From: cmzmasek Date: Wed, 6 Jun 2012 13:53:57 +0000 (+0000) Subject: phylotastic hackathon at NESCENT 120606 X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=2b3f8d7457a69a1da63e95aff41b8bba890096d5;p=jalview.git phylotastic hackathon at NESCENT 120606 --- diff --git a/forester/data/tol_102.xml b/forester/data/tol_102.xml deleted file mode 100644 index dcb476e..0000000 --- a/forester/data/tol_102.xml +++ /dev/null @@ -1,2354 +0,0 @@ - - - - - cellular_organisms - - Neomura - - Eukaryota - - Unikonta - - Opisthokonta - - Metazoa_Choanoflagellata - - Metazoa - - - - Bilateria_Cnidaria - - Bilateria - - Deuterostomia - - - - Chordata - - Urochordata_Vertebrata - - Vertebrata - - Tetrapoda - - Amniota - - 14990 - Amniota - - - Mammalia - - Theria - - Eutheria - - Euarchontoglires - - Primates - - HUMAN - - - PANTR - - - - Rodentia - - MOUSE - - - RAT - - - - - CANFA - - - - MONDO - - - - ORNAN - - - - Diapsida - - 14866 - Diapsida - - - Neognathae - - 8825 - Neognathae - superorder - - - CHICK - - 10199408 - CHICK - Gallus gallus - Chicken - Gallus domesticus - - - - TAEGU - - 59729 - TAEGU - Taeniopygia guttata - Zebra finch - Poephila guttata - species - - - - - ANOCA - - 795869 - ANOCA - Anolis carolinensis - Voigt, 1832 - Green anole - American chameleon - species - - - - - - XENTR - - - - Teleostei - - Euteleostei - - Smegmamorpha - - 129949 - - - GASAC - - - ORYLA - - - - Tetraodontiformes - - FUGRU - - - TETNG - - - - - DANRE - - - - - Urochordata - - 7712 - Urochordata - tunicates - - - Ascidiacea - - 7713 - Ascidiacea - sea squirts - - - CIOIN - - - CIOSA - - - - OIKDI - - 34765 - Oikopleura dioica - - - - - - BRAFL - - - - STRPU - - - - Protostomia - - Ecdysozoa - - Arthropoda - - Insecta - - Neoptera - - 8267 - Neoptera - subclass - - - Endopterygota - - 3016961 - Endopterygota - Holometabola - infraclass - http://tolweb.org/Endopterygota/ - - - Lepidoptera_Diptera - - Diptera - - Culicoidea - - AEDAE - - - ANOGA - - - CULPI - - - - Muscomorpha - - DROME - - - DROPS - - - - - BOMMO - - - - Hymenoptera - - APIME - - - NASVI - - - - - ACYPI - - 7029 - ACYPI - Acyrthosiphon pisum - Pea aphid - Acyrhosiphum pisum - species - - - - - TRICA - - - - DAPPU - - - - Nematoda - - 2472 - Nematoda - - - - - nematode Clade V - - Caenorhabditis - - Caenorhabditis - - - CAEEL - - - CAEBR - - - - PRIPA - - PRIPA - - - - - BRUMA - - BRUMA - - - - - - Lophotrochozoa - - Annelida_Mollusca - - Annelida - - CAP - - - HELRO - - - - LOTGI - - - - Platyhelminthes - - SCHMA - - - SCHMD - - - - - - - Cnidaria - - 6073 - Cnidaria - - - NEMVE - - - HYDMA - - 9119928 - HYDMA - Hydra magnipapillata - Ito, 1947 - species - http://www.nig.ac.jp/labs/OntoGen/magni.html - - - - - - TRIAD - - - - - - MONBE - - - - Fungi - - Dikarya_Mucoromycotina_Chytridiomycota - - Dikarya_Mucoromycotina - - Dikarya - - 451864 - Dikarya - - - Ascomycota - - Pezizomycotina - - 147538 - Pezizomycotina - Euascomycota - subphylum - - - Sordariomycetes_Dothideomycetes_Eurotiales - - Sordariomycetes_Dothideomycetes - - Sordariomycetes - - 147550 - Sordariomycetes - Pyrenomycetes - class - - - Magnaporthales_Hypocreales - - Hypocreales - - 5125 - Hypocreales - pyrenomycetes - order - - - TRIVE - - - GIBZE - - - - MAGGR - - - - Sordariales - - 5139 - Sordariales - pyrenonmycetes - order - - - Chaetomiaceae - - 35718 - Chaetomiaceae - family - - - CHAGB - - 1029505 - CHAGB - Chaetomium globosum - Kunze 1817 - Soil fungus - species - - - - THITE - - 193532 - THITE - Thielavia terrestris - Malloch & Cain 1972 - Acremonium alabamense - species - - - - - NEUCR - - - - - Dothideomycetes - - 147541 - Dothideomycetes - Loculoascomycetes - bitunicate ascomycetes - class - - - Pleosporales - - 92860 - Pleosporales - Melanommatales - order - - - Pleosporaceae - - 28556 - Pleosporaceae - Pyrenophoraceae - family - - - PYRTR - - - COCHE - - - - PHANO - - - - Mycosphaerella - - 41254 - Mycosphaerella - genus - - - MYCFI - - - MYCGR - - - - - - Eurotiales - - 5042 - Eurotiales - green and blue molds - Elaphomycetales - order - - - Neosartorya_Emericella - - NEOFI - - - EMENI - - 195546 - EMENI - Emericella nidulans - Vuill. 1927 - Aspergillus nidulans - species - - - - - Aspergillus - - 5052 - Aspergillus - - - ASPFL - - - ASPNG - - - - - - Onygenales - - 33183 - Onygenales - Gymnoascales - order - - - COCIM - - - UNCRE - - - - - Saccharomycotina_Taphrinomycotina - - Saccharomycotina - - Saccharomycotina - subphylum - - - Saccharomycetaceae - - 4893 - Saccharomycetaceae - - - YEAST - - - SACCA - - - - YARLI - - - - Taphrinomycotina - - SCHPO - - - SCHJP - - - - - - Basidiomycota - - 5204 - Basidiomycota - phylum - - - Pucciniomycotina_Agaricomycotina - - Agaricomycotina - - 5302 - Agaricomycotina - - - Homobasidiomycetes - - 155619 - Homobasidiomycetes - - - Agaricales - - 5338 - Agaricales - order - - - COPCI - - - LACBI - - - PLEOS - - 5322 - PLEOS - Pleurotus ostreatus - Oyster mushroom - species - - - - - POSPL - - 104341 - Postia placenta - - - - - Tremellomycetes - - 155616 - Tremellomycetes - class - - - CRYNE - - - TREME - - 1029985 - TREME - Tremella mesenterica - Pers. 1800 - Jelly fungus - Yellow Brain - Tremella lutescens - species - - - - - - Pucciniomycotina - - 29000 - Pucciniomycotina - Urediniomycetes - subphylum - - - Pucciniomycetes - - 162484 - Pucciniomycetes - Urediniomycetidae - subclass - - - PUCGR - - 1029947 - PUCGR - Puccinia graminis - Pers. 1794 - Black stem rust fungus - Wheat rust - species - - - - MELLP - - 156696 - MELLP - Melampsora laricis-populina - Kleb. 1902 - Melampsora larici-populina - Melampsora laricipopulina - species - - - - - SPORO - - 1013696 - Sporobolomyces roseus - Kluyver & C. B. Niel 1924 - species - - - - - - USTMA - - - - - Mucoromycotina - - 451507 - Mucoromycotina - Zygomycota - subphylum - - - MUCCI - - 36080 - MUCCI - Mucor circinelloides - Mucor griseo-roseus - species - - - - PHYBL - - - RHIOR - - - - - BATDE - - - - ENCCU - - - - - Amoebozoa - - Dictyostelium - - DICDI - - - DICPU - - - - ENTHI - - - - - Bikonta - - - - Corticata - - Archaeplastida - - Viridiplantae - - Embryophyta - - Tracheophyta - - Magnoliophyta - - core eudicotyledons - - 91827 - core eudicotyledons - core eudicots - http://tolweb.org/Core_Eudicots/20714 - - - Rosids_Vitaceae - - rosids - - 71275 - rosids - Rosidae - subclass - http://tolweb.org/Rosids/20701 - - - fabids - - 91835 - fabids - eurosids I - http://tolweb.org/Rosids/20701 - - - Malpighiales - - 3646 - Malpighiales - Balanopales - order - - - POPTR - - - MANES - - 3983 - MANES - Manihot esculenta - Tapioca - species - - - - - Fabales_Cucurbitales - - SOYBN - - 3847 - SOYBN - Glycine max - cv. Wye - Soybean - - - - CUCSA - - 3659 - CUCSA - Cucumis sativus - Cucumber - species - - - - - - Arabidopsis - - ARATH - - - ARALY - - - - - VITVI - - 582304 - VITVI - Vitis vinifera - - - - - MIMGU - - 4155 - MIMGU - Mimulus guttatus - Yellow monkey flower - species - - - - - Poales - - Oryza - - ORYSJ - - - ORYSA - - - - SORBI - - - - - SELMO - - - - PHYPA - - - - Chlorophyta - - Prasinophyceae - - Ostreococcus - - OSTLU - - - OSTTA - - - OSTRC - - - - Micromonas - - MICPU - - - MIC99 - - - - - Trebouxiophyceae_Chlorophyceae - - Chlorophyceae - - CHLRE - - - VOLCA - - - - CHLSP - - 310507 - CHLSP - Chlorella sp. NC64A - - - - - - - CYAME - - 45157 - CYAME - Cyanidioschyzon merolae - Red alga - species - http://merolae.biol.s.u-tokyo.ac.jp/ - - - - - Chromalveolate - - - - Heterokonta_Alveolata - - Alveolata - - Apicomplexa - - Aconoidasida - - Plasmodium - - PLAFA - - - PLAYO - - - PLACH - - - - Theileria - - THEPA - - - THEAN - - - - - Coccidia - - Cryptosporidium - - CRYHO - - - CRYPV - - - - TOXGO - - - - - Ciliophora - - TETTH - - - PARTE - - - - - Heterokonta - - Heterokonta - Stramenophiles - - - Pelagophyceae_Bacillariophyta - - Bacillariophyta - - Bacillariophyta - Diatoms - phylum - - - Bacillariophycidae - - 33850 - Bacillariophycidae - - - PHATR - - 912693 - PHATR - Phaeodactylum tricornutum - Bohlin - species - - - - FRACY - - 911694 - FRACY - Fragilariopsis cylindrus - Krieger - Nitzschia cylindrus - species - - - - - THAPS - - 916868 - THAPS - Thalassiosira pseudonana - Hasle & Heimdal - Marine diatom - species - - - - - AURAN - - 912461 - AURAN - Aureococcus anophagefferens - Hargraves & Sieburth - species - - - - - Oomycetes - - Oomycetes - water molds - - - PHYIN - - - PHYRM - - - PHYSO - - - - - - EMIHU - - - - - Excavata - - - - Kinetoplastida_Heterolobosea - - Kinetoplastida - - LEIMA - - - TRYBB - - - - NAEGR - - - - Metamonada - - GIALA - - - TRIVA - - - - - - - Archaea - - a_62 - - a_56 - - a_52 - - a_44 - - a_28 - - a_26 - - a_16 - - a_14 - - a_12 - - a_6 - - a_4 - - a_2 - - METAC - - - METBF - - - - METMA - - - - METBU - - - - a_11 - - a_9 - - METHU - - - METB6 - - - - METMJ - - - - - METLZ - - - - METTP - - - - a_25 - - a_23 - - a_19 - - NATPH - - - HALMA - - - - a_22 - - HALSP - - - HALS3 - - - - - HALWD - - - - - ARCFU - - - - a_43 - - a_41 - - a_35 - - a_31 - - METJA - - - META3 - - - - a_34 - - METMP - - - METVS - - - - - a_40 - - a_38 - - METST - - - METS3 - - - - METTH - - - - - METKA - - - - - a_51 - - a_47 - - PYRFU - - - THEKO - - - - a_50 - - PYRAB - - - PYRHO - - - - - - a_55 - - NITMA - - - NANEQ - - - - - a_61 - - a_59 - - THEVO - - - THEAC - - - - PICTO - - - - - a_93 - - a_91 - - a_83 - - a_81 - - a_73 - - a_71 - - a_67 - - a_65 - - PYRAR - - - PYRCJ - - - - PYRAE - - - - a_70 - - PYRIL - - - THENV - - - - - CALMA - - - - a_80 - - a_78 - - a_76 - - SULTO - - - SULAC - - - - SULSO - - - - METS5 - - - - - AERPE - - - - a_90 - - a_88 - - a_86 - - STAMF - - - THEPD - - - - HYPBU - - - - IGNH4 - - - - - KORCR - - - - - - Bacteria - - b_278 - - b_268 - - b_226 - - b_200 - - b_194 - - b_104 - - b_80 - - b_72 - - b_52 - - b_44 - - b_30 - - b_24 - - b_16 - - b_10 - - b_8 - - b_6 - - b_4 - - b_2 - - ECOLI - - - ECO57 - - - - SHIFL - - - - SALTY - - - - YERPE - - - - PHOLU - - - - b_15 - - b_13 - - PHOPR - - - VIBCH - - - - SHEDO - - - - - b_23 - - b_21 - - b_19 - - PSEF5 - - - PSEPF - - - - PSEAE - - - - CHRSD - - - - - b_29 - - b_27 - - RALME - - - RHOFT - - - - DECAR - - - - - b_43 - - b_41 - - b_35 - - b_33 - - NITMU - - - NITEU - - - - THIDE - - - - b_40 - - b_38 - - ALHEH - - - HALHL - - - - NITOC - - - - - THICR - - - - - b_51 - - b_47 - - LEGPN - - - IDILO - - - - b_50 - - XANAC - - - XYLFT - - - - - - b_71 - - b_67 - - b_65 - - b_61 - - b_57 - - b_55 - - SINME - - - RHIEC - - - - AGRT5 - - - - b_60 - - BRAJA - - - RHOPT - - - - - b_64 - - ROSDO - - - RHOS1 - - - - - CAUCR - - - - b_70 - - RHORU - - - ACICY - - - - - - b_79 - - b_77 - - b_75 - - PASMU - - - HAEIN - - - - NEIME - - - - ACIFE - - - - - b_103 - - b_91 - - b_87 - - b_83 - - DESDE - - - DESPS - - - - b_86 - - SYNAS - - - DESOL - - - - - b_90 - - GEOME - - - GEOSL - - - - - b_102 - - b_98 - - b_94 - - ANADE - - - MYXXA - - - - b_97 - - SOLUS - - - ACIBL - - - - - b_101 - - RHOBA - - - OPITE - - - - - - - b_193 - - b_163 - - b_133 - - b_127 - - b_119 - - b_115 - - b_113 - - b_111 - - b_109 - - b_107 - - MYCTU - - - MYCLE - - - - RHOR1 - - - - STRCO - - - - KINRD - - - - THEFY - - - - b_118 - - CORJK - - - KOCRD - - - - - b_126 - - b_124 - - b_122 - - CHLAU - - - ROSCA - - - - HERAU - - - - RUBXD - - - - - b_132 - - b_130 - - DEIRA - - - DEIGD - - - - THETH - - - - - b_162 - - b_154 - - b_152 - - b_146 - - b_144 - - b_142 - - b_140 - - b_138 - - b_136 - - NOSS7 - - - ANAVA - - - - NOSP7 - - - - CYAA2 - - - - ACAMR - - - - MICAN - - - - TRIER - - - - b_151 - - b_149 - - SYNEL - - - SYNY3 - - - - THEEL - - - - - GLOVI - - - - b_161 - - b_159 - - b_157 - - PROMA - - - PROMP - - - - PROMM - - - - SYNS3 - - - - - - b_192 - - b_190 - - b_178 - - b_176 - - b_170 - - b_166 - - CHLPB - - - PROAE - - - - b_169 - - PROVI - - - PELLU - - - - - b_175 - - b_173 - - CHLTE - - - CHLP8 - - - - CHLCH - - - - - CHLTA - - - - b_189 - - b_183 - - b_181 - - FLAJO - - - GRAFK - - - - CYTH3 - - - - b_188 - - b_186 - - BACFR - - - BACTN - - - - PORGI - - - - - - SALRD - - - - - - b_199 - - b_197 - - METI4 - - - AKKM8 - - - - LEPIC - - - - - b_225 - - b_219 - - b_213 - - b_211 - - b_207 - - b_203 - - BACSU - - - BACAN - - - - b_206 - - GEOKA - - - BACHD - - - - - b_210 - - LISMO - - - STAAU - - - - - CLOP1 - - - - Clostridia - - 186801 - Clostridia - class - - - b_218 - - b_216 - - CARHZ - - - THETN - - - - DESHA - - - - EUBR3 - - EUBR3 - - - - - - b_224 - - b_222 - - THELT - - - FERNB - - - - THEMA - - - - - - b_267 - - b_263 - - b_251 - - b_249 - - b_245 - - b_237 - - b_233 - - b_231 - - b_229 - - MYCPN - - - MYCGE - - - - MESFL - - - - UREPA - - - - b_236 - - BORBU - - - TREPA - - - - - b_244 - - b_242 - - b_240 - - CHLPN - - - CHLFF - - - - CHLMU - - - - RICTY - - - - - b_248 - - PELUB - - - BARHE - - - - - FRATU - - - - b_262 - - b_260 - - b_258 - - b_256 - - b_254 - - STRPN - - - STRPY - - - - LACLA - - - - LACAC - - - - BIFLO - - - - FUSNU - - - - - b_266 - - DEHE1 - - - DEHSB - - - - - - b_277 - - b_273 - - b_271 - - THIDN - - - NITSB - - - - SULNB - - - - b_276 - - HELPH - - - CAMJE - - - - - - b_283 - - b_281 - - AQUAE - - - HYDY0 - - - - SULYO - - - - - - \ No newline at end of file diff --git a/forester/data/tol_117.xml b/forester/data/tol_117.xml deleted file mode 100644 index da3a01e..0000000 --- a/forester/data/tol_117.xml +++ /dev/null @@ -1,4815 +0,0 @@ - - - - - cellular_organisms - - Neomura - - - 2759 - Eukaryota - superkingdom - - - Unikonta - - Opisthokonta & Apusozoa - - - Opisthokonta - Fungi/Metazoa group - - - - Holozoa - - - Choanoflagellatea & Metazoa - - Metazoa - - 33208 - Metazoa - kingdom - - - Eumetazoa - - - - Bilateria_Cnidaria - - Bilateria - - Deuterostomia - - - - Chordata - - 7711 - Chordata - phylum - - - Urochordata & Vertebrata - - - 117571 - Euteleostomi - - - Tetrapoda - - Amniota - - - 40674 - Mammalia - class - - - Theria - - - 9347 - Eutheria - - - - 314146 - Euarchontoglires - superorder - - - - 314147 - Glires - Rodents and rabbits - - - - 9989 - Rodentia - order - - - - 39107 - Murinae - subfamily - - - MOUSE - - 10090 - MOUSE - Mus musculus - Mouse - species - - - - RAT - - 10116 - RAT - Rattus norvegicus - Rat - species - - - - - CAVPO - - 10141 - CAVPO - Cavia porcellus - Guinea pig - species - - - - - RABIT - - 9986 - RABIT - Oryctolagus cuniculus - Rabbit - species - - - - - Primates - - 9604 - Hominidae - family - - - HUMAN - - 9606 - HUMAN - Homo sapiens - Human - species - - - - PANTR - - 9598 - PANTR - Pan troglodytes - Chimpanzee - species - - - - - - Laurasiatheria - - 314145 - Laurasiatheria - superorder - - - Carnivora - - 33554 - Carnivora - order - - - CANFA - - 9615 - CANFA - Canis familiaris - Dog - Canis lupus familiaris - subspecies - - - - FELCA - - 9685 - FELCA - Felis catus - Cat - Felis silvestris catus - species - - - - - BOVIN - - 9913 - BOVIN - Bos taurus - Bovine - Bos bovis - species - - - - - - MONDO - - 13616 - MONDO - Monodelphis domestica - Short-tailed gray opossum - species - - - - - ORNAN - - 9258 - ORNAN - Ornithorhynchus anatinus - Duckbill platypus - species - - - - - Diapsida - - Neognathae - - 8825 - Neognathae - superorder - - - CHICK - - 10199408 - CHICK - Gallus gallus - Chicken - Gallus domesticus - species - - - - TAEGU - - 59729 - TAEGU - Taeniopygia guttata - Zebra finch - Poephila guttata - species - - - - - ANOCA - - 795869 - ANOCA - Anolis carolinensis - Voigt, 1832 - Green anole - American chameleon - species - - - - - - XENTR - - 8364 - XENTR - Xenopus tropicalis - Western clawed frog - Silurana tropicalis - species - - - - - Teleostei - - 32443 - Teleostei - - - - 32485 - Percomorpha - - - Smegmamorpha - - GASAC - - 69293 - GASAC - Gasterosteus aculeatus - Three-spined stickleback - species - - - - ORYLA - - 8090 - ORYLA - Oryzias latipes - Medaka fish - Japanese ricefish - species - - - - - - 31031 - Tetraodontidae - puffers - family - - - FUGRU - - 31033 - FUGRU - Takifugu rubripes - Japanese pufferfish - Fugu rubripes - species - - - - TETNG - - 99883 - TETNG - Tetraodon nigroviridis - Green puffer - species - - - - - - DANRE - - 7955 - DANRE - Danio rerio - Zebrafish - Brachydanio rerio - species - - - - - - Urochordata - - 7712 - Urochordata - subphylum - - - - 7718 - Ciona - genus - - - CIOIN - - 7719 - CIOIN - Ciona intestinalis - Transparent sea squirt - Ascidia intestinalis - species - - - - CIOSA - - 51511 - CIOSA - Ciona savignyi - Pacific transparent sea squirt - species - - - - - OIKDI - - 34765 - OIKDI - Oikopleura dioica - Tunicate - species - - - - - - BRAFL - - 7739 - BRAFL - Branchiostoma floridae - Florida lancelet - Amphioxus - species - - - - - Hemichordata & Echinodermata - - STRPU - - 7668 - STRPU - Strongylocentrotus purpuratus - Purple sea urchin - species - - - - SACKO - - 10224 - SACKO - Saccoglossus kowalevskii - Agassiz, 1873 - Acorn worm - species - - - - - - Protostomia - - Ecdysozoa - - - 6656 - Arthropoda - phylum - - - Pancrustacea - - - 33340 - Neoptera - subclass - - - Endopterygota & Aphidiformes - - - 33392 - Endopterygota - infraclass - - - Lepidoptera_Diptera - - - 7147 - Diptera - order - - - - 7157 - Culicidae - mosquitos - family - - - AEDAE - - 7159 - AEDAE - Aedes aegypti - Yellowfever mosquito - Culex aegypti - species - - - - ANOGA - - 7165 - ANOGA - Anopheles gambiae - African malaria mosquito - species - - - - CULPI - - 7175 - CULPI - Culex pipiens - House mosquito - species - - - - - - 32341 - Sophophora - subgenus - - - DROME - - 7227 - DROME - Drosophila melanogaster - Fruit fly - species - - - - DROPS - - 46245 - DROPS - Drosophila pseudoobscura pseudoobscura - Fruit fly - subspecies - - - - - - BOMMO - - 7091 - BOMMO - Bombyx mori - Silk moth - species - - - - - - 7400 - Apocrita - wasps, ants and bees - - - APIME - - 7460 - APIME - Apis mellifera - Honeybee - species - - - - NASVI - - 7425 - NASVI - Nasonia vitripennis - Parasitic wasp - species - - - - - - ACYPI - - 7029 - ACYPI - Acyrthosiphon pisum - Pea aphid - Acyrhosiphum pisum - species - - - - - TRICA - - 7070 - TRICA - Tribolium castaneum - Red flour beetle - species - - - - - DAPPU - - 6669 - DAPPU - Daphnia pulex - Water flea - species - - - - - IXOSC - - 6945 - IXOSC - Ixodes scapularis - Black-legged tick - Deer tick - species - - - - - - 119089 - Chromadorea - class - - - - - nematode Clade V - - Caenorhabditis - - 6237 - Caenorhabditis - genus - - - CAEEL - - 6239 - CAEEL - Caenorhabditis elegans - species - - - - CAEBR - - 6238 - CAEBR - Caenorhabditis briggsae - species - - - - - PRIPA - - 54126 - PRIPA - Pristionchus pacificus - species - - - - - BRUMA - - 6279 - BRUMA - Brugia malayi - Filarial nematode worm - species - - - - - - Lophotrochozoa - - Annelida & Mollusca - - - 6340 - Annelida - phylum - - - CAP - - 283909 - Capitella teleta - species - - - - HELRO - - 6412 - HELRO - Helobdella robusta - Californian leech - species - - - - - LOTGI - - 225164 - LOTGI - Lottia gigantea - Owl limpet - species - - - - - - 6157 - Platyhelminthes - phylum - - - SCHMA - - 6183 - SCHMA - Schistosoma mansoni - Blood fluke - species - - - - SCHMD - - 79327 - SCHMD - Schmidtea mediterranea - Freshwater planarian flatworm - species - - - - - - - - Cnidaria - - 6073 - Cnidaria - phylum - - - NEMVE - - 45351 - NEMVE - Nematostella vectensis - Starlet sea anemone - species - - - - HYDMA - - 9119928 - HYDMA - Hydra magnipapillata - Ito, 1947 - species - http://www.nig.ac.jp/labs/OntoGen/magni.html - - - - - - TRIAD - - 10228 - TRIAD - Trichoplax adhaerens - species - - - - - - - AMPQU - - 400682 - AMPQU - Amphimedon queenslandica - species - - - - - - 81524 - Codonosigidae - family - - - MONBE - - 81824 - MONBE - Monosiga brevicollis - Choanoflagellate - species - - - - SALROS - - 222925 - Salpingoeca rosetta - Proterospongia sp. ATCC 50818 - species - - - - - - Ichthyophonida & Filasterea - - - 198625 - Ichthyophonida - order - - - AMOPA - - 4881 - AMOPA - Amoebidium parasiticum - species - - - - SPHARC - - 72019 - Sphaeroforma arctica - species - - - - - - Filasterea - - - - - - - MINVIB - - 134558 - Ministeria vibrans - species - - - - CAPOWC - - 192875 - Capsaspora owczarzaki - species - - - - - - - - Holomycota - Nucletmycea - - - Fungi - - 4751 - Fungi - kingdom - - - Dikarya & Mucoromycotina & Blastocladiomycota & Chytridiomycota - - Dikarya & Mucoromycotina & Blastocladiomycota - - Dikarya & Mucoromycotina - - - 451864 - Dikarya - subkingdom - - - - - - - - 4890 - Ascomycota - phylum - - - Pezizomycotina_Saccharomycetales - - - 147538 - Pezizomycotina - subphylum - - - Sordariomycetes_Dothideomycetes_Eurotiales - - Sordariomycetes_Dothideomycetes - - - 147541 - Dothideomycetes - class - - - - 41254 - Mycosphaerella - genus - - - MYCFI - - 83344 - Mycosphaerella fijiensis - species - - - - MYCGR - - 54734 - MYCGR - Mycosphaerella graminicola - Septoria tritici - species - - - - MYCPOP - - 85929 - Mycosphaerella populorum - Septoria musiva - species - - - - MYCPJ - - 64363 - MYCPJ - Mycosphaerella pini - Red band needle blight disease fungus - Dothistroma septosporum - Dothistroma pini - species - - - - - - 715340 - Pleosporineae - suborder - - - - 28556 - Pleosporaceae - family - - - PYRTR - - 426418 - PYRTR - Pyrenophora tritici-repentis (strain Pt-1C-BFP) - Wheat tan spot fungus - Drechslera tritici-repentis - - - - COCHE - - 5016 - COCHE - Cochliobolus heterostrophus - Drechslera maydis - species - - - - - PHANO - - 13684 - PHANO - Phaeosphaeria nodorum - Glume blotch fungus - Septoria nodorum - species - - - - - - - 147550 - Sordariomycetes - class - - - Magnaporthales_Hypocreales - - - 5125 - Hypocreales - order - - - TRIVE - - 29875 - TRIVE - Trichoderma virens - species - - - - GIBZE - - 5518 - GIBZE - Gibberella zeae - Wheat head blight fungus - Fusarium graminearum - species - - - - - MAGGR - - 148305 - MAGGR - Magnaporthe grisea - Rice blast fungus - Pyricularia grisea - species - - - - - - 5139 - Sordariales - order - - - - 35718 - Chaetomiaceae - family - - - CHAGB - - 1029505 - CHAGB - Chaetomium globosum - Kunze 1817 - Soil fungus - species - - - - THITE - - 193532 - Thielavia terrestris - Malloch & Cain 1972 - Acremonium alabamense - species - - - - - NEUCR - - 5141 - NEUCR - Neurospora crassa - species - - - - - - - - 28568 - Trichocomaceae - family - - - Neosartorya_Emericella - - NEOFI - - 331117 - NEOFI - Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) - Aspergillus fischerianus - - - - EMENI - - 195546 - EMENI - Emericella nidulans - Vuill. 