Additional file 1: of Metagenomic analysis of bile salt biotransformation in the human gut microbiome

Table S1. List of query proteins and their basic description used as reference sequences to identify bile acid metabolic proteins (sourced from UniProt). Table S2. Optimal cut-off parameters chosen to filter the significant sequence hits were determined based on the distribution of BLAST pairwise percentage identity, e-value and query and target coverage. Table S3. List of query proteins with the description of their Pfam domain. Table S4. Optimal cut-off parameters chosen for the construction of protein sequence-based similarity network were determined based on the distribution of BLAST pairwise percentage identity and e-value values. Figure S1. Schematic representation of a generalized bile salt biotransformation pathway. Enzymatic proteins that were studied have been highlighted in red color. Figure S2. The normalized abundance of total BSBGs in healthy individuals sampled from the USA, Denmark, and Spain. The Y-axis of the boxplot refers to the normalized abundance, whereas the X-axis refers to the country of these healthy control groups. The shape refers to the kernel probability density of the data at different values. The asterisks on the top indicate ns: p > 0.05, *: p < = 0.05, **: p < = 0.01, ***: p < = 0.001, ****: p < = 0.0001 (Mann-Whitney Wilcoxon test). Figure S3. The normalized abundance of taxonomic-lineage specific BSBGs in healthy and IBD subjects sampled from Spain. The Y-axis of the violin plot refers to the normalized abundance, whereas the X-axis refers to the diagnosis. The shape refers to the kernel probability density of the data at different values. The pointrange refers to the mean and error range value of the data distribution. The asterisks on the top indicate ns: p > 0.05, *: p < = 0.05, **: p < = 0.01, ***: p < = 0.001, ****: p < = 0.0001 (Mann-Whitney Wilcoxon test). (DOCX 413 kb)