Fig. 3

The diarrhoea-associated microbiome and resistome. A Redundancy analysis (RDA) showing the species most strongly separating case and control samples in diarrhoea studies (on axis RDA1). Each label represents a single sample, ellipses represent 95% confidence level, and arrows indicate taxa driving the sample separation; samples in the direction the arrow is pointing have a higher abundance of the taxon. Species relative abundance input data were transformed by log(1000 × abundance + 1), and the study was used as RDA covariate. B RDA on the summed abundance of all ARGs per ResFinder (conferred) resistance phenotype. C Boxplots of the main ResFinder ARG phenotypes separating case samples on the RDA axis, excluding disinfectant resistance genes. Corresponding analysis at the ARG level is shown in Fig. S5