Extended Data Fig. 10: Evaluation of species-specific IgA coating indices as individual disease course predictors in mice with complex microbiotas.
From: Gut microbial factors predict disease severity in a mouse model of multiple sclerosis
a–c, Separation efficiency for IgA-coated (IgA+) and non-IgA-coated (IgA−) bacteria in faeces collected on the day of EAE induction (‘pre-EAE’). a, IgA+ and IgA− fractions obtained from the same faecal sample were stained with a FITC-coupled anti-mouse IgA antibody and mean fluorescence intensity (MFI) was determined by flow cytometry. Unpaired t-test. Boxplots show median, quartiles, and 1.5 × interquartile range. b, β-Diversity of the microbiota composition of three distinct samples (IgA+, IgA−, and unsorted) from a Bray–Curtis distance matrix obtained from arcsine square root transformed relative abundance data on a species level, determined by full-length 16S rRNA gene sequencing. Compositions of unsorted fractions are shown in Extended Data Fig. 9a. Samples of insufficient depth (n = 3) were excluded. c, β-Diversity of IgA+ and IgA− fractions from a re-calculated Bray–Curtis distance matrix, after removal of unsorted samples from the analysis. Dashed lines connect IgA+ and IgA− fractions from the same sample. PERMANOVA using the post-separation fraction as tested variable based on the re-calculated Bray–Curtis distance matrix. d, Individual Pearson and Spearman correlation of key EAE associated readouts (AUC, Max) with pre-EAE ICIs of species which provided at least one significant correlation. Significant correlations are shown in shades of blue or red. ns, non-significant correlation. See Methods for details on ICI calculation. e, Left, Pearson correlation of Enterocloster bolteae ICI with AUC (upper panel) and Max (lower panel) by linear regression. Right, binomial regression model to predict probability of severe disease, as defined in panel f, based on AUC (top) or Max (bottom) using E. bolteae ICI. Only those mice are shown where E. bolteae was detectable in both fractions after sorting (n = 8). Dots were jittered in case of overlap (upper left panel). f, Prevalence of SM14 species in unsorted samples at the day of EAE induction. Species were considered present when relative abundance was > 0.01%. For species abbreviations and colour coding, see Fig. 5g. g, Pearson correlation of Akkermansia muciniphila ICI with AUC (top) and Max (bottom) by linear regression.
