Figure 4

Comparison of 16S rDNA UniFrac and CBD using humanized mouse GIT microbiota[43]. CBD analyses using V2 16S rDNA sequences were consistent with the UniFrac analyses [43]. (a or b) UniFrac-based principal component plots (PCoA) reproduced based on previously published analysis and CBD-based multidimensional scaling analysis (MDS) showed clustering of microbiotas by diet. The microbiotas were collected from mice transferred fresh human feces on first day after diet switch. (c or d or e or f) UniFrac-based PCoA reproduced based on previously published analysis and CBD-based MDS revealed that mice fed low-fat diet but with microbiota from humanized mice fed high-fat diet and mice fed high-fat diet but with microbiota from humanized mice fed low-fat diet showed intermediate clustering on day 1 while clustered in accordance with recipient diet on day 7. (g or h) UniFrac-based PCoA reproduced based on previously published analysis and CBD-based MDS showed clustering of microbiotas by diet. The microbiotas were collected from mice transferred frozen human feces on first day after diet switch. The UniFrac distance matrix, which was used to produce Figure 4a, 4c, 4e, and 4g, was generated by QIIME with default parameters (except using cd-hit for OTUs picking) from V2 16S rDNA sequences downloaded from Turnbaugh et al.[43]. In Figure 4a, 4b, 4g, and 4h, blue diamonds and red squares indicate samples collected from mice fed low-fat and high-fat diet, respectively. In Figure 4c and 4d, blue diamonds indicate samples collected from low-fat donor and low-fat recipient on first day; red squares indicate samples collected from high-fat donor and low-fat recipient on first day; green triangles indicate samples collected from low-fat donor and high-fat recipient on first day; purple circles indicate samples collected from high-fat donor and high-fat recipient on first day. In Figure 4e and 4f, corresponding hollow patterns represent samples collected on day 7.