Figure 6.
Metagenome shotgun sequencing verified abundant orthologs in the healthy group
(A) Volcano plot showing the specific orthologs whose abundance was significantly different between the healthy and the MCI group (Wilcoxon rank-sum test). Orthologs found only in specific strains or orthologs that contained KOs found only in specific strains were defined as “specific orthologs.” The x axis shows the log2 of the median abundance in the MCI group over the median abundance in the healthy group. The y axis shows the –log10 of the p value analyzed by the Wilcoxon rank-sum test. The red horizontal line indicates p = 0.05. The size of the circles shows the median abundance of each ortholog. Colored circles show the category (black, shared only by Fp14 and Fp360; green, only Fp14; magenta, only Fp360).
(B) Boxplots showing the IQR of the abundance of the specific orthologs. Eight specific orthologs whose abundance was significantly higher in the healthy group than in the MCI group are shown (Wilcoxon rank-sum test, ∗p < 0.05). Colored circles show the category (black, shared only by Fp14 and Fp360; green, only Fp14; magenta, only Fp360). These significant results were obtained when we used specific orthologs categorized by Orthofinder, and the same significant results were also observed when we used specific orthologs categorized by Roary (Table S6), except OG0000222. OG0000222 categorized by Orthofinder was significantly higher in the healthy group, but the ortholog that was categorized by Roary, which contained the same genes of Fp360 in OG0000222, was not significantly higher in the healthy group.