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 FusobacteriumFusobacterium nucleatum_subsp._animalis (SP1) -4.42499881347972 0.953013457144786 -4.6431650889138 3.43111971722311e-06 0.000349974211156758 TRUE Bacteroidaceae_[G-1]Bacteroidaceae_[G-1] sp._oral_taxon_272 (SP10) -0.820196334633281 0.592867026739476 -1.38344063279083 0 0 TRUE StomatobaculumStomatobaculum sp._oral_taxon_373 (SP105) 0.291597818689099 0.430098242771127 0.677979563018746 0 0 TRUE Peptostreptococcaceae_[XI][G-7]Peptostreptococcaceae_[XI][G-7] [Eubacterium]_yurii_subsp._yurii_&_margaretiae (SP11) -2.48234040254013 1.1134070967608 -2.22949935361641 0 0 TRUE StomatobaculumStomatobaculum sp._oral_taxon_097 (SP112) -1.00874907349895 0.883752517447752 -1.1414384158273 0.253687525956005 1 FALSE SelenomonasSelenomonas dianae (SP114) -1.21074355745842 0.603896413518229 -2.00488615324733 0 0 TRUE OribacteriumOribacterium asaccharolyticum (SP115) 0.723769205322168 0.589574774801889 1.22761223216406 0.21959256774281 1 FALSE ParvimonasParvimonas micra (SP12) -3.86088540002247 0.623913466010746 -6.18817449911552 6.08649317919379e-10 6.39081783815348e-08 TRUE ActinomycesActinomyces sp._oral_taxon_169 (SP121) 0.095431968086754 0.376588250604741 0.253411963685817 0 0 TRUE GemellaGemella morbillorum (SP125) 0.131896279445545 0.405873385374416 0.324969027776658 0 0 TRUE FusobacteriumFusobacterium nucleatum_subsp._nucleatum (SP126) -0.862482613710421 0.730954374053644 -1.17994042354157 0 0 TRUE FusobacteriumFusobacterium periodonticum (SP129) -0.498650925027187 0.620346155273685 -0.803826896947869 0 0 TRUE EikenellaEikenella corrodens (SP13) -3.23317945461996 0.486676713686089 -6.64338227759422 3.06565351295534e-11 3.28024925886221e-09 TRUE ParvimonasParvimonas sp._oral_taxon_393 (SP134) 0.306990026916325 0.436392791651232 0.70347180977653 0 0 TRUE StreptococcusStreptococcus gordonii (SP135) 0.383520112984723 0.875938287902857 0.437839192876172 0.661502857575051 1 FALSE GranulicatellaGranulicatella adiacens (SP14) -2.01828802891544 0.945691005824978 -2.13419395604252 0.0328269072518164 1 FALSE ActinomycesActinomyces sp._oral_taxon_180 (SP147) -1.35974095202255 0.808565898781283 -1.68166992210781 0 0 TRUE LeptotrichiaLeptotrichia wadei (SP15) 0.118988575218031 0.273070023654863 0.435743819938367 0 0 TRUE AtopobiumAtopobium sp._oral_taxon_199 (SP150) 0.291597818689099 0.390694747742957 0.746357150623753 0 0 TRUE CampylobacterCampylobacter rectus (SP153) -0.108898281419642 0.589773693237131 -0.184644182452298 0 0 TRUE PrevotellaPrevotella saccharolytica (SP157) -0.273733370012912 0.522547877211029 -0.523843616921566 0 0 TRUE AtopobiumAtopobium parvulum (SP158) -1.52344372090784 0.376347450806651 -4.04797140951144 0 0 TRUE AbiotrophiaAbiotrophia defectiva (SP159) 1.17048764962359 1.00872378553102 1.16036487531362 0.245900281191888 1 FALSE TreponemaTreponema denticola (SP16) 0.534876883553998 0.218375889132652 2.44934038129589 0 0 TRUE Peptostreptococcaceae_[XI][G-9]Peptostreptococcaceae_[XI][G-9] [Eubacterium]_brachy (SP160) -0.23936331862758 0.478096491401046 -0.500659015350926 0 0 TRUE TM7_[G-1]TM7_[G-1] sp._oral_taxon_952 (SP161) 0.218052862664036 0.576034229565608 0.378541502348691 0 0 TRUE LachnoanaerobaculumLachnoanaerobaculum saburreum (SP167) 0.179578484134544 0.750881239908891 