Figure 4.

Most important discriminating gene families of the gut microbiome at the time of exposure to Vibrio cholerae identified in the 2018 data set from Midani et al [15], classified by clinical outcome. A, Genes families associated with contacts who became infected (red) or remained uninfected (black) during follow-up. B, Genes families associated with contacts who remained uninfected (black), or became infected asymptomatic (green) or symptomatic (red) during follow-up. The top 25 most important features for discriminating between classes in the random forest model are shown here; see Supplementary Table 8 for the full list. Yellow lines connect species associated with uninfected individuals in both A and B. Asterisks indicate genes involved in redox or iron metabolism. All PF gene name abbreviations can be found in the Pfam database at https://pfam.xfam.org/.