#NEXUS [!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file. Generated on May 15, 2024; 20:01 GMT TreeBASE (cc) 1994-2008 Study reference: Siler C.D., Diesmos A.C., Alcala A.C., & Brown R. 2011. Phylogeny of Philippine slender skinks (Scincidae: Brachymeles) reveal underestimated species diversity, complex biogeographical relationships, and cryptic patterns of lineage diversification. Molecular Phylogenetics and Evolution, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S11197] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=108; TAXLABELS Brachymeles_apus_RMBR2040 Brachymeles_apus_SP06915 Brachymeles_bicolor_KU323149 Brachymeles_bicolor_KU323150 Brachymeles_bicolor_KU323151 Brachymeles_bonitae_KU307748 Brachymeles_bonitae_KU307749 Brachymeles_bonitae_KU307967 Brachymeles_bonitae_KU308004 Brachymeles_bonitae_KU320471 Brachymeles_bonitae_KU320473 Brachymeles_bonitae_KU323085 Brachymeles_bonitae_KU323086 Brachymeles_bonitae_KU323937 Brachymeles_bonitae_KU323938 Brachymeles_bonitae_KU326089 Brachymeles_bonitae_RMB3681 Brachymeles_boulengeri_boholensis_KU323939 Brachymeles_boulengeri_boholensis_KU323958 Brachymeles_boulengeri_boholensis_KU323995 Brachymeles_boulengeri_boulengeri_KU307752 Brachymeles_boulengeri_boulengeri_KU307753 Brachymeles_boulengeri_boulengeri_KU323409 Brachymeles_boulengeri_mindorensis_KU304351 Brachymeles_boulengeri_mindorensis_KU307740 Brachymeles_boulengeri_mindorensis_KU308447 Brachymeles_boulengeri_taylori_KU307737 Brachymeles_boulengeri_taylori_KU320476 Brachymeles_boulengeri_taylori_KU320478 Brachymeles_boulengeri_taylori_KU320481 Brachymeles_cebuensis_KU320419 Brachymeles_cebuensis_KU320420 Brachymeles_cebuensis_KU320421 Brachymeles_elerae_KU326566 Brachymeles_elerae_KU326567 Brachymeles_gracilis_gracilis_KU326098 Brachymeles_gracilis_gracilis_KU326099 Brachymeles_gracilis_gracilis_PNMCMNHH1175 Brachymeles_gracilis_gracilis_PNMCMNHH1176 Brachymeles_gracilis_hilong_KU310731 Brachymeles_gracilis_hilong_KU310825 Brachymeles_gracilis_hilong_KU311216 Brachymeles_gracilis_hilong_KU311220 Brachymeles_lukbani_KU313596 Brachymeles_lukbani_KU313597 Brachymeles_lukbani_KU313602 Brachymeles_makusog_KU308127 Brachymeles_makusog_KU308128 Brachymeles_makusog_KU313610 Brachymeles_makusog_KU313611 Brachymeles_minimus_KU308129 Brachymeles_minimus_KU308130 Brachymeles_minimus_KU308131 Brachymeles_muntingkamay_KU308813 Brachymeles_muntingkamay_KU308866 Brachymeles_muntingkamay_KU308923 Brachymeles_pathfinderi_KU324057 Brachymeles_pathfinderi_KU324058 Brachymeles_pathfinderi_KU324096 Brachymeles_samarensis_KU310849 Brachymeles_samarensis_KU310850 Brachymeles_samarensis_KU310851 Brachymeles_samarensis_KU311225 Brachymeles_samarensis_KU311226 Brachymeles_samarensis_KU311227 Brachymeles_samarensis_KU324020 Brachymeles_samarensis_KU324022 Brachymeles_schadenbergi_orientalis_KU310942 Brachymeles_schadenbergi_orientalis_KU311232 Brachymeles_schadenbergi_orientalis_KU314092 Brachymeles_schadenbergi_orientalis_KU324027 Brachymeles_schadenbergi_orientalis_KU324029 Brachymeles_schadenbergi_schadenbergi_KU314973 Brachymeles_schadenbergi_schadenbergi_KU314998 