Supplemental Table 5: Bacterial-bacterial correlations in standard-chow mice source target correlation pvalue qvalue Bacteroides Parabacteroides 0.9 0.000943063 0.146487566 Bacteroides Streptococcus 0.872081599 0.002170292 0.215440754 Bacteroides Uncl. ASSO-13 -0.866025404 0.002535997 0.229301316 Parabacteroides Bacteroides 0.9 0.000943063 0.146487566 Parabacteroides Pseudomonas 0.879092163 0.001794488 0.184973317 Uncl. Rikenellaceae Staphylococcus -0.866025404 0.002535997 0.229301316 Alistipes Clostridium 2 0.85589059 0.003239596 0.245367849 Uncl. S24-7 Odoribacter -0.916666667 0.000506619 0.105775841 Uncl. S24-7 Uncl. Clostridiales -0.883333333 0.001590501 0.184593047 Odoribacter Uncl. S24-7 -0.916666667 0.000506619 0.105775841 Odoribacter Uncl. Clostridiales 0.883333333 0.001590501 0.184593047 Uncl. Streptophyta Lachnobacterium -0.875595036 0.001975777 0.197815085 Uncl. Streptophyta Clostridium 2 0.884662907 0.001530019 0.184593047 Uncl. Streptophyta Uncl. RF32 0.863374014 0.002708697 0.237550733 Mucispirillum Sutterella -0.895405327 0.001098525 0.146487566 Mucispirillum Flexispira 0.894522731 0.001130305 0.146487566 Mucispirillum Helicobacter 0.92051015 0.0004311 0.103677278 Staphylococcus Uncl. Rikenellaceae -0.866025404 0.002535997 0.229301316 Streptococcus Bacteroides 0.872081599 0.002170292 0.215440754 Turicibacter Uncl. Helicobacteraceae -0.921939812 0.000405147 0.098450692 Turicibacter Akkermansia 0.895405327 0.001098525 0.146487566 Uncl. Clostridiales Uncl. S24-7 -0.883333333 0.001590501 0.184593047 Uncl. Clostridiales Odoribacter 0.883333333 0.001590501 0.184593047 Uncl. Clostridiales Sutterella -0.866666667 0.002495398 0.22918362 Uncl. Clostridiales Uncl. Helicobacteraceae 0.909346642 0.000675258 0.126019322 Uncl. Clostridiales Flexispira 0.974824336 8.13E-06 0.005421297 Uncl. Clostridiales Helicobacter 0.883333333 0.001590501 0.184593047 Uncl. Clostridiales Akkermansia -0.866666667 0.002495398 0.22918362 Uncl. Clostridiaceae Sarcina 0.939858145 0.000165571 0.065465191 Clostridium 1 Clostridium 2 0.887148288 0.001421276 0.180795077 Sarcina Uncl. Clostridiaceae 0.939858145 0.000165571 0.065465191 Uncl. Lachnospiraceae Uncl. Ruminococcaceae 0.866666667 0.002495398 0.22918362 Coprococcus Dorea 0.866666667 0.002495398 0.22918362 Dorea Coprococcus 0.866666667 0.002495398 0.22918362 Lachnobacterium Uncl. Streptophyta -0.875595036 0.001975777 0.197815085 Uncl. Ruminococcaceae Uncl. Lachnospiraceae 0.866666667 0.002495398 0.22918362 Clostridium 2 Alistipes 0.85589059 0.003239596 0.245367849 Clostridium 2 Uncl. Streptophyta 0.884662907 0.001530019 0.184593047 Clostridium 2 Clostridium 1 0.887148288 0.001421276 0.180795077 Coprobacillus Calycanthus 0.882352941 0.001636145 0.184973317 Uncl. RF32 Uncl. Streptophyta 0.863374014 0.002708697 0.237550733 Calycanthus Coprobacillus 0.882352941 0.001636145 0.184973317 Uncl. ASSO-13 Bacteroides -0.866025404 0.002535997 0.229301316 Sutterella Mucispirillum -0.895405327 0.001098525 0.146487566 Sutterella Uncl. Clostridiales -0.866666667 0.002495398 0.22918362 Sutterella Flexispira -0.873980439 0.002063597 0.205724697 Sutterella Helicobacter -0.933333333 0.0002359 0.072408812 Uncl. Helicobacteraceae Turicibacter -0.921939812 0.000405147 0.098450692 Uncl. Helicobacteraceae Uncl. Clostridiales 0.909346642 0.000675258 0.126019322 Uncl. Helicobacteraceae Flexispira 0.961108118 3.68E-05 0.020921912 Uncl. Helicobacteraceae Akkermansia -0.900602924 0.000923872 0.146487566 Flexispira Mucispirillum 0.894522731 0.001130305 0.146487566 Flexispira Uncl. Clostridiales 0.974824336 8.13E-06 0.005421297 Flexispira Sutterella -0.873980439 0.002063597 0.205724697 Flexispira Uncl. Helicobacteraceae 0.961108118 3.68E-05 0.020921912 Flexispira Helicobacter 0.924402387 0.000363041 0.096238803 Flexispira Akkermansia -0.890787755 0.001271889 0.163025372 Helicobacter Mucispirillum 0.92051015 0.0004311 0.103677278 Helicobacter Uncl. Clostridiales 0.883333333 0.001590501 0.184593047 Helicobacter Sutterella -0.933333333 0.0002359 0.072408812 Helicobacter Flexispira 0.924402387 0.000363041 0.096238803 Pseudomonas Parabacteroides 0.879092163 0.001794488 0.184973317 Akkermansia Turicibacter 0.895405327 0.001098525 0.146487566 Akkermansia Uncl. Clostridiales -0.866666667 0.002495398 0.22918362 Akkermansia Uncl. Helicobacteraceae -0.900602924 0.000923872 0.146487566 Akkermansia Flexispira -0.890787755 0.001271889 0.163025372