0.239156972621041 0.810983865484164 1 FALSE StreptococcusStreptococcus dentisani (SP17) -1.1932882668183 0.950401891658438 -1.25556175476043 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_919 (SP170) 0.414952659044173 0.597478211032167 0.694506764233839 0.487364460278565 1 FALSE CapnocytophagaCapnocytophaga sp._oral_taxon_412 (SP173) 0.767507045515134 0.353465425492601 2.17137799105955 0.0299026111995554 1 FALSE AcidaminococcusAcidaminococcus sp._str._D21 (SP175) 0.926244727471499 0.879106923252712 1.05362010350729 0.292056881356898 1 FALSE Peptostreptococcaceae_[XI][G-1]Peptostreptococcaceae_[XI][G-1] [Eubacterium]_infirmum (SP18) 1.47542698641939 1.13330622880614 1.30187847637055 0.19295793132297 1 FALSE DialisterDialister invisus (SP181) -0.0302897637977213 0.436476879260254 -0.0693960327269951 0 0 TRUE LachnoanaerobaculumLachnoanaerobaculum umeaense (SP183) 0.0209277776089918 0.730794692919174 0.0286370136671291 0.977154091543421 1 FALSE PyramidobacterPyramidobacter piscolens (SP185) 0.0143389464651209 0.617463307058437 0.0232223458482592 0 0 TRUE StaphylococcusStaphylococcus epidermidis (SP19) 0.523537814818688 1.25011436855566 0.418791934552008 0.675368199838517 1 FALSE OribacteriumOribacterium sinus (SP190) -0.76278671910742 0.557368153305619 -1.36855095610238 0.171139683426614 1 FALSE Lachnospiraceae_[G-8]Lachnospiraceae_[G-8] sp._oral_taxon_500 (SP191) 0.270525715557534 0.513259231866033 0.527074232204253 0 0 TRUE StreptococcusStreptococcus parasanguinis_II (SP2) 2.2756579028563 1.72218959548045 1.32137478290911 0.186376429976464 1 FALSE CapnocytophagaCapnocytophaga gingivalis (SP20) 0.131896279445545 0.415117468463623 0.317732423869565 0.750687914037975 1 FALSE MegasphaeraMegasphaera micronuciformis (SP203) 0.831197791738841 0.83622040343771 0.993993674779734 0.320225946862837 1 FALSE SelenomonasSelenomonas infelix (SP209) 0.11898857521803 0.606661124589634 0.196136805862611 0.844503088793824 1 FALSE StreptococcusStreptococcus sp._oral_taxon_423 (SP21) 0.265059722231182 1.4528949372674 0.182435574267816 0.855240909998529 1 FALSE ActinomycesActinomyces lingnae_[NVP] (SP210) 1.70300521502868 0.983081848739461 1.7323127440633 0.0832178941341644 1 FALSE StreptococcusStreptococcus intermedius (SP217) 0.950765191889965 0.438313829423466 2.16914258247464 0.0300718606840633 1 FALSE AtopobiumAtopobium rimae (SP22) -0.365205134574505 0.728136236325624 -0.501561543506516 0.615975976378354 1 FALSE ActinomycesActinomyces naeslundii (SP223) 0.673506319665987 0.292954605795582 2.29901256488845 0 0 TRUE StreptococcusStreptococcus tigurinus (SP24) -1.93606833652769 1.25375837656387 -1.54421168601386 0.122537058747696 1 FALSE CampylobacterCampylobacter sp._Oral_Taxon_G43 (SP262) -0.0513618669292861 0.692714232612283 -0.0741458230699206 0 0 TRUE SelenomonasSelenomonas sp._oral_taxon_149 (SP265) 2.35587285481767 0.730459228403036 3.22519418362088 0.00125887250749862 0.120851760719868 FALSE CatonellaCatonella morbi (SP268) 0.673506319665987 0.257954827501377 2.61094675447542 0 0 TRUE StreptococcusStreptococcus sp._oral_taxon_070 (SP27) -1.52966135379696 0.65687535219655 -2.32869348603486 0.0198753094550915 1 FALSE PseudoramibacterPseudoramibacter alactolyticus (SP276) 0.673506319665987 0.173950212529285 3.87183384183907 0 0 TRUE NeisseriaNeisseria