#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 12, 2024; 19:10 GMT TreeBASE (cc) 1994-2008 Study reference: Lipscomb D. 1985. The eukaryotic kingdoms. Cladistics, 1: 127-140. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S331] [ The following blocks are input data for analysis step 326 ] BEGIN TAXA; TITLE TaxaForAnalysisStep326; DIMENSIONS NTAX=36; TAXLABELS Acoelomata Ascomycetes Bicosoecia Bodonina Chloromonadida Choanoflagellida Chrysomonadida Chytridiomycetes Ciliophora Cnidaria Cryptomonadida Dinoflagellida Diplomonadida Euglenida Eustigmatomonadida Gameophyceae Hypermastigida Mesozoa Oomycetes Opalinida Oxymonadida Phaeophyceae Phytomonadida Placozoa Porifera Prasinomonadida Proteromonadida Prymnesiida Retortamonadida Rhodophyceae Schizophrynida Stephanopogonida Trichomonadida Trypanosomatina Xanthomonadida Zygomycetes ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M1654] TITLE Table_1; LINK TAXA = TaxaForAnalysisStep326; DIMENSIONS NCHAR=77; FORMAT DATATYPE=Standard SYMBOLS= "a b c d e f" MISSING=? GAP= -; CHARSTATELABELS 1 Mitochondrial_cristae / lamellar tubular discoidal flattend_tubes absent, 2 Mitochondrial_kinetoplast / absent present, 3 Clathrocyst / absent present, 4 Conocyst / absent present, 5 Cyrtocyst / absent present, 6 Discobolocyst / absent present, 7 Ejectosome_taeniobolocyst / sbrent present, 8 Euglenid_trichocyst / absent present, 9 Fibrocyst / absent present, 10 Haptocyst / absent present, 11 Muciferous_body / absent present, 12 Mucocyst / absent present, 13 Nematocyst / absent 'present (protist-type)' 'present (cnidarian-type)', 14 Pexicyst / absent presen, 15 Trichocyst / absent present, 16 Toxicyst / absent present, 17 Rhabdites / absent present, 18 Alveolar_membrane / absent present present_with_theca, 19 Periplast / absent present, 20 Pellicle / absent present, 21 Linked_microtubules_in_pellicul / absent present, 22 Linked_microtubules_directly_un / absent present, 23 Few_widely__placed_microtubules / absent present, 24 Organic_Scales / absent present, 25 Silica_Scales / absent present, 26 Calcite_scales / absent present, 27 'Mastigoneme-like tubule on cel' / absent present, 28 Cell_wall_elaborate_fibrillar_s / absent present, 29 Extracellular_product_sponsin / absent present, 30 Extracellular_product_chitin / absent present, 31 Extracellular_product_silica / absent present, 32 Extracellular_product_cellulose / absent present, 33 Extracellular_product_calcium_c / abrent present, 34 Flagella / absent basal_bodies_parallel basal_bodies_right_angles single_basal_bod, 35 Flagellar_appendages_mastisonem / absent present, 36 Flagellar_appendages_fine_hairs / absent present, 37 Flagellar_appendage_vane / absent present, 38 Scales_on_flagella / absent present, 39 Mastigonemes / absent two_rows_on_the_anteriorly_dire two_rows_on_posteriorly_directe two_rows_on_both_nasella one_row_on_both_nasella, 40 Paraxial_rod / absent present, 41 Striated_pareflasellar_rod / absent present, 42 Transitional_helix / absent present, 43 Transitional_spiral / absent present, 44 Alternating_thick_and_thin_ring / absent present, 45 Transition_stellate / absent present, 46 Microtubular_roots / absent present, 47 Microtubular_roots_extend_paral / absent present, 48 Microtubular_curve_under_the_ce / absent present, 49 Microtubular_roots_extend_into / absent present, 50 Microtubular_roots_line_the_gro / absent present, 51 Microtubular_roof_extend_to_th / absent single_row axostyle, 52 Microtubules_extend_perpendicul / they_run_to_and_line_the_cell_m absent present, 53 Fibrous_root_connects_the_basal / absent present, 54 'Amorphous root with U-shaped ex' / absent present, 55 Amorphous_root_in_concentric_ci / absent present, 56 Filamentous_striated_root_exten / absent present, 57 Filamentous_striated_root_exten / absent present, 58 Filamentous_striated_root_lines / absent present, 59 Filamentous_striated_root_forms / absent present, 60 Fibrous_root_extends_to_the_nuc / absent present, 61 Attractophore / absent present, 62 Membranes_around_the_chloroplas / absent two_only 'two + er-membrane' 'two + er- + nuclear membrane' 'two + nuclear membrane' 'one + nuclear membrane', 63 Chlorophyll / absent a_only 'a + b' 'a + c1' 'a+ c1 + c2', 64 Eyespot / absent present_in_chloroplast present_but_not_in_chloroplast, 65 Eyespot / absent present_at_base_of_flagellum present_but_not_at_base_of_flag, 66 Cytostomial_engulfment / absent present, 67 Food_reserve / '1-4 linked glucan' 'B (1-3) linked glucan' phosphagen, 68 'Food reserve B (1-3) linked glu' / absent paramylon chyrsolaminarin laminarin, 69 'Food reserve a (1-4) linked glu' / absent amylose glycogen floridian_starch, 70 Nucleolus_during_division / persists fragments_but_persists disperses absent, 71 Nuclear_membrane_during_divisio / persists fragments_but_persists disperses, 72 Polar_structure_during_mitosis / none present, 73 Polar_stucture_centrioles / absent present, 74 Polar_stucture_rhizoplast / absent present, 75 Polar_stucture_attractophore / absent present, 76 Polar_structure_striated_plaque / absent present, 77 Polar_structure_unique / absent present, ; MATRIX [ 10 20 30 40 50 60 70 ] [ . . . . . . . ] Acoelomata aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaabaaaaaaaaabaaaaaaaaaacaaccabaaaa Ascomycetes baaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa??caaaaaba Bicosoecia baaaaaaaaaaaaaaaaaaaaaaaaaabaaaaacaababaaaaaababaaaaaaaaaaaaaaaaaacaab?aaaaaa Bodonina cbaaaaaaaaaaaaaaaaaaabaaaaaaaaaaabbaaaebabaaabbaaaaaaaaaaaaaaaaaaaa??caabaaaa Chloromonadida baaaaaaaaaabaaaaaaaaaaaaaaaaaaaaacbaaabaaaaaabaaabbaaaaaaaabadecbba??bbbaaaaa Choanoflagellida baaaaaaaaaaaaaaaaaaaaaaaaaaaaabaadaaaaaaaaaaabaaaaabbabaaaaaaaaaaaa??baabaaaa Chrysomonadida baaaabaaaaaaaaaaaaaaaaabbbaaaabbbcbaaacaabaaababaaaaaaabaaaaadebbbabcbcaabaaa Chytridiomycetes baaaaaaaaaaaaaaaaaaaaaaaaaaaabaaabbaaabaaabaabaabaaaaabaaaaaaaaaaacaa?aabaaaa Ciliophora babbbaaabbabbbbbabaaaaaaaaaaaaaabbbaaaaaaaaaababaaaabaaabaaaaaaaaacaaaabaaaaa Cnidaria aaaaaaaaaaaacaaaaaaaaaaaaaaaaaaabbaaaaaaaaaaabbaaaaaaaaaaaaaaaaaaacaaccbbaaaa Cryptomonadida daaaaabaaaaaaaaaaabaaabaaaaaaaaaabbaaadaaaaaabbaaaaaaaabaaaaaddbbbbaabcbaaaaa Dinoflagellida baaaaaaaaaaabaaaacaaaabaaaaaaaabababababaaaaababaaaabaaaaaaaafdaccbaaaabaaaaa