BATF deficiency in ILCs alters gut microbial composition. (A) Unweighted UniFrac PCoA of fecal microbiota composition of co-housed WT and littermate control cKO mice. PC1 and PC3, principal components 1 and 3, respectively. Each symbol represents an individual mouse, with the size indicating Shannon diversity. (B and C) Boxplot representation of richness (Shannon diversity index; B) and evenness (Pielou’s index; C) for microbiome composition. Boxes represent the interquartile range and the horizontal line inside the box is the median. Whiskers span the most extreme data points within 1.5× the interquartile range. Statistical significance was determined using the Kruskal–Wallis test or one-way ANOVA with post-hoc Tukey’s correction. q value < 0.05 was considered statistically significant. (D) Representation of relative abundances of specific bacteria at the family level in individual mice. (E–H) Plots showing relative abundances of selected bacterial families in individual mice. Data are shown as mean (solid black line) and standard deviation (dotted black line), each bar represents an individual mouse. (I and J) Cladograms displaying differences in taxa composition determined by microbiome profiling of mice as described in A. Samples were collected at the age of 3 wk (I) and 6 wk (J). Each dot represents one mouse, n = 5–6 mice per group. Data are pooled from two independent experiments.