Additional file 2 of Cataloging the phylogenetic diversity of human bladder bacterial isolates

Additional file 2: Table S1. Metadata for bladder-specific isolated genomes and hosts information. Table S2. Relative abundances of different genera in 16S sequencing samples. Table S3. Relative abundances (100%) of different GTDB-classified bacterial taxonomy in 34 metagenomics sequencing samples. Table S4. List of GTDB classified species isolated from gut, vaginal, and bladder samples. A single genome was selected for each species from the gut, vaginal, and bladder strains. Table S5. KEGG functions of bladder, gut, and vaginal genomes. Table S6. COG20 functions of bladder, gut, and vaginal genomes. Table S7. Statistical analyses of KO modules in bladder, vaginal, and gut genomes. KO module enrichment table was generated using anvi’o v7. Table S8. Statistical analyses of KOfam hits in bladder, vaginal, and gut genomes. KOfam enrichment table was generated using anvi’o v7. Table S9. Statistical analyses of COG20 functions in bladder, vaginal, and gut genomes. COG20 function enrichment table was generated using anvi’o v7. Table S10. Phylogroup distribution of bladder and gut E. coli strains. Table S11. KOfam profiles of bladder E. coli strains. Table S12. KOfam profiles of gut E. coli strains. Table S13. Differentially abundant KOfam profiles between bladder and gut E. coli isolates by Wilcoxon rank sum test. Table S14. Virulence factor genes identified in bladder E. coli isolate assemblies. Number listed is number of copies of the gene. Table S15. Antibiotic resistance genes identified in bladder E. coli isolate assemblies. Number listed is number of copies of the gene. Table S16. Virulence factor genes identified in gut E. coli isolate assemblies. Number listed is number of copies of the gene. Table S17. Antibiotic resistance genes identified in gut E. coli isolate assemblies. Number listed is number of copies of the gene. Table S18. Differentially abundant virulence and antibiotic resistance genes between bladder and gut E. coli isolates by Wilcoxon rank sum test.