Additional file 1: of Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease

Table S1. Bile acid deconjugation and transformation genes identified in the 693 analyzed genomes. Table S2. Description of the bile acid metabolism subsystem reconstructed for AGORA: a) metabolites, b) reactions. Table S3. Constraints implemented to simulate the Average European (AE) diet supplemented with taurocholate, glycocholate, taurochenodeoxycholate, and glycochenodeoxycholate. Table S4. Bile acid production potential for each of the 232 AGORA models carrying bile acid reactions. Table S5. Secondary bile acids produced in pairwise AGORA models that could not be produced individually by either model. Table S6. Bile acid production potential (mmol × person-1 × day-1) predicted for the community models representing 194 human microbiomes. Table S7. Features that significantly differed between 15 pediatric Crohn's Disease patients and 25 healthy controls. Table S9. Correlations between total community bile acid production (mmol × person-1 × day-1) and total community reaction abundance across all 194 community models. Table S10. Shadow prices in the flux balance solutions when optimizing for secondary bile acid production in all community models. Shown are metabolites that had a nonzero shadow price in at least one model. Table S11. Description of newly reconstructed strains in this study as an update to the AGORA resource. (XLSX 2194 kb)