Extended Data Fig. 1: Bacteria and drug selection.
From: Bioaccumulation of therapeutic drugs by human gut bacteria
a, Distribution of the selected 25 bacterial strains by their phylogenetic class, and their cumulative metabolic diversity measured as the coverage of annotated enzymes as per the KEGG database64. b, We started with approximately 1,000 annotated drugs from the SIDER side effect database (Kuhn et al. 2016), which were filtered for their gut related side effects. Drug selection was enriched from another database (Saad et al. 2012) for known or suspected interactions with the gut microbiome, before filtered for oral administration and manually curated for overall interest. Final selection was filtered for availability from vendors and establishment of UPLC methods. c, The drugs used in this study span a broad range of structural diversity. Shown is the spread of the selected drugs in a principle coordinate analysis, covering >2,000 drugs from the DrugBank database. Maximum common sub-structure was used to calculate the distances between drug pairs. d, Selected drugs cover several therapeutic classes / indication areas. e, Chemical structures of the 15 drugs used in this study.
