Fig. 5: Groupwise and individual prediction of EAE based on microbiota characteristics.
From: Gut microbial factors predict disease severity in a mouse model of multiple sclerosis
a, Heat map of EAE disease course of all tested colonization–diet combinations. b, Horizontal barplots summarizing EAE-associated readouts of all tested colonization–diet combinations. c, Cluster dendrogram of scaled group means of EAE-associated readouts based on a Euclidian distance matrix. Group phenotypes (moderate, intermediate and severe) classified according to the three clusters. d, Variance explained by diet or SM when comparing EAE-associated readouts among all colonization–diet combinations (n = 65) using η2 calculation. e, Individual-level EAE phenotype classification by t-SNE analysis (perplexity of 20 with 6 initial dimensions) of EAE-associated readouts across all tested colonization–diet combinations. f, Proportion of mice in Cluster 1 (strong EAE symptoms) per SM–diet combination, with groupwise EAE phenotype classification indicated at the bottom. g, Colour codes and abbreviations of SM14 constituents. h, Pearson correlation between strain relative abundance before EAE induction and EAE-associated readouts for mice fed both diets. AUC–strain correlations as barplots; Max–strain and RelM–strain correlations as colour-coded squares. Significant correlations (P < 0.05) by linear regression in colour; non-significant correlations in grey. Correlations calculated for four different SM combinations: SM13 only; SM14 only; SM13 and SM14; and SM12, SM13 and SM14. i, Variance of EAE-associated readouts explained by strain relative abundance before EAE induction, performed by combining SM12-, SM13- and SM14-colonized mice irrespective of diet (n = 40). j, Linear mixed model regression for predicted AUC, with strain presence as an independent variable and SM as a random intercept effect (n = 40). k, Variance in ICI explained by high- (SM12, SM13, SM14) versus low- (SM03, SM04) diversity background microbiota compositions in two strains providing the highest explained variance using η2 calculation. l, Individual-based Pearson (top) and Spearman (bottom) correlations of key EAE-associated readouts with ICIs of SM14-constituent strains in SM12-, SM13- and SM14-colonized mice (n = 12) before EAE induction. *P < 0.05 by linear regression. MF strain absent due to lack of data. m, Correlation of B. ovatus ICI with AUC (left) and maximum EAE score (Max, right) by linear regression in all mice harbouring B. ovatus, irrespective of the background microbiota. Dashed line represents linear regression, with the confidence interval shaded in grey.
