Additional file 4: of Impaired glucose metabolism and altered gut microbiome despite calorie restriction of ob/ob mice

Table S1. Detailed information on when fresh fecal samples and cecum content were collected. Table S2. Associations between individual metabolic phenotypes and microbial alpha diversity measures using linear mixed models. Table S3. Testing for differences in the Shannon diversity index, observed ASVs, and Firmicutes to Bacteroidetes ratio between the groups during each week. FDR-adjusted p-values from Wilcoxon rank-sum test are reported. Table S4. Testing for differences in PC1 between groups during each week. FDR-adjusted p-values from Wilcoxon rank-sum test are reported. Table S5a-c. ASVs that are differentially abundant in pairwise comparisons of groups, consistently during W6-W9. Both p-values and Holm's sequential rejection-based adjusted p-values are reported. ASVs re-annotated with iMGMC are marked in the last column "Altered taxonomy". Table S6a-f. KEGG pathways (a-c) and orthologous groups (d-f) that are differentially abundant in pairwise comparisons of groups, consistently during W6-W9. Both p-values and Holm's sequential rejection-based adjusted p-values are reported. Table S7a-b. Spearman rank correlations between microbial taxa and one-time metabolic measurements, estimated separately for the groups. Taxa with at least one correlation with FDR-adjusted P < 0.05 or absolute value of Spearman's rho over 0.4 are reported. Table S7c-e. Correlations between microbial taxa and body weight (c), lean body mass (d) and fat mass (e) measured multiple times. Linear mixed models were estimated separately for the groups. Taxa with at least one correlation with FDR-adjusted P < 0.05 are reported. Table S8a-c. ASVs that are differentially abundant in pairwise comparisons of groups during each week, tested using DESeq2. Both unadjusted and adjusted p-values from DESeq2 are reported. Table S9. Tukey's multiple comparison test results for pairwise comparisons of blood glucose levels during an oral glucose tolerance test in the three groups. (XLSX 174 kb)