Supplementary Figure 9: Principal coordinates analyses at the gene and KO levels.

Principal coordinates analyses (PCoA) of gene and KO profiles in individual mouse samples in relation to (a) provider (b) housing laboratory (c), strain (d), diet and (e), gender. The mice samples in different subgroups (see supplementary table S1) were used to illustrate the influence of these confounding factors on the mouse gut microbiome at the levels of genes and function. Consistent with the results of a PERMANOVA test, all of these factors, provider, housing laboratory, strain, diet and gender, impact markedly on the mice gut microbiome at both gene and KO levels.