GroupDoxycycline...1 GroupDoxycycline...2 GroupDoxycycline...3 GroupDoxycycline...4 GroupDoxycycline...5 GroupDoxycycline...6 1 Coefficients Standard Errors Test Statistics W p Values Adjusted p Values Differential Abundance StreptococcusStreptococcus constellatus (SP1) -0.416542395801146 1.67892966516061 -0.248099967762079 0.804057060559424 1 FALSE EikenellaEikenella corrodens (SP10) -3.83430312600681 0.604954383529558 -6.33816900976215 2.32511698945454e-10 3.44117314439272e-08 TRUE LachnoanaerobaculumLachnoanaerobaculum saburreum (SP104) 0.115371751854416 0.972659414155644 0.118614748570103 0.905580580177994 1 FALSE AcidaminococcusAcidaminococcus sp._str._D21 (SP107) 0.982716745845335 1.28600374608996 0.76416320623734 0.444769989878098 1 FALSE DesulfobulbusDesulfobulbus sp._oral_taxon_041 (SP108) 1.49971476751433 0.361063382131008 4.15360527191366 0 0 TRUE CampylobacterCampylobacter concisus (SP109) -3.26731721501921 0.494329077370297 -6.60959948461962 0 0 TRUE StreptococcusStreptococcus sanguinis (SP11) 1.82595601656696 1.44305799046607 1.26533793418601 0.205750213711473 1 FALSE FretibacteriumFretibacterium sp._oral_taxon_360 (SP111) 0.701917958201476 0.51328148658429 1.36751076465371 0.171465265485081 1 FALSE StreptococcusStreptococcus sp._oral_taxon_064 (SP112) -0.610691889285288 0.947967068334644 -0.64421213529931 0.519437882738746 1 FALSE SlackiaSlackia exigua (SP113) -0.0383424366210223 0.604365818370953 -0.0634424308184288 0.949414200375978 1 FALSE SelenomonasSelenomonas sp._oral_taxon_126 (SP114) 0.680845855069911 0.411865437679542 1.65307839110223 0 0 TRUE FusobacteriumFusobacterium periodonticum (SP116) -0.492334409756617 0.526377575634038 -0.93532557720299 0.349620537890442 1 FALSE GemellaGemella sanguinis (SP119) 0.8194752911819 0.449893561786167 1.82148703779716 0.0685328552878883 1 FALSE NeisseriaNeisseria flavescens|subflava (SP12) 2.91810016252718 1.69540230686634 1.72118449450549 0.0852173505586055 1 FALSE ActinomycesActinomyces sp._Oral_Taxon_F78 (SP127) 0.393828950012047 0.551529411726245 0.714066995592116 0 0 TRUE SelenomonasSelenomonas artemidis (SP128) 0.224369377934606 0.443456672995436 0.505955579423461 0 0 TRUE StreptococcusStreptococcus gordonii (SP13) -0.93106820718748 1.44502642466576 -0.644326076876302 0.519364009314831 1 FALSE StreptococcusStreptococcus mitis (SP132) 1.25600652348349 0.99102541023397 1.26738074575399 0.205019181063429 1 FALSE StomatobaculumStomatobaculum longum (SP14) -1.77388419288251 1.15270857388238 -1.53888348978612 0.123832742506223 1 FALSE CampylobacterCampylobacter showae (SP148) -2.33216780110171 1.01988352868557 -2.28670013340386 0 0 TRUE AtopobiumAtopobium sp._oral_taxon_199 (SP149) 0.174106492278425 0.513753724257081 0.338890958951574 0 0 TRUE StomatobaculumStomatobaculum sp._oral_taxon_097 (SP15) -1.57765332887313 0.87533171817796 -1.80234909361799 0.0714904990345531 1 FALSE ActinomycesActinomyces oris (SP150) -0.0933943471116667 0.535225831190317 -0.174495216166907 0 0 TRUE MegasphaeraMegasphaera micronuciformis (SP153) 0.989107599703071 1.49753516281105 0.660490400670393 0.508939176630031 1 FALSE CampylobacterCampylobacter gracilis (SP156) -2.17835016551973 