Brachymeles_schadenbergi_schadenbergi_PNMCMNHH1457 Brachymeles_speciesA_KU323933 Brachymeles_speciesA_KU323934 Brachymeles_speciesA_KU323936 Brachymeles_speciesB_KU304558 Brachymeles_speciesB_KU304897 Brachymeles_speciesB_KU324031 Brachymeles_speciesB_KU324041 Brachymeles_talinis_KU303990 Brachymeles_talinis_KU306756 Brachymeles_talinis_KU315355 Brachymeles_talinis_RMB3283 Brachymeles_talinis_RMB3305 Brachymeles_tridactylus_KU320423 Brachymeles_tridactylus_KU320424 Brachymeles_tridactylus_KU320425 Dasia_grisea_KU305573 Davewakeum_miriamae_KU327692 Davewakeum_miriamae_KU327693 Emoia_atrocostata_KU304896 Eumeces_quadrilineatus_KU311490 Eutropis_multifasciata_KU302904 Lamprolepis_smaragdina_KU326565 Larutia_seribuatensis_LSUHC5168 Lipinia_pulchella_pulchella_RMB1079 Lygosoma_LSUHC9321 Lygosoma_bowringii_LSUHC6998 Lygosoma_quadrupes_LSUHC8403 Plestiodon_anthracinus_CAS325 Plestiodon_fasciatus_KU289462 Scincella_lateralis_KU289461 Scincella_reevesii_FMNH255540 Sphenomorphus_abdictus_abdictus_KU306539 Tachydromus_sexlineatus_KU311512 ; END; BEGIN TREES; TITLE Philippine_slender_skinks; LINK TAXA = Taxa; TREE ML = [&R] (((Tachydromus_sexlineatus_KU311512:1.7265165431555316,(Larutia_seribuatensis_LSUHC5168:0.43040457771536544,(Sphenomorphus_abdictus_abdictus_KU306539:0.5204692595667767,(Lipinia_pulchella_pulchella_RMB1079:0.35980279451520675,(Scincella_reevesii_FMNH255540:0.32286396369556497,Scincella_lateralis_KU289461:0.4162556540325174):0.10868620074978022):0.1020895239203771):0.08017608471396781):0.19828563322327575):0.17497652052970264,((Dasia_grisea_KU305573:0.42964218660412584,Eutropis_multifasciata_KU302904:0.392464975330328):0.15599091463818118,(Emoia_atrocostata_KU304896:0.7576264878007881,(Lygosoma_bowringii_LSUHC6998:0.40405914385208236,(Lamprolepis_smaragdina_KU326565:0.5059128745009291,(Lygosoma_LSUHC9321:0.28032460945121795,Lygosoma_quadrupes_LSUHC8403:0.34364232983113496):0.12303033455258838):0.04949224815501804):0.1511888410819616):0.09939430015757383):0.2091680379037046):0.025575730063726338,((Eumeces_quadrilineatus_KU311490:0.19359274108597285,(Plestiodon_fasciatus_KU289462:0.026638594365430725,Plestiodon_anthracinus_CAS325:0.011509090060558093):0.2959152126559086):0.5126582379914767,((Brachymeles_apus_SP06915:0.1292390365485745,Brachymeles_apus_RMBR2040:0.14278228327679093):0.4794987128454285,((Davewakeum_miriamae_KU327692:1.623643106435378E-5,Davewakeum_miriamae_KU327693:4.200977897049533E-4):0.6406452700961701,((((Brachymeles_bonitae_KU323086:1.623643106435378E-5,Brachymeles_bonitae_KU323085:0.0012072881425062476):0.06558981468005513,(((Brachymeles_bonitae_KU323937:0.014723874591024894,Brachymeles_bonitae_KU323938:0.020220742672251223):0.05661018322903451,(Brachymeles_tridactylus_KU320423:4.602520707684184E-4,(Brachymeles_tridactylus_KU320424:4.586885081319573E-4,Brachymeles_tridactylus_KU320425:1.623643106435378E-5):1.623643106435378E-5):0.07809202089175928):0.03738697680523968,(((Brachymeles_bonitae_KU307748:0.004782253535922244,Brachymeles_bonitae_KU307749:0.0017495450308890506):0.0802168408513645,(Brachymeles_bonitae_KU326089:8.024366098536401E-4,Brachymeles_bonitae_RMB3