Fig. 2

CRISPR spacers shared between samples and individuals. Proportion of shared spacers between samples or individuals were compared and used to construct the connection network between individuals. a Boxplot indicating proportion of spacers shared between samples from the same individuals, different individuals in the same households, and individuals from different households. The colors indicate whether the samples are from the same households (purple) or different households (orange). b Density plot and boxplot for proportion of spacers shared at the individual level within and between households. The black line on the density plot indicates the cutoff where there is the same number of comparisons within and between households. c The connection network was generated based on the proportion of shared spacers between individuals for the data above the cutoff in (b). The nodes represent individuals, and the edges represent proportion of shared spacers. Same color nodes indicate individuals come from the same household, and the numbers on the nodes represent the subnetwork they were partitioned into. d The barplots show the shared bacteria between individuals, normalized by the number of connections, and whether the individuals were from the same or different households