Principal components analysis of fecal microbiomes.

<p>PCA was carried out on genus-level microbiome datasets, as described in the text. PC1, PC2, and PC3 accounted for 35.3%, 26.8%, and 15.7% of the total variance in the dataset (77.8% cumulative proportion). Microbiomes from individual fecal samples, color-coded by genotype and diet, are plotted along the first three PC axes in Panels A, C, and D. Panel B displays the same plot as Panel A, but with arrows connecting pairs of samples from the same animals on different diets. Panel E displays a heat-map color-coding Spearman correlation coefficients between PC scores and the abundances of prevalent OTUs (abundances >1%) in fecal samples. OTU names are prefixed by letters indicating phyla classifications of the OTUs: A: Actinobacteria, B: Bacteroidetes, F: Firmicutes, P: Proteobacteria; T: TM7. Asterisks depict p-values for correlations: *: p<0.1; **: p<0.05; ***p<0.001. Blue shading indicates positive correlations, while red shading indicates negative correlations. OTUs that could not be classified to the genus level are labeled by adding “other” to the higher-order taxonomic assignment.