flavescens|subflava (SP29) 2.54683834491221 1.45613460319298 1.74904046598959 0.0802840248365252 1 FALSE FusobacteriumFusobacterium nucleatum_subsp._polymorphum (SP30) -4.33016365958677 0.55407903174462 -7.81506502051242 0 0 TRUE PrevotellaPrevotella oralis (SP304) 0.25761801133002 0.464939623259757 0.554089172963629 0 0 TRUE OlsenellaOlsenella uli (SP309) -0.271084324662908 0.356845155864797 -0.759669341751181 0.44745225896096 1 FALSE FusobacteriumFusobacterium nucleatum_subsp._vincentii (SP33) -2.90095112041747 0.862093291926128 -3.36500834374437 0.000765413443817473 0.0750105174941124 FALSE RothiaRothia dentocariosa (SP34) 0.404759370325768 0.826810264335995 0.489543233538383 0.624457154246086 1 FALSE FusobacteriumFusobacterium sp._oral_taxon_203 (SP35) -0.347682775114129 0.566549737052569 -0.613684470004208 0 0 TRUE AnaeroglobusAnaeroglobus geminatus (SP354) -0.296899733117937 0.471357698138956 -0.62988200742276 0 0 TRUE StreptococcusStreptococcus sp._oral_taxon_058 (SP36) 0.547784587781512 1.15438154616327 0.474526459299478 0.635124534353057 1 FALSE FretibacteriumFretibacterium sp._oral_taxon_360 (SP37) 0.700212598190891 0.378418672490962 1.85036481836825 0.0642609861525621 1 FALSE HaemophilusHaemophilus parainfluenzae (SP39) -2.25912465771316 1.02506932577211 -2.2038749974413 0.027533136354078 1 FALSE RothiaRothia mucilaginosa (SP4) 0.769725337587516 1.76543721523618 0.435997004563281 0.662838902880628 1 FALSE LeptotrichiaLeptotrichia buccalis (SP40) 0.534876883553998 0.314245838092649 1.70209695313865 0 0 TRUE CampylobacterCampylobacter showae (SP41) -2.32714447540601 1.04197557060335 -2.2333963876509 0 0 TRUE StreptococcusStreptococcus cristatus (SP42) -1.08339410037812 1.08626005815109 -0.997361628321445 0.318589009633631 1 FALSE StreptococcusStreptococcus salivarius (SP44) -0.104857739956139 0.820304572482432 -0.127827813562973 0 0 TRUE CampylobacterCampylobacter gracilis (SP45) -2.29750991833705 0.472997178424579 -4.85734381331705 1.18970913808858e-06 0.000122540041223124 TRUE OribacteriumOribacterium sp._oral_taxon_078 (SP46) -0.92027131925935 0.892733171334771 -1.03084700872424 0.302612569803246 1 FALSE CampylobacterCampylobacter concisus (SP47) -3.12665246473043 0.480107263856164 -6.51240399825974 0 0 TRUE MogibacteriumMogibacterium timidum (SP49) -0.69256881807963 0.884396326817436 -0.783097800249678 0.433569682841707 1 FALSE StreptococcusStreptococcus anginosus (SP5) 1.16189135476945 1.97435360321371 0.588492027404922 0.556202083632044 1 FALSE VeillonellaVeillonella atypica (SP52) -1.23300260769395 1.38031964807552 -0.893273242479042 0.371710863532665 1 FALSE StreptococcusStreptococcus mitis (SP53) 1.03318712205533 0.971706265287865 1.06327103051996 0.287659058649169 1 FALSE FusobacteriumFusobacterium sp._oral_taxon_370 (SP56) -0.927767193864062 0.837761849494696 -1.10743547754491 0 0 TRUE StreptococcusStreptococcus constellatus (SP57) -0.091853894064462 1.48273604883543 -0.0619489181075793 0.950603511260083 1 FALSE FusobacteriumFusobacterium canifelinum (SP58) -0.263843714930116 0.633477998551182 -0.416500202901362 0 0 TRUE MogibacteriumMogibacterium diversum (SP6) -1.99983774535756 0.5654728819609 -3.53657586270572 0 0 TRUE StreptococcusStreptococcus sanguinis (SP60) 1.84483882092239 0.833307487529725 2.21387524836872 