Extended Data Fig. 5: Localized changes in BCD between luminal and mucosal contents.
From: Time of sample collection is critical for the replicability of microbiome analyses
A) Experimental design and sample collection for a local site study. Small intestinal samples were collected every 4 hours for 24 hours (N = 4–5 mice/condition, skipping ZT8). Mice were fed ad libitum on the same diet (NCD) for 4 weeks before samples were taken. B) BCD for luminal vs mucosal conditions (N = 4–5 mice/condition). The dotted line is the average of all shown weighted UniFrac distances. Significance is determined using the Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction. C) Heatmap of mean BCD distances comparing luminal and mucosal by time point (N = 4–5 mice/condition). Highest value highlighted in navy, lowest value highlighted in gold. Boxplot centre line indicates median, edges of boxes are quartiles, error bars are min and max values. Significance was determined using a paired Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction. Notation: * = p < 0.05; ** = p < 0.01; *** = p < 0.001, **** = p < 0.00001. D) Experimentally relevant log ratio, highlighting the changes seen at ZT20 (N = 4–5 mice/condition). Boxplot center line indicates median, edges of boxes are quartiles, error bars are min and max values. Significance was determined using a paired Mann-Whitney-Wilcoxon test two-sided with Bonferroni correction. Notation: * = p < 0.05; ** = p < 0.01; *** = p < 0.001, **** = p < 0.00001.
