TABLE S6

Information for pangenome analyses of <em>Bifidobacterium</em> species used in this study. <strong>A</strong>) 107 published <em>B. breve </em>genomes used in the analyses; <strong>B</strong>) 310 published genomes <em>B. longum</em> genomes used in the analyses; <strong>C</strong>) homologous gene clusters (HGCs) of <em>B. breve</em> generated in metapangenome analyses using 26 <em>in-house</em> MAGs and 107 published genomes; <strong>D</strong>) HGCs of <em>B. longum</em> generated using 26 <em>in-house</em> MAGs and 107 published genomes; <strong>E</strong>) statistics of metapangenome analyses of <em>B. breve </em>and <em>B. longum</em> genomes; <strong>F</strong>) strains-specific HGCs that was only observed in <em>B. breve </em>in this cohort; <strong>G</strong>) enriched<em> B. breve </em>HGCs; <strong>H</strong>) COG functions in <em>B. breve</em> genomes enriched in this study comparing the other genomes of genBank; <strong>I</strong>) PFAM functions in <em>B. breve</em> genomes enriched in this study comparing the other genomes of genBank; <strong>J</strong>) ANI (Average Nucleotide Identity) score of the <em>B. breve</em> genomes used in this study.