0.522118883709368 -4.17213441897323 3.01759520492855e-05 0.00431516114304782 TRUE FusobacteriumFusobacterium sp._oral_taxon_370 (SP158) -0.830920081554124 0.94726539301284 -0.8771777029786 0 0 TRUE MogibacteriumMogibacterium timidum (SP16) -0.586806278344255 1.0638317181607 -0.55159690045603 0.581224560500102 1 FALSE StreptococcusStreptococcus parasanguinis_I (SP160) 0.864104001444742 0.520086476747812 1.66146216077013 0.0966206624403045 1 FALSE ActinomycesActinomyces timonensis (SP161) 0.197663099409701 0.647894822863926 0.305085165731006 0 0 TRUE StomatobaculumStomatobaculum sp._oral_taxon_373 (SP162) 0.170956820884797 0.572287280371 0.298725529552168 0 0 TRUE SolobacteriumSolobacterium moorei (SP163) 0.290357484886205 1.18597864055109 0.244825222780813 0.806591763178093 1 FALSE ActinomycesActinomyces odontolyticus (SP164) -1.66272505197332 0.927203277567123 -1.7932691699884 0.0729298945717661 1 FALSE PrevotellaPrevotella denticola (SP168) 0.123843606622243 0.492458873186566 0.251480099893186 0.801442945917124 1 FALSE DialisterDialister pneumosintes (SP169) -4.20315855052174 0.309075632380658 -13.599126266108 4.05245696829786e-42 6.11921002212977e-40 TRUE StreptococcusStreptococcus parasanguinis_II (SP17) 1.75389177465497 1.95308881714855 0.898009224800951 0.369180631483313 1 FALSE Peptostreptococcaceae_[XI][G-1]Peptostreptococcaceae_[XI][G-1] [Eubacterium]_infirmum (SP171) 1.07055286009168 1.28452252991062 0.833424743563023 0.404605224631747 1 FALSE SelenomonasSelenomonas sp._Oral_Taxon_G55 (SP173) 0.0873828429038286 1.05688411063033 0.082679682686982 0.934106240417244 1 FALSE OribacteriumOribacterium sp._oral_taxon_078 (SP175) -1.0811870916891 1.02392737437459 -1.05592165884762 0.291004007959408 1 FALSE StreptococcusStreptococcus salivarius (SP177) -0.691161053484234 0.97550060862709 -0.708519346243123 0.478622802491467 1 FALSE FusobacteriumFusobacterium canifelinum (SP179) -0.0196641201145775 0.812037377031448 -0.0242157820203589 0 0 TRUE StreptococcusStreptococcus dentisani (SP18) -1.86531142122136 1.28170489898717 -1.45533610950177 0.145576234605331 1 FALSE OribacteriumOribacterium sinus (SP182) -0.85652716687541 0.626482769344368 -1.36719987968989 0.171562663060257 1 FALSE FusobacteriumFusobacterium nucleatum_subsp._nucleatum (SP183) -0.16068879443591 0.832109483905852 -0.19311015863159 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_149 (SP184) 2.26265521927026 1.31268489072619 1.72368497211737 0.084764729395151 1 FALSE FusobacteriumFusobacterium sp._HOT_204 (SP185) -0.0883307855148092 0.589536528712961 -0.149830894631156 0 0 TRUE LeptotrichiaLeptotrichia wadei (SP187) 0.066307192131887 0.35572453813993 0.186400388566402 0 0 TRUE StreptococcusStreptococcus tigurinus (SP19) -2.24707282887975 1.51439200441479 -1.48381186795033 0.137858837726847 1 FALSE SelenomonasSelenomonas flueggei (SP194) 0.752180843857658 0.368655422546247 2.04033576574693 0.0413168948562057 1 FALSE PrevotellaPrevotella saccharolytica (SP199) -0.78941146250944 0.705117040467568 -1.11954670955899 0 0 TRUE ActinomycesActinomyces lingnae_[NVP] (SP2) 2.02513099522804 1.2208067593055 1.65884647983118 0.0971467316094012 1 