1927 - Aspergillus nidulans - species - - - - - - 5052 - Aspergillus - genus - - - ASPFL - - 5059 - ASPFL - Aspergillus flavus - species - - - - ASPNG - - 5061 - ASPNG - Aspergillus niger - species - - - - - - - - 33183 - Onygenales - order - - - COCIM - - 5501 - COCIM - Coccidioides immitis - Valley fever fungus - species - - - - UNCRE - - 336963 - UNCRE - Uncinocarpus reesii (strain UAMH 1704) - - - - - - - 4892 - Saccharomycetales - budding yeasts - order - - - Candida_Debaryomyces_Saccharomycetacea - - - 4893 - Saccharomycetaceae - family - - - Saccharomyces_Pichia - - Saccharomyces - - YEAST - - 4932 - YEAST - Saccharomyces cerevisiae - Baker's yeast - species - - - - SACCA - - 27288 - SACCA - Saccharomyces castellii - Yeast - species - - - - - PICAN - - 4905 - PICAN - Pichia angusta - Yeast - Hansenula polymorpha - species - - - - - Kluyveromyces_Ashbya - - ASHGO - - 33169 - ASHGO - Ashbya gossypii - Yeast - Eremothecium gossypii - species - - - - Kluyveromyces - - KLULA - - 28985 - KLULA - Kluyveromyces lactis - Yeast - Candida sphaerica - species - - - - KLUWA - - 4914 - KLUWA - Kluyveromyces waltii - Yeast - species - - - - - - - Candida_Debaryomyces - - - 5475 - Candida - genus - - - CANAL - - 5476 - CANAL - Candida albicans - Yeast - species - - - - CANTR - - 5482 - CANTR - Candida tropicalis - Yeast - species - - - - - DEBHA - - 4959 - DEBHA - Debaryomyces hansenii - Yeast - Torulaspora hansenii - species - - - - - - YARLI - - 4952 - YARLI - Yarrowia lipolytica - Candida lipolytica - species - - - - - - - 451866 - Taphrinomycotina - subphylum - - - - 4895 - Schizosaccharomyces - genus - - - SCHPO - - 4896 - SCHPO - Schizosaccharomyces pombe - Fission yeast - species - - - - SCHJP - - 4897 - SCHJP - Schizosaccharomyces japonicus - Fission yeast - species - - - - - PNECA - - 4754 - PNECA - Pneumocystis carinii - species - - - - - - - 5204 - Basidiomycota - phylum - - - Agaricomycotina & Ustilago & Pucciniomycotina - - Agaricomycotina & Ustilago - - - 5302 - Agaricomycotina - - - - 155619 - Homobasidiomycetes - class - - - Evolution of complex fruiting–body morphologies in homobasidiomycetes - - - Agaricomycetidae & Gloeophyllum & Aphyllophorales - - Agaricomycetidae & Gloeophyllum - - - 452333 - Agaricomycetidae - subclass - - - - 5338 - Agaricales - order - - - Agaricus & Coprinopsis & Laccaria - - Agaricus & Coprinopsis - - AGABB - - 192524 - Agaricus bisporus var. burnettii - - - - COPCI - - 5346 - COPCI - Coprinopsis cinerea - Inky cap fungus - Hormographiella aspergillata - species - - - - - LACBI - - 29883 - LACBI - Laccaria bicolor - Bicoloured deceiver - Laccaria laccata var. bicolor - species - - - - - PLEOS - - 5322 - PLEOS - Pleurotus ostreatus - Oyster mushroom - White-rot fungus - species - - - - - SERLA - - 85982 - Serpula lacrymans - dry rot fungus - species - - - - - GLOTR - - 104355 - GLOTR - Gloeophyllum trabeum - Brown rot fungus - species - - - - - - 5303 - Aphyllophorales - Gäum. (1926) - Shelf Fungi - Polyporales - order - - - Postia & Fomitopsis & Wolfiporia - - Postia & Fomitopsis - - POSPL - - 104341 - Postia placenta - species - - - - FOMPIN - - 40483 - Fomitopsis pinicola - P. Karst. 1881 - Red banded polypore - Fomes pinicola - species - - - - - WOLCOC - - 81056 - Wolfiporia cocos - species - - - - - CERSU - - 42742 - CERSU - Ceriporiopsis subvermispora - species - - - - - - HETAN - - 13563 - HETAN - Heterobasidion annosum - Root rot fungus - species - - - - - - 5215 - Tremellaