#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 29, 2024; 3:30 GMT TreeBASE (cc) 1994-2008 Study reference: Morley S., Peralta-castro A., Brieba L.G., Miller J., Ong K., Ridge P., Oliphant A., Aldous S., & Nielsen B. 2019. Arabidopsis thaliana organelles mimic the T7 phage DNA replisome with specific interactions between Twinkle protein and DNA polymerases Pol1A and Pol1B. BMC Plant Biology, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S24443] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=90; TAXLABELS Acanthamoeba_castellanii Amborella_trichopoda Ananas_comosus Apostasia_shenzhenica Aquilegia_coerulea Arabidopsis_lyrata_subsp._lyrata Arabidopsis_thaliana Arabis_alpina Asparagus_officinalis Auxenochlorella_protothecoides Bacteroides Bacteroides_vulgatus Bathycoccus_prasinos Blastocystis_sp._subtype_4 Brachypodium_distachyon Burkholderia_gladioli Burkholderia_ubonensis Cajanus_cajan Capsella_rubella Capsicum_annuum Capsicum_baccatum Cephalotus_follicularis Chlorella_sorokiniana Chondrus_crispus Citrus_clementina Citrus_sinensis 'Coccomyxa subellipsoidea C-169' Coffea_canephora Corchorus_capsularis Cucumis_sativus Cyanidioschyzon_merolae_strain_10D Cynara_cardunculus_var._scolymus Daucus_carota_subsp._sativus Dendrobium_catenatum Dichanthelium_oligosanthes Dorcoceras_hygrometricum Erythranthe_guttata Eucalyptus_grandis Eutrema_salsugineum Genlisea_aurea Glycine_max Glycine_soja Gossypium_arboreum Gossypium_barbadense Gossypium_raimondii Handroanthus_impetiginosus Helianthus_annuus Jatropha_curcas Lactuca_sativa Lupinus_angustifolius Macleaya_cordata Manihot_esculenta Medicago_truncatula Micromonas_commoda Micromonas_pusilla_CCMP1545 Morus_notabilis Neorhizobium_galegae Nicotiana_attenuata Nicotiana_tabacum Oryza_sativa_Japonica_Group Ostreococcus_lucimarinus_CCE9901 Ostreococcus_tauri Panicum_hallii Parasponia_andersonii Phaseolus_vulgaris Plasmopara_halstedii Populus_trichocarpa Prunus_persica Punica_granatum Quercus_suber Rhizobium_favelukesii Rhizobium_leguminosarum Rhizobium_mesoamericanum Ricinus_communis Rosa_chinensis Selaginella_moellendorffii Setaria_italica Sinorhizobium_americanum Sinorhizobium_fredii Sorghum_bicolor Spinacia_oleracea Thecamonas_trahens_ATCC_50062 Theobroma_cacao Tieghemostelium_lacteum Trema_orientalis Trifolium_pratense Vigna_angularis Vitis_vinifera Zea_mays Zostera_marina ; END; BEGIN TREES; TITLE Plant_Combined; LINK TAXA = Taxa; TREE PAUP_1 = [&R] ((Sinorhizobium_americanum:1.047585,((Bacteroides_vulgatus:0.211126,Bacteroides:0.246366):0.501909,((Burkholderia_gladioli:0.124821,Burkholderia_ubonensis:0.130165):0.449439,((Neorhizobium_galegae:0.160318,Rhizobium_mesoamericanum:0.062131):0.152865,(Sinorhizobium_fredii:0.182798,(Rhizobium_leguminosarum:0.070886,Rhizobium_favelukesii:0.07095):0.023583):0.116195):0.349011):0.08431):0.248843):0.1683885,(((Chondrus_crispus:0.523397,Cyanidioschyzon_merolae_strain_10D:0.396632):0.141978,(Thecamonas_trahens_ATCC_50062:0.524473,(Plasmopara_halstedii:0.471478,(Acanthamoeba_castellanii:0.43588,(Tieghemostelium_lacteum:0.43278,Blastocystis_sp._subtype_4:0.424461):0.097077):0.064007):0.07859):0.024173):0.483415,((('Coccomyxa