681:5.563028882237726E-4):0.06861716892128107):0.007870682886767672,((Brachymeles_bonitae_KU320471:0.012193896618266427,Brachymeles_bonitae_KU320473:0.008690912946749257):0.051635389802050714,(Brachymeles_bonitae_KU308004:1.623643106435378E-5,Brachymeles_bonitae_KU307967:1.623643106435378E-5):0.04981252616377462):0.04304806326562503):0.012413289689386877):0.02391373862225034):0.13147248030335365,(((Brachymeles_cebuensis_KU320420:7.072419107431559E-4,(Brachymeles_cebuensis_KU320419:1.623643106435378E-5,Brachymeles_cebuensis_KU320421:1.623643106435378E-5):1.6966132728235328E-4):0.11334533773948335,(Brachymeles_samarensis_KU311225:0.003408765164888248,(Brachymeles_samarensis_KU311226:1.623643106435378E-5,Brachymeles_samarensis_KU311227:1.623643106435378E-5):0.005143580759758263):0.10933454275767633):0.0645884985941303,((Brachymeles_samarensis_KU310851:5.740547191503067E-4,(Brachymeles_samarensis_KU310849:1.623643106435378E-5,Brachymeles_samarensis_KU310850:1.623643106435378E-5):1.623643106435378E-5):0.18663242331988714,((Brachymeles_samarensis_KU324020:0.006300935922885041,Brachymeles_samarensis_KU324022:1.623643106435378E-5):0.11212375496201246,((Brachymeles_minimus_KU308130:4.463612748903396E-4,(Brachymeles_minimus_KU308131:1.623643106435378E-5,Brachymeles_minimus_KU308129:1.623643106435378E-5):4.4537170181586623E-4):0.04113093569542996,(Brachymeles_lukbani_KU313597:1.623643106435378E-5,(Brachymeles_lukbani_KU313602:8.845204748670198E-4,Brachymeles_lukbani_KU313596:0.0017750879510741622):8.849374250918267E-4):0.030734915301023746):0.09535962047933821):0.026071514582855764):0.02489524789091455):0.05307583880041588):0.03374121414524355,(((Brachymeles_bicolor_KU323151:1.623643106435378E-5,(Brachymeles_bicolor_KU323149:0.004832396938322713,Brachymeles_bicolor_KU323150:4.3631116780785907E-4):4.3643964157132975E-4):0.1469263740087168,(((Brachymeles_boulengeri_boulengeri_KU323409:0.04873193666720445,(Brachymeles_boulengeri_boulengeri_KU307752:0.003647808355471592,Brachymeles_boulengeri_boulengeri_KU307753:0.004276271823897252):0.03715683015632234):0.06776626797762786,((Brachymeles_boulengeri_mindorensis_KU304351:0.009909979504536584,(Brachymeles_boulengeri_mindorensis_KU307740:0.016083259254339115,Brachymeles_boulengeri_mindorensis_KU308447:0.023102389946581484):0.006656776047853135):0.11626446783280338,((Brachymeles_boulengeri_taylori_KU320476:4.5546858378675065E-4,Brachymeles_boulengeri_taylori_KU320478:4.428751768948281E-4):0.031115746267193465,(Brachymeles_boulengeri_taylori_KU307737:7.804969671699557E-4,Brachymeles_boulengeri_taylori_KU320481:5.989416824900859E-4):0.03487376087767215):0.0879396758595494):0.02276080258958723):0.02139374110304807,(((Brachymeles_talinis_RMB3283:1.623643106435378E-5,Brachymeles_talinis_RMB3305:0.0018838493912876416):0.03427140486352071,(Brachymeles_talinis_KU303990:0.026138342897739485,(Brachymeles_talinis_KU306756:0.03897791000082742,Brachymeles_talinis_KU315355:0.02408275564268986):0.0036660510859782298):0.006984578404525918):0.050502604011069964,((Brachymeles_speciesA_KU323933:0.0010162587632610671,(Brachymeles_speciesA_KU323934:0.01742468846446747,