FALSE StreptococcusStreptococcus anginosus (SP20) 0.847265356203304 2.0489596034693 0.413510034443194 0.679232972139979 1 FALSE PrevotellaPrevotella sp._oral_taxon_293 (SP201) 1.43463028742741 0.700662767443004 2.04753321296483 0.0406057592789763 1 FALSE FilifactorFilifactor alocis (SP207) 1.14136287366872 0.346601926483455 3.29300787577475 0.000991216979958894 0.133814292294451 FALSE StreptococcusStreptococcus oralis (SP21) 1.94241349392455 1.46162634367434 1.32893985000405 0.183867815222744 1 FALSE Lachnospiraceae_[G-8]Lachnospiraceae_[G-8] sp._oral_taxon_500 (SP211) 0.102771503490678 0.553018999029402 0.185837202105265 0 0 TRUE VeillonellaVeillonella sp._oral_taxon_780 (SP214) -0.182651767637351 0.930669617013563 -0.196258440480161 0 0 TRUE VeillonellaVeillonella atypica (SP22) -2.04019227040385 1.42600361259009 -1.43070624253061 0.152514423377101 1 FALSE LeptotrichiaLeptotrichia sp._oral_taxon_215 (SP227) 1.20200012546627 1.06060673488283 1.13331368351066 0.257082547469477 1 FALSE ActinomycesActinomyces sp._oral_taxon_169 (SP23) -0.874360454080995 0.610591306261154 -1.43198968788957 0 0 TRUE PrevotellaPrevotella oralis (SP232) 0.0502986505971799 0.614397622246582 0.0818666101168487 0 0 TRUE ActinomycesActinomyces sp._oral_taxon_175 (SP233) 0.00877077764153067 0.415554186949118 0.0211062189167753 0 0 TRUE AlloprevotellaAlloprevotella rava (SP235) 1.63834420362632 0.484664319815436 3.38036892059687 0.000723885942127996 0.0998962600136635 FALSE Peptostreptococcaceae_[XI][G-9]Peptostreptococcaceae_[XI][G-9] [Eubacterium]_brachy (SP236) -0.772742953374222 0.728054892829468 -1.0613800703558 0 0 TRUE PorphyromonasPorphyromonas gingivalis (SP240) 1.00273343755673 0.507882086555037 1.97434299043361 0.0483427556947183 1 FALSE AnaeroglobusAnaeroglobus geminatus (SP25) -2.33915143618557 1.07456979589638 -2.17682596804641 0 0 TRUE PyramidobacterPyramidobacter piscolens (SP252) 0.15883189652151 0.684198076362824 0.232143149781793 0 0 TRUE AtopobiumAtopobium parvulum (SP259) -1.25770744917418 0.489764098888822 -2.56798620402695 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_481 (SP26) 1.07805934925039 1.04940846692622 1.02730193554478 0.304278311264576 1 FALSE SelenomonasSelenomonas sp._Oral_Taxon_G67 (SP260) 0.305717664428159 0.549339589194535 0.556518536878828 0.577856425928349 1 FALSE StreptococcusStreptococcus sp._Oral_Taxon_B59 (SP269) 1.73025066950201 0.86062573366052 2.01045658040307 0.0443828872631176 1 FALSE ActinomycesActinomyces sp._oral_taxon_180 (SP27) -1.95965830216844 1.09248697954265 -1.7937589544443 0 0 TRUE ActinobaculumActinobaculum sp._oral_taxon_183 (SP271) 1.14136287366872 0.346601926483455 3.29300787577475 0.000991216979958894 0.133814292294451 FALSE PrevotellaPrevotella intermedia (SP274) 0.343566064355865 0.422241600024429 0.81367175649199 0 0 TRUE TreponemaTreponema denticola (SP28) 0.783010979823109 0.26371167331603 2.96919347549987 0 0 TRUE ActinomycesActinomyces sp._oral_taxon_170 (SP29) -0.112456383072532 0.739910012891029 -0.151986567438295 0 0 TRUE PseudoramibacterPseudoramibacter alactolyticus (SP299) 0.532458386124036 0.362588873152443 1.46849069441845 0 0 TRUE GemellaGemella morbillorum (SP3) -1.30565076280556 0.816088159758953 -1.59988935900162 0.109623130355501 1 FALSE OlsenellaOlsenella uli (SP307) -0.224379540659617 0.355061984000321 -0.631944704785444 0.527423010003877 1 FALSE StreptococcusStreptococcus vestibularis (SP31) 0.0307709566843972 0.724180460431274 0.0424907303713664 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_479 (SP310) -0.215528538858808 0.762927193814582 -0.282502105844702 0 0 TRUE AlloprevotellaAlloprevotella tannerae (SP311) 0.448215693108775 0.402165954810751 1.11450431780008 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_136 (SP317) 1.82160235000115 0.868814084766594 2.09665379733171 0.0360242332763974 1 FALSE SelenomonasSelenomonas sputigena (SP32) -0.0343709369238072 0.81506517112413 -0.0421695566704232 0.966363531221114 1 FALSE ActinomycesActinomyces sp._oral_taxon_172 (SP322) -0.413608279664384 0.72919919803972 -0.567208906395224 0 0 TRUE StreptococcusStreptococcus sp._oral_taxon_423 (SP33) -0.390530884551327 1.64518738967488 -0.237377752225844 0.812363747697789 1 FALSE EggerthiaEggerthia catenaformis (SP34) 0.00676071047083049 0.596427357726828 0.0113353460119564 0.990955896105706 1 FALSE Peptostreptococcaceae_[XI][G-2]Peptostreptococcaceae_[XI][G-2] sp._oral_taxon_091 (SP345) 0.336292535521691 0.556649524575768 0.604136931183018 0 0 TRUE ActinomycesActinomyces naeslundii (SP37) 0.0719413675252265 0.724163269290813 0.0993441266300071 0 0 TRUE CapnocytophagaCapnocytophaga gingivalis (SP38) 0.0216784818690452 0.387237412096544 0.0559824056040339 0 0 TRUE StreptococcusStreptococcus cristatus (SP39) -2.01879146678063 1.18589461075247 -1.70233631932914 0.0886923401125214 1 FALSE VeillonellaVeillonella parvula_group (SP4) -2.26904239873559 1.49469669695602 -1.51806209470894 0.128998745700837 1 FALSE StreptococcusStreptococcus sinensis (SP40) -0.609058565997152 1.1954190944375 -0.509493757320097 0 0 TRUE StreptococcusStreptococcus mutans (SP42) 2.35757821482825 1.37246521269795 1.71776901375431 0.0858387555210387 1 FALSE HaemophilusHaemophilus parainfluenzae (SP43) -2.98954124399827 1.15209176407316 -2.59488118674584 0.00946236227009458 1 FALSE FusobacteriumFusobacterium nucleatum_subsp._animalis (SP44) -4.76253095048023 0.92768663907615 -5.13377120017926 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_134 (SP45) 0.753560688349712 1.27628376562317 0.590433498134932 0.554900058085449 1 FALSE Bacteroidales_[G-2]Bacteroidales_[G-2] sp._oral_taxon_274 (SP46) 0.783010979823109 0.237436286577014 3.29777301991764 0 0 TRUE SelenomonasSelenomonas noxia (SP48) 0.979176830425454 0.398539648285967 2.45691196506215 0.0140137023242322 1 FALSE AggregatibacterAggregatibacter sp._oral_taxon_949 (SP49) 0.224369377934606 0.522518665844869 0.429399737465492 0 0 TRUE RothiaRothia mucilaginosa (SP5) 0.780381285254408 1.59389017343463 0.489607940535066 0.624411356455221 1 FALSE DialisterDialister invisus (SP50) -2.1670063054686 0.515261593882568 -4.20564298056819 0 0 TRUE MogibacteriumMogibacterium diversum (SP51) -2.405944211289 0.635973205463349 -3.78309053057686 0.000154893044536135 0.0218399192795951 TRUE AggregatibacterAggregatibacter sp._oral_taxon_512 (SP52) -0.702298834656351 0.900233692721136 -0.780129471197099 0 0 TRUE LachnoanaerobaculumLachnoanaerobaculum umeaense (SP53) -0.00723776389317576 1.08628027996155 -0.00666288804711795 0.994683823831332 1 FALSE Lachnospiraceae_[G-3]Lachnospiraceae_[G-3] sp._oral_taxon_100 (SP55) 0.563288522089487 0.46319167206456 1.21610243892938 0 0 TRUE FusobacteriumFusobacterium nucleatum_subsp._vincentii (SP56) -2.95006541883478 0.840009415289587 -3.51194327722834 0 0 TRUE PeptostreptococcusPeptostreptococcus stomatis (SP57) -2.70811243660552 1.6901200910118 -1.60231953398311 0.109084968236935 1 FALSE Peptostreptococcaceae_[XI][G-7]Peptostreptococcaceae_[XI][G-7] [Eubacterium]_yurii_subsp._yurii_&_margaretiae (SP59) -3.24851270563646 1.13065270061128 -2.87313045277315 0 0 TRUE GranulicatellaGranulicatella adiacens (SP6) -3.14111742308815 1.1448338567096 -2.74373211857669 0.00607450857115194 0.789686114249752 FALSE SelenomonasSelenomonas sp._Oral_Taxon_F21 (SP61) -0.833963146004529 0.807526598238676 -1.03273768049686 0 0 TRUE OribacteriumOribacterium asaccharolyticum (SP63) 0.4160910542422 0.669936863160512 0.62108995208778 0.534540439997588 1 FALSE StaphylococcusStaphylococcus epidermidis (SP65) 0.866464446456068 1.7261741219203 0.501956572893213 0.615698069044938 1 FALSE PrevotellaPrevotella maculosa (SP69) 3.67165710461244 1.42789922199797 2.57136991746163 0.0101297062419459 1 FALSE FusobacteriumFusobacterium nucleatum_subsp._polymorphum (SP7) -4.11688368036519 0.607036800643956 -6.78193426823205 1.18577426884291e-11 1.77866140326437e-09 TRUE TM7_[G-1]TM7_[G-1] sp._oral_taxon_952 (SP70) 0.403586982845933 0.636136641413804 0.634434422687817 0 0 TRUE AtopobiumAtopobium rimae (SP71) -0.327455190536512 0.821411595366125 -0.398649340213607 0.690151600594649 1 FALSE StreptococcusStreptococcus sp._Oral_Taxon_B66 (SP74) 1.19012368692467 1.38617694627562 0.85856548842649 0.390580285333006 1 FALSE TannerellaTannerella forsythia (SP75) 0.153034389146859 0.654957534120558 0.23365543745114 0.815252485889363 1 FALSE AbiotrophiaAbiotrophia defectiva (SP76) 0.231119835295584 1.42796652515867 0.161852418263029 0.871422073384278 1 FALSE StreptococcusStreptococcus intermedius (SP8) 0.954694356319573 1.04511234625349 0.913484908815743 0.360987567020068 1 FALSE StreptococcusStreptococcus sp._oral_taxon_070 (SP80) -2.19144074868363 0.941946914035001 -2.32650133041595 0.0199918215776755 1 FALSE Bacteroidaceae_[G-1]Bacteroidaceae_[G-1] sp._oral_taxon_272 (SP81) -1.17583513349673 0.715937016784617 -1.64237231199133 0 0 TRUE PorphyromonasPorphyromonas endodontalis (SP82) 0.864104001444742 0.192653385782145 4.48527804448703 0 0 TRUE RothiaRothia dentocariosa (SP83) 0.627847722819969 1.17530890555598 0.534198047723433 0.593204519701469 1 FALSE PrevotellaPrevotella oris (SP84) 0.783010979823109 0.237436286577014 3.29777301991764 0 0 TRUE SelenomonasSelenomonas dianae (SP87) -1.32896242195766 0.56029616454678 -2.37189277037556 0.0176972259023117 1 FALSE SelenomonasSelenomonas sp._oral_taxon_138 (SP88) 0.542216418957922 0.587238283514418 0.923332885780104 0.355833755132212 1 FALSE AggregatibacterAggregatibacter sp._Oral_Taxon_G24 (SP91) 0.403586982845933 0.454046204472367 0.88886765018756 0 0 TRUE ParvimonasParvimonas micra (SP92) -4.25191594072772 0.756294161347833 -5.62203988610748 1.88715677191145e-08 2.77412045470983e-06 TRUE PorphyromonasPorphyromonas sp._oral_taxon_279 (SP93) -1.00665422943149 0.761157521214879 -1.32253075266835 0 0 TRUE StreptococcusStreptococcus sp._oral_taxon_058 (SP98) 0.163293048024369 1.41026764888729 0.1157886931273 0.907820011815384 1 FALSE SelenomonasSelenomonas sp._Oral_Taxon_F85_nov_82.517% (SPN15) 1.63834420362632 0.529034651822204 3.09685612839011 0.00195584773361456 0.260127748570737 FALSE SelenomonasSelenomonas sp._oral_taxon_388_nov_97.518% (SPN206) -0.0232463054278833 0.858450249627459 -0.0270793857162619 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_481_nov_97.887% (SPN212) 2.64146877074778 1.1635264050699 2.27022675139812 0.0231938286882484 1 FALSE StreptococcusStreptococcus dentisani_nov_97.872% (SPN223) 0.141920418915897 0.722664463443673 0.196384942244997 0 0 TRUE FusobacteriumFusobacterium sp._oral_taxon_370_nov_97.153% (SPN244) 0.563288522089487 0.46319167206456 1.21610243892938 0 0 TRUE VeillonellaVeillonella sp._oral_taxon_780_nov_86.786% (SPN254) -0.741932347705158 0.453062501356348 -1.63759380986952 0.101506455217326 1 FALSE ActinomycesActinomyces sp._oral_taxon_175_nov_96.809% (SPN43) -0.469668672695216 0.52879801827485 -0.888181605194859 0 0 TRUE FusobacteriumFusobacterium nucleatum_subsp._polymorphum_periodonticum (SPP1) 0.286029649865509 0.396779392401497 0.720878289908965 0 0 TRUE VeillonellaVeillonella atypica_parvula_group (SPP12) 0.497240184715372 1.30525878300236 0.380951418362894 0.703239297677836 1 FALSE LactobacillusLactobacillus casei_rhamnosus (SPP13) 1.14136287366872 0.320575402182706 3.56035698901883 0.000370350966565021 0.0518491353191029 FALSE SelenomonasSelenomonas dianae_sp._oral_taxon_920 (SPP14) -0.0723222439801021 0.644597028178757 -0.112197606905575 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_134_sputigena (SPP17) 1.97807801285873 0.972910133388803 2.03315593596375 0.0420367712585575 1 FALSE VeillonellaVeillonella denticariosi_parvula_group (SPP22) 0.861524820117216 1.18677887278713 0.725935420550535 0.467878361098023 1 FALSE SelenomonasSelenomonas dianae_infelix_sp._oral_taxon_138 (SPP24) 0.358958272583091 0.710149585765618 0.505468537584367 0.613229791106351 1 FALSE SelenomonasSelenomonas infelix_sp._oral_taxon_138 (SPP25) -0.5225806037014 0.721814013106763 -0.723982347547062 0 0 TRUE SelenomonasSelenomonas dianae_sp._oral_taxon_138 (SPP26) -0.136109167171279 0.739759385619874 -0.183991132545385 0.854020411371864 1 FALSE StomatobaculumStomatobaculum longum_sp._oral_taxon_097 (SPP6) 0.349995469425132 1.16173937906089 0.30126849079357 0.76320976609655 1 FALSE StreptococcusStreptococcus salivarius_vestibularis (SPP8) -1.23928439139262 0.460498383301962 -2.69118076486272 0.00711996043161522 0.918474895678364 FALSE FusobacteriumFusobacterium naviforme_nucleatum_subsp._vincentii (SPP9) -0.580226637268219 0.907660763966691 -0.639254951081605 0 0 TRUE SelenomonasSelenomonas multispecies_sppn20_2_nov_97.509% (SPPN20) -0.193549404694165 0.798744126264283 -0.242317155556928 0 0 TRUE