Comparison_2Hamlet + Amoxicillin 2...1 Comparison_2Hamlet + Amoxicillin 2...2 Comparison_2Hamlet + Amoxicillin 2...3 Comparison_2Hamlet + Amoxicillin 2...4 Comparison_2Hamlet + Amoxicillin 2...5 Comparison_2Hamlet + Amoxicillin 2...6 1 Coefficients Standard Errors Test Statistics W p Values Adjusted p Values Differential Abundance Alistipes sp._MOT-127 (SP10) 3.83079822254369 1.46320839715061 2.61808108127566 0.00884257913552324 0.857730176145754 FALSE Turicimonas muris (SP11) 3.7676623674953 0.93955043582014 4.01006930959112 6.07009271967786e-05 0.00685920477323598 TRUE Bacteroides acidofaciens (SP19) 0.368999508597134 1.77696408239842 0.207657269076077 0 0 TRUE Bacteroides caecimuris (SP2) 4.82288075746615 1.83935561870337 2.62204910699432 0.00874028361380123 0.85654779415252 FALSE Blautia caecimuris (SP20) 5.42877387057016 1.6084509368384 3.37515664683006 0 0 TRUE Prevotella sp._MOT-128 (SP22) -1.65415090781959 1.72895015888754 -0.956737184884447 0.338699924456619 1 FALSE Roseburia faecis (SP27) 0.0893592259140816 1.52878299633797 0.058451216508904 0 0 TRUE Flavonifractor plautii (SP28) 4.01450789437484 1.94505433817221 2.06395668007266 0.0390218239032123 1 FALSE Oscillospiraceae_[G-2] bacterium_MOT-149 (SP29) -1.55777979758448 1.33533641542158 -1.166582278139 0 0 TRUE Lachnospiraceae_[G-14] bacterium_MOT-183 (SP3) 0.0621125980820425 1.68319388021609 0.0369016301758823 0 0 TRUE Robinsoniella peoriensis (SP30) 4.07106269184001 1.86528894152569 2.1825373009021 0 0 TRUE Eubacteriales_[G-1] bacterium_MOT-158 (SP38) -1.912382737704 1.46514211681417 -1.30525408815789 0 0 TRUE Bacteroides stercorirosoris (SP4) -1.97561888608028 1.61888808816983 -1.2203554405751 0.222330161450781 1 FALSE Clostridium tertium (SP44) 3.8800358526692 1.93635631894634 2.00378195619518 0 0 TRUE Muribaculum intestinale (SP5) 6.30720300284183 1.95969545130528 3.21846080657116 0.00128880582777609 0.137902223572041 FALSE Lachnospiraceae_[G-14] bacterium_MOT-184 (SP6) -1.76650668165722 1.41176681580435 -1.25127369611019 0 0 TRUE Parabacteroides goldsteinii (SP8) 2.66182892917005 0.819458869702204 3.24827642678073 0.00116106413375118 0.125394926445128 FALSE Akkermansia muciniphila (SP9) -0.700407709363176 1.61184191774502 -0.43453871105614 0.663897290295346 1 FALSE Prevotellamassilia timonensis_nov_92.641% (SPN1) 3.59922135869506 1.20091582907374 2.9970638004423 0 0 TRUE Oscillospiraceae_[G-3] bacterium_MOT-150_nov_90.745% (SPN101) 0.293161658268691 1.36904545409566 0.214135810751691 0 0 TRUE Anaerotruncus rubiinfantis_nov_92.760% (SPN103) -0.031105989110475 2.09875512469337 -0.0148211617184352 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_91.991% (SPN104) -3.70264274558603 0.607994944735448 -6.08992357197498 0 0 TRUE Alistipes putredinis_nov_95.887% (SPN106) -2.0695668462211 1.53814491676825 -1.34549535850588 0 0 TRUE Oscillibacter valericigenes_nov_95.260% (SPN107) 0.33436631025775 1.33696673933544 0.250093215051821 0 0 TRUE Muribaculaceae_[G-1] bacterium_MOT-129_nov_91.522% (SPN110) 4.53442463679206 2.11711875924184 2.14179040122241 0.0322103521895475 1 FALSE Saccharofermentans acetigenes_nov_88.764% (SPN111) -0.0419177476948596 2.10747279236461 -0.019890054024293 0 0 TRUE Lacrimispora indolis_nov_90.724% (SPN112) -0.39897498369786 2.45962211950097 -0.162209869774146 0.871140587777435 1 FALSE Lawsonibacter asaccharolyticus_nov_97.973% (SPN114) 0.113334698426568 1.50991023617449 0.0750605537410711 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_90.870% (SPN116) 0.214161462943479 1.4307680463734 0.149682866825492 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_93.043% (SPN117) 4.19122218231779 2.33005367520434 1.79876636616546 0.0720556457804582 1 FALSE Alistipes putredinis_nov_95.879% (SPN119) -1.57598008681409 1.33427007730275 -1.18115523507801 0 0 TRUE Odoribacter splanchnicus_nov_93.939% (SPN120) 0.97864566608707 0.98541126712454 0.993134236167999 0 0 TRUE Oscillospiraceae_[G-2] bacterium_MOT-149_nov_95.506% (SPN121) -4.10608404603983 0.486586434289492 -8.43855018694773 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_90.022% (SPN127) 2.35468883576045 2.54350631577828 0.925764886508625 0.354568178880008 1 FALSE Faecalicatena orotica_nov_95.238% (SPN128) -2.11089076061298 1.55035024273692 -1.36155734518834 0 0 TRUE Prevotellamassilia timonensis_nov_94.168% (SPN13) -0.456003771382375 2.21909658695384 -0.205490727200988 0.837188742142733 1 FALSE Eisenbergiella massiliensis_nov_96.599% (SPN130) -3.3401609944073 0.557827331335077 -5.98780448138517 0 0 TRUE Neglectibacter timonensis_nov_97.500% (SPN131) -1.66002492101661 1.40467710901837 -1.18178399175073 0 0 TRUE Mailhella massiliensis_nov_92.094% (SPN132) -0.67537946437055 1.26893411210817 -0.532241554487408 0.594558705734965 1 FALSE Anaerotruncus rubiinfantis_nov_92.517% (SPN133) 2.04771696112719 1.8239905805444 1.12265764032401 0.261582924940725 1 FALSE Lachnospiraceae_[G-11] bacterium_MOT-176_nov_95.946% (SPN136) 3.94803020386091 1.47487637900387 2.67685499616409 0 0 TRUE Eubacterium coprostanoligenes_nov_95.701% (SPN137) 0.371441521961158 1.4415271663014 0.257672231675095 0 0 TRUE Oscillospiraceae_[G-2] bacterium_MOT-149_nov_95.056% (SPN14) -2.13102765901046 1.57989941576983 -1.34883755113745 0 0 TRUE Oscillospiraceae_[G-2] bacterium_MOT-149_nov_95.281% (SPN141) 0.46408348779663 1.36998766218324 0.338750122068294 0 0 TRUE Oscillospiraceae_[G-3] bacterium_MOT-150_nov_96.396% (SPN143) 0.448282741498435 1.38215542860475 0.324335984376926 0 0 TRUE Lachnospiraceae_[G-6] bacterium_MOT-171_nov_95.238% (SPN144) 0.181629122334973 2.61636875652029 0.0694203070122787 0.944655065252759 1 FALSE Muribaculaceae_[G-2] bacterium_MOT-104_nov_92.208% (SPN146) 2.06941068707486 