Brachymeles_speciesA_KU323936:0.0040241026911548815):0.0018755251790106946):0.03621743470505683,((Brachymeles_speciesB_KU324041:0.0013442997655651204,Brachymeles_speciesB_KU324031:9.671531647875535E-4):0.01704217033745968,(Brachymeles_speciesB_KU304897:3.868569521058077E-4,Brachymeles_speciesB_KU304558:0.0010201181787521515):0.011273784543495414):0.02857667540564085):0.024434243236481825):0.06839652155148873):0.06890672299410965):0.008777872056632954,((((Brachymeles_gracilis_hilong_KU311216:0.003270585681305106,Brachymeles_gracilis_hilong_KU311220:0.0013633436914344324):0.005068994421269346,(Brachymeles_gracilis_hilong_KU310825:0.0013617405940888798,Brachymeles_gracilis_hilong_KU310731:0.0022619943865545113):0.007306646946489516):0.09155235984155294,((Brachymeles_pathfinderi_KU324096:0.006091192012661745,(Brachymeles_pathfinderi_KU324057:3.9784556067380943E-4,Brachymeles_pathfinderi_KU324058:5.441081360709193E-4):0.005991374492523131):0.04132073838934543,((Brachymeles_gracilis_gracilis_PNMCMNHH1175:0.0030200133369998315,Brachymeles_gracilis_gracilis_PNMCMNHH1176:0.0079762378893733):0.015786763385277108,(Brachymeles_gracilis_gracilis_KU326098:0.0039924029852994826,Brachymeles_gracilis_gracilis_KU326099:0.005277131076375662):0.0248284874125485):0.03512825712955392):0.038671288591928185):0.08482990818368596,(((Brachymeles_elerae_KU326566:8.385272730043258E-4,Brachymeles_elerae_KU326567:1.623643106435378E-5):0.0498394781004228,(Brachymeles_muntingkamay_KU308923:4.031614832357386E-4,(Brachymeles_muntingkamay_KU308866:8.111156704392438E-4,Brachymeles_muntingkamay_KU308813:0.0020730711677652753):4.3695570511045206E-4):0.03731837196783836):0.13382058887585363,((Brachymeles_boulengeri_boholensis_KU323995:0.005273202168469261,(Brachymeles_boulengeri_boholensis_KU323939:0.008570488008163362,Brachymeles_boulengeri_boholensis_KU323958:0.00837928681349789):0.0034013842891270547):0.1529933120007875,(((Brachymeles_makusog_KU313610:0.00472673551816223,Brachymeles_makusog_KU313611:0.004632466737036447):0.020036061032343056,(Brachymeles_makusog_KU308127:0.006266477490426974,Brachymeles_makusog_KU308128:0.006424295054242513):0.013614584180583495):0.07771549096740057,((Brachymeles_schadenbergi_schadenbergi_PNMCMNHH1457:0.0178273005877843,(Brachymeles_schadenbergi_schadenbergi_KU314973:0.002592044511400165,Brachymeles_schadenbergi_schadenbergi_KU314998:3.4585094039444984E-4):0.02136920762953107):0.04705540926681528,(Brachymeles_schadenbergi_orientalis_KU310942:0.006629365691424003,(Brachymeles_schadenbergi_orientalis_KU314092:0.006323517901166671,(Brachymeles_schadenbergi_orientalis_KU311232:0.00432488601029558,(Brachymeles_schadenbergi_orientalis_KU324029:8.988161216415906E-4,Brachymeles_schadenbergi_orientalis_KU324027:0.0022974448695437994):0.004044223358633199):9.280484881446056E-4):0.0027011598131328634):0.0590520980507217):0.03911155085080128):0.0296735982883898):0.030865342305168998):0.012850292981366368):0.01163435887612694):0.04940677325760265):0.2161074257149811):0.13207061569276443):0.2668609232559115):0.025575730063726338); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr27580] END;