) versus clusters 5 (NCR⁺ ILC3) and 9 (ILC1-like cells enriched in Id2^{iΔRORγt/RORα} mice). b Representative expression of CCR6, c-Kit and NRP1 by NCR^- ILC3s, identified as tdRFP⁺KLRG1^-NKp46^- cells from SILP of Id2^creERT2, Id2^iΔRORγt and Id2^{iΔRORγt/RORα} mice, grey shaded histograms show expression by NCR⁺ ILC3s as a control. c Representative contour plots showing expression of MHCII by NCR^- ILC3s from the SILP of Id2^creERT2, Id2^iΔRORγt and Id2^{iΔRORγt/RORα} mice. d Heatmap (z-score) of differentially expressed genes identified via a three way comparison of LTi-like ILC3 cells (clusters 2-4 combined) derived from Id2^creERT2, Id2^iΔRORγt and Id2^{iΔRORγt/RORα} mice and selected on the basis of a mean expression ≥0.1 fpkm, False Discovery Rate ≤0.001 and Fold Change in cluster average Z-score > +/− 0.4 . e Relative expression (z-score) of selected metabolism associated genes in total LTi-like ILC3 cells (cluster 2-4 combined) derived from Id2^creERT2, Id2^iΔRORγt and Id2^{iΔRORγt/RORα} mice. f Representative protein expression of ARG1 in tdRFP⁺ LTi-like ILC3s from SILP of Id2^creERT2, Id2^iΔRORγt and Id2^{iΔRORγt/RORα} mice. g Enumeration of % ARG1⁺ LTi-like ILCs and of the mean fluorescence intensity (MFI) of ARG1 expression assessed in ‘f’ (Id2^cre: n=3; Id2^iΔRORγt: n=3; Id2^{iΔRORγt/RORα}: n=2. Data from one representative experiment out of two independent experiments). Each data point on the graph is a mouse, horizontal bars denote the median. Statistical significance was tested using an ordinary one-way ANOVA with Tukey’s test for multiple comparisons. ns = not significant, *P ≤ 0.05, **P ≤ 0.01, ***P ≤ 0.001, ****P ≤ 0.0001. Exact P values are provided in the source data.

Source data