Diplomonadida eaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaacaaaaaaaaaaabaaabbbaaaaaaaaaaaaaaa??baabaaaa Euglenida caaaaaabaabaaaaaaaababaaaaaaaaaaababaaabaaaaabbaaaaaaaaaaaaaacccbbabbaabaaaaa Eustigmatomonadida baaaaaaaaaaaaaaaaaaaaaaaaaaaaaabacbaaabaabaaabaabaabbaababaaaebabba????abaaaa Gameophyceae aaaaaaaaaaaaaaaabaaaaaaaaaaaaaaaacaaaaaaaaaaaaaaaaaaaaaaaaaaabcaaabaaccaaaaaa Hypermastigida eaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaabaaaacabaabbababaaaaaa??baaaabaa Mesozoa aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaabbaaaaaaaaaaaaaaaaaaacaadcabaaaa Oomycetes aaaaaaaaaaaaaaaaaaaaaaaaaaaaabababaaaabaaaabababbaaaaaaaaaaaaaaaaacaaababaaaa Opalinida baaaaaaaaaaaaaaaaaaabaaaaaaaaaaaabaaaaaaaaaaaaaaaaaabaaabaaaaaaaaaa??aabaaaaa Oxymonadida eaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaacaaaaaaaaaaabaaaacaaaaaaaaaaaaaaaa??baabaaaa Phaeophyceae aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaabacaaaabaaaaaaaaaaaaaaaaaaaaaadebbbabdccabaaaa Phytomonadida baaaaaaaaaaaaaaaaaaaaaaaaaaaaaabacabaaaaaaaabbaaaaabaaaaaaaaabcbccbaabbabaaaa Placozoa aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaabbaaaaaaaaaaaaaaaaaaacaaccabaaaa Porifera aaaaaaaaaaaaaaaaaaaaaaaaaaaabababdaaaaaaabaaaaaaaaabaabaaaaaaaaaaacaadcabaaaa Prasinomonadida daaaaabaaaaaaaaaaaaaaabbaaaaaaaaacaaabaaabaabbaaaaabaaabaaaaabcbccbaabbabaaaa Proteromonadida baaaaaaaaaaaaaaaaaaabaaaaabaaaaaacaaaaaabbaaabaaaabbbaaaabaaaaaaaacaabaabaaaa Prymnesiida baaaaaaaaaaaaaaaaaaaaaababaaaaaabcaaaaaaaaaaabaaaaaaaaaaaaaaadebbbabcbcabaaaa Retortamonadida eaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaacaaaaaaaaaaabaaabaaaaabaaaaaaaaaaa??bbaabaaa Rhodophyceae baaaaaaaaaaaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaaaaaaaaaaaaaaaaaaaabbaaadaacbbaaaaa Schizophrynida baaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaabaaaaaaaaaaababaaaaaaabbaaaaaaaaaa??cabbaaaa Stephanopogonida caaaaaaaaabaaaaaaaaaabaaaaaaaaaaabaaaaaaaaaaabbaaaaaabaaaaaaaaaaaaa??aabaaaaa Trichomonadida eaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaacaaaaaaaaaaabaaaacaaaabaababaaaaacaabaaaabaa Trypanosomatina cbaaaaaaaaaaaaaaaaaaabaaaaaaaaaaabbaaaababaaabbaaaaaaaaaaaaaaaaaaaaccaabaaaaa Xanthomonadida baaaaaaaaaaaaaaaaaaaaaaaaaaaaaabacbaaabaabaaabaabaabbaabaaaaadebbbaaccaabaaaa Zygomycetes aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa??aaaaaaab ; END; [ The following blocks are output data for analysis step 326 ] BEGIN TREES; TITLE Tb5106; LINK TAXA = TaxaForAnalysisStep326; TREE Fig._1 = [&R] ((((((Cryptomonadida,Chloromonadida),(Prymnesiida,(Phaeophyceae,(Chrysomonadida,(Xanthomonadida,Eustigmatomonadida))))),(Prasinomonadida,Phytomonadida)),Gameophyceae),(((Ascomycetes,Zygomycetes),(((Trypanosomatina,Bodonina),(Euglenida,Stephanopogonida)),(((Dinoflagellida,Ciliophora),Schizophrynida),Opalinida))),(((((Choanoflagellida,Porifera),Mesozoa),Cnidaria,Placozoa),Acoelomata),(Oomycetes,Chytridiomycetes),((((Hypermastigida,Trichomonadida),(Retortamonadida,Diplomonadida),Oxymonadida),Proteromonadida),Bicosoecia)))),Rhodophyceae); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr1507] END;