0.0268373618487988 1 FALSE VeillonellaVeillonella sp._oral_taxon_780 (SP61) 0.0257706292331107 0.676396360178973 0.0380998934209106 0 0 TRUE StreptococcusStreptococcus oralis (SP62) 2.04011266622323 0.935492599122078 2.1807897445023 0.0291989714628204 1 FALSE StreptococcusStreptococcus sp._Oral_Taxon_B66 (SP63) 1.40621864889192 0.930372094746298 1.51145832601028 0.130671718650505 1 FALSE PorphyromonasPorphyromonas sp._oral_taxon_279 (SP65) 0.673506319665987 0.205301432704637 3.28057291560623 0 0 TRUE StomatobaculumStomatobaculum longum (SP66) -1.86178556324489 1.18448730295953 -1.57180710894332 0.115995292373364 1 FALSE FusobacteriumFusobacterium sp._HOT_204 (SP68) -0.113836803937717 0.64674005475557 -0.176016319231597 0 0 TRUE SlackiaSlackia exigua (SP69) -1.11531855221787 0.794009398332584 -1.40466668853043 0.160120415763219 1 FALSE VeillonellaVeillonella parvula_group (SP7) -2.4361298678391 1.46344656639549 -1.66465241969125 0.0959821207420974 1 FALSE LeptotrichiaLeptotrichia sp._oral_taxon_498 (SP70) 0.25761801133002 0.334525378511178 0.770100051830332 0 0 TRUE DialisterDialister pneumosintes (SP73) -1.53167648419471 0.305714641612009 -5.01015089142706 0 0 TRUE EggerthiaEggerthia catenaformis (SP75) 0.950765191889965 0.324900840307568 2.92632420091595 0.00342993296181536 0.325843631372459 FALSE StreptococcusStreptococcus sp._oral_taxon_064 (SP78) -0.15512062561232 0.700353688064118 -0.221488982289929 0.824711714443791 1 FALSE LeptotrichiaLeptotrichia sp._oral_taxon_215 (SP79) 0.864928864944869 1.0016818761349 0.863476604251136 0.38787547731214 1 FALSE PeptostreptococcusPeptostreptococcus stomatis (SP8) -2.21096130477661 1.45064389847391 -1.52412408524419 0.127477717153361 1 FALSE PrevotellaPrevotella maculosa (SP80) 2.98614636783476 1.35572111550755 2.20262584515165 0.0276211307491802 1 FALSE ActinomycesActinomyces odontolyticus (SP83) -1.33128042145641 0.5947228805529 -2.23848865578999 0 0 TRUE PrevotellaPrevotella salivae (SP85) 0.592413298044354 0.332750671769966 1.78035192203578 0 0 TRUE SelenomonasSelenomonas sputigena (SP86) 0.761872870121794 0.950103135213159 0.801884386952228 0.422619838370314 1 FALSE SolobacteriumSolobacterium moorei (SP88) 0.368031727790028 0.880630346838158 0.417918516107718 0.676006694192295 1 FALSE PrevotellaPrevotella denticola (SP89) 0.511320276422721 0.390908315517212 1.30803120866383 0.190862724136746 1 FALSE LeptotrichiaLeptotrichia sp._oral_taxon_417 (SP9) 0.534876883553998 0.33579014699547 1.59289034636628 0 0 TRUE PrevotellaPrevotella sp._oral_taxon_317 (SP91) 0.0378955535963975 0.493334001619502 0.0768152072875479 0 0 TRUE Clostridiales_[G]Clostridiales_[G] sp._Oral_Taxon_C16_nov_79.093% (SPN93) 0.0811401752903248 0.663514792161745 0.12228841956329 0.902670603013537 1 FALSE FusobacteriumFusobacterium naviforme_nucleatum_subsp._vincentii (SPP11) 0.234061404198743 0.526871891902371 0.444247278695434 0 0 TRUE StreptococcusStreptococcus salivarius_vestibularis (SPP12) -0.15512062561232 0.343319336014494 -0.451826067861703 0 0 TRUE OribacteriumOribacterium asaccharolyticum_parvum (SPP3) 0.592413298044354 0.508798812921908 1.16433702870152 0.244287456073674 1 FALSE VeillonellaVeillonella denticariosi_parvula_group (SPP4) 1.42481394018354 1.03133023893819 1.38153026682361 0.167115978246531 1 FALSE