2.2655943622147 0.913407413784317 0.361028307839577 1 FALSE Eubacteriales_[G-2] bacterium_MOT-162_nov_95.260% (SPN147) 0.287397825898671 1.50680332789352 0.190733469045657 0 0 TRUE Ruminococcus albus_nov_92.500% (SPN149) 0.396899181556016 1.42182221219782 0.279148249444281 0 0 TRUE Alistipes putredinis_nov_96.529% (SPN150) 1.5227992804386 0.585822204792642 2.59942226153344 0.00933808264784291 0.887117851545076 FALSE Rhodospirillum rubrum_nov_88.036% (SPN154) -2.44305292138922 0.508988277597646 -4.79982158512588 0 0 TRUE Anaerotignum lactatifermentans_nov_97.523% (SPN157) -0.679428585759402 1.40561509683236 -0.483367450513683 0 0 TRUE Phocea massiliensis_nov_95.682% (SPN158) -2.1463493048002 1.30918497442771 -1.63945458183894 0.101118622215953 1 FALSE Oscillospiraceae_[G-2] bacterium_MOT-149_nov_96.171% (SPN159) 3.88844470698442 1.42774919174018 2.72347883611481 0 0 TRUE Harryflintia acetispora_nov_96.388% (SPN16) 0.607428944076187 1.58623222767741 0.38293821893002 0 0 TRUE Lachnospiraceae_[G-6] bacterium_MOT-171_nov_96.606% (SPN161) 0.189131312491789 1.92140805718375 0.0984337042746677 0 0 TRUE Muribaculum intestinale_nov_93.737% (SPN162) -0.811328492148393 1.52067448906074 -0.533531993851965 0.593665370000491 1 FALSE Falcatimonas natans_nov_92.955% (SPN164) 3.59638446213909 1.19871067659872 3.00021058654759 0 0 TRUE Duncaniella freteri_nov_88.462% (SPN171) 0.922960971199348 0.893365396821607 1.03312818526779 0 0 TRUE Lachnoclostridium [Clostridium] populeti_nov_94.331% (SPN172) -4.84875413398767 0.574096135418691 -8.44589230765584 0 0 TRUE Lachnospiraceae_[G-14] bacterium_MOT-184_nov_95.227% (SPN173) 3.93487725828073 1.46446415934658 2.68690580999702 0 0 TRUE Anaerotruncus rubiinfantis_nov_93.182% (SPN175) 0.114466561426949 1.64204315908493 0.0697098372802444 0 0 TRUE Lachnospiraceae_[G-12] bacterium_MOT-179_nov_94.796% (SPN182) 0.208100689915749 1.43551431869748 0.144965945100827 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_92.873% (SPN183) 0.137950448410485 1.62361350781122 0.0849650780477033 0 0 TRUE Gracilibacter thermotolerans_nov_88.315% (SPN192) 2.20423546118621 1.55559201444568 1.41697529989679 0.156490149163607 1 FALSE Lachnospiraceae_[G-11] bacterium_MOT-176_nov_97.297% (SPN193) -0.345641503284181 2.3527227473555 -0.146911277018377 0 0 TRUE Oscillospiraceae_[G-2] bacterium_MOT-149_nov_93.919% (SPN195) 0.574304786138452 1.15214835821084 0.498464266381707 0 0 TRUE Oscillospiraceae_[G-2] bacterium_MOT-149_nov_95.291% (SPN197) 0.685562512689134 1.20122148457931 0.570721154666352 0 0 TRUE Acetatifactor muris_nov_92.551% (SPN2) -0.312070178083571 2.82479049800814 -0.110475512539292 0.912032269143913 1 FALSE Alistipes sp._MOT-127_nov_91.775% (SPN200) 3.29939348750914 0.971124820732185 3.39749681716666 0 0 TRUE Clostridiales_[F-1][G-1] bacterium_HMT_093_nov_86.323% (SPN202) -1.00596549354304 1.59347704427152 -0.631302155973594 0 0 TRUE Muribaculum intestinale_nov_92.688% (SPN212) 3.6609355030736 1.76093622411124 2.07897109102932 0 0 TRUE Algimonas porphyrae_nov_83.596% (SPN215) 0.191980332684609 1.4481455676082 0.132569775427818 0 0 TRUE Duncaniella freteri_nov_90.456% (SPN216) 1.86815359041754 2.19700712417153 0.850317493222514 0.395148593429796 1 FALSE Eubacteriales_[G-4] bacterium_MOT-164_nov_95.701% (SPN217) 0.345515621613597 1.32830137468453 0.260118394965642 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_93.261% (SPN222) 0.386481667054648 1.29651887468867 0.298091816941311 0 0 TRUE Eubacteriales_[G-4] bacterium_MOT-165_nov_95.918% (SPN225) 0.413162569612494 1.27586966287846 0.323828194707888 0 0 TRUE Lachnospiraceae_[G-9] bacterium_MOT-174_nov_96.136% (SPN226) -1.24727773253 1.21101201331177 -1.02994662218012 0 0 TRUE Parabacteroides goldsteinii_nov_93.074% (SPN27) 3.20349946335855 1.19227606081793 2.68687728340438 0 0 TRUE Saccharofermentans acetigenes_nov_88.739% (SPN3) 3.58478909011062 1.70015281104415 2.1085099332389 0 0 TRUE Roseburia faecis_nov_97.964% (SPN38) 0.229813790639403 1.55170892776138 0.148103672362671 0 0 TRUE Duncaniella freteri_nov_93.103% (SPN49) 5.06236995226755 2.29904862615221 2.20194122676742 0.0276694603349944 1 FALSE Muribaculaceae_[G-2] bacterium_MOT-104_nov_93.074% (SPN60) 1.37739721632175 1.94565745672936 0.7079340772744 0.478986196482268 1 FALSE Muribaculaceae_[G-2] bacterium_MOT-104_nov_92.441% (SPN63) 5.77141941168581 1.94929164861915 2.9607777860097 0 0 TRUE Lachnospiraceae_[G-2] bacterium_MOT-167_nov_97.968% (SPN7) 0.52421071845534 1.1904091169344 0.440361814268788 0 0 TRUE Lacrimispora xylanolytica_nov_97.285% (SPN72) -2.04611247314001 1.54362531693559 -1.32552404439826 0.184997399946509 1 FALSE Hydrogenoanaerobacterium saccharovorans_nov_93.636% (SPN74) 4.00863867118874 1.52291931513822 2.63220686174364 0 0 TRUE Culturomica massiliensis_nov_93.709% (SPN78) -1.0577028479641 1.20685706671366 -0.876411032537835 0 0 TRUE Kineothrix alysoides_nov_95.928% (SPN79) -2.66023445540325 1.86318722090811 -1.42778698004737 0.153353181496679 1 FALSE Gracilibacter thermotolerans_nov_87.668% (SPN8) 3.29939348750914 0.971124820732185 3.39749681716666 0 0 TRUE Lachnospiraceae_[G-10] bacterium_MOT-175_nov_96.372% (SPN80) -2.36965021617684 1.5309073443723 -1.54787304724078 0.12165286500783 1 FALSE Muribaculaceae_[G-2] bacterium_MOT-104_nov_92.191% (SPN82) -2.27595332432995 1.61364722020534 -1.41044045800812 0 0 TRUE Lachnospiraceae_[G-10] bacterium_MOT-175_nov_92.174% (SPN83) -0.386640522930702 1.90660852477144 -0.202789674916119 0 0 TRUE Lachnoclostridium pacaense_nov_96.825% (SPN84) -0.430298915668989 2.42118625265869 -0.177722352089386 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_89.462% (SPN85) -0.0145860921276544 1.74362860821011 -0.00836536637387907 0 0 TRUE