subellipsoidea C-169':0.281582,(Auxenochlorella_protothecoides:0.364864,Chlorella_sorokiniana:0.246985):0.183733):0.138853,((Micromonas_pusilla_CCMP1545:0.131188,Micromonas_commoda:0.116459):0.134803,(Bathycoccus_prasinos:0.294902,(Ostreococcus_lucimarinus_CCE9901:0.035484,Ostreococcus_tauri:0.067683):0.154238):0.056816):0.290945):0.082948,(Selaginella_moellendorffii:0.293209,(Zostera_marina:0.376108,(((Ananas_comosus:0.229041,Asparagus_officinalis:0.314966):0.047852,(Brachypodium_distachyon:0.091106,(Oryza_sativa_Japonica_Group:0.091168,((Sorghum_bicolor:0.026187,Zea_mays:0.051157):0.044566,(Dichanthelium_oligosanthes:0.065246,(Panicum_hallii:0.031211,Setaria_italica:0.025006):0.007957):0.015689):0.06606):0.038393):0.251748):0.040069,((Macleaya_cordata:0.278529,(Amborella_trichopoda:0.295715,(Dendrobium_catenatum:0.163671,Apostasia_shenzhenica:0.116566):0.168262):0.072459):0.060577,(Aquilegia_coerulea:0.370424,(((Vitis_vinifera:0.259532,Spinacia_oleracea:0.311788):0.057225,((Coffea_canephora:0.228996,((Nicotiana_attenuata:0.11754,Nicotiana_tabacum:0.027492):0.024616,(Capsicum_baccatum:0.05136,Capsicum_annuum:0.035051):0.143125):0.201005):0.052047,((Genlisea_aurea:0.255847,(Dorcoceras_hygrometricum:0.191205,(Handroanthus_impetiginosus:0.105903,Erythranthe_guttata:0.116837):0.047988):0.056656):0.105772,(Daucus_carota_subsp._sativus:0.261015,(Helianthus_annuus:0.132925,(Cynara_cardunculus_var._scolymus:0.122673,Lactuca_sativa:0.100381):0.043497):0.18545):0.086325):0.025261):0.07417):0.036217,((Arabidopsis_lyrata_subsp._lyrata:0.116361,((Arabidopsis_thaliana:0.06666,Capsella_rubella:0.088779):0.013681,(Arabis_alpina:0.09373,Eutrema_salsugineum:0.069001):0.032072):0.052394):0.32477,(((Cucumis_sativus:0.276675,(Morus_notabilis:0.170638,(Trema_orientalis:0.020841,Parasponia_andersonii:0.019254):0.181949):0.115047):0.069633,((Rosa_chinensis:0.149575,Prunus_persica:0.207055):0.114102,(Punica_granatum:0.300503,Eucalyptus_grandis:0.212747):0.107777):0.037571):0.04714,((Populus_trichocarpa:0.207052,(Ricinus_communis:0.144324,(Jatropha_curcas:0.15054,Manihot_esculenta:0.133013):0.038409):0.075361):0.155252,((Cephalotus_follicularis:0.236883,((Citrus_sinensis:0.030149,Citrus_clementina:0.00293):0.289949,(Corchorus_capsularis:0.144585,(Theobroma_cacao:0.070315,(Gossypium_arboreum:0.003712,(Gossypium_barbadense:0.007875,Gossypium_raimondii:0.04482):0.014379):0.134662):0.039799):0.151504):0.072036):0.048357,(Quercus_suber:0.20765,((Trifolium_pratense:0.111175,Medicago_truncatula:0.088437):0.112263,(Lupinus_angustifolius:0.147929,((Phaseolus_vulgaris:0.046912,Vigna_angularis:0.040876):0.040073,(Cajanus_cajan:0.072571,(Glycine_max:0.013893,Glycine_soja:0.01242):0.04832):0.006016):0.076432):0.047965):0.162627):0.067185):0.032383):0.046787):0.050607):0.058238):0.0859):0.054038):0.077797):0.078003):0.199407):0.178027):0.174913):0.1683885); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr117993] END;