Eubacterium coprostanoligenes_nov_95.485% (SPN86) -0.00758466787081069 1.60527972509308 -0.00472482630425727 0 0 TRUE Muribaculaceae_[G-2] bacterium_MOT-104_nov_91.974% (SPN87) -4.34589686037328 0.436572822011224 -9.95457490998271 0 0 TRUE Lachnospiraceae_[G-12] bacterium_MOT-179_nov_92.534% (SPN88) 1.55139683789981 2.54350542308686 0.609944379838201 0.541898652619239 1 FALSE Lachnospiraceae_[G-14] bacterium_MOT-184_nov_94.989% (SPN89) 0.0432751946609284 1.56511143397572 0.0276499127931103 0 0 TRUE Eisenbergiella tayi_nov_94.318% (SPN9) 0.544176765649029 1.17513576429825 0.463075656602104 0 0 TRUE Pseudoflavonifractor capillosus_nov_95.721% (SPN90) 0.29031507108598 2.33028976620251 0.124583249386656 0.9008534901217 1 FALSE Anaerotignum lactatifermentans_nov_95.270% (SPN91) -0.0838473241821056 1.79834083983061 -0.0466248234622773 0 0 TRUE Lachnospiraceae_[G-9] bacterium_MOT-174_nov_95.238% (SPN92) 0.190552778753942 1.92026500955324 0.0992325422824192 0 0 TRUE Alistipes timonensis_nov_97.831% (SPN94) -1.75573093677926 1.40444747163915 -1.25012218130887 0 0 TRUE Oscillospiraceae_[G-2] bacterium_MOT-149_nov_95.946% (SPN95) -1.68983543648952 1.40735412639595 -1.20071800323417 0.229860608132016 1 FALSE Oscillospiraceae_[G-4] bacterium_MOT-151_nov_91.723% (SPN98) 0.141620210246608 1.62073524219427 0.0873802250729565 0 0 TRUE Lachnospiraceae_[G-11] bacterium_MOT-177_nov_97.523% (SPN99) 0.0237140273848986 1.58055153949014 0.015003640686433 0 0 TRUE Bacteroides acidifaciens_acidofaciens (SPP3) -1.84156836050026 1.81760130889277 -1.01318608843987 0 0 TRUE Lachnospiraceae_[G-12] bacterium_MOT-179_bacterium_MOT-180 (SPP4) -1.8909191584725 1.47727058432696 -1.28000867175867 0 0 TRUE Blautia hansenii_hominis_marasmi (SPP5) 3.90802431270831 1.73651013424062 2.25050475413281 0 0 TRUE Alistipes multispecies_sppn12_2_nov_96.304% (SPPN12) 5.9917507997266 1.55706954567037 3.84809452884582 0 0 TRUE multigenus multispecies_sppn13_5_nov_94.570% (SPPN13) 0.0739481609010129 1.67388348043326 0.0441776036178291 0 0 TRUE multigenus multispecies_sppn14_2_nov_82.889% (SPPN14) 4.03867477568879 1.5467647844442 2.61104649931632 0 0 TRUE Eubacteriales_[G-1] multispecies_sppn15_2_nov_97.511% (SPPN15) -1.62633774186873 1.35423653443679 -1.20092590955324 0 0 TRUE Bacteroidetes_[G-3] multispecies_sppn2_2_nov_87.554% (SPPN2) -2.05160016711387 1.52068968284275 -1.3491248018982 0 0 TRUE multigenus multispecies_sppn22_2_nov_95.465% (SPPN22) 0.415951986169332 1.27371325259058 0.326566427194925 0 0 TRUE multigenus multispecies_sppn5_2_nov_97.279% (SPPN5) 0.233034427609981 1.41599806141143 0.164572561192421 0 0 TRUE Bacteroides multispecies_sppn6_2_nov_96.312% (SPPN6) 4.32901924718755 1.72841867012201 2.50461263929877 0.0122585565407541 1 FALSE multigenus multispecies_sppn7_2_nov_92.777% (SPPN7) -0.338144070725094 2.34666144182377 -0.144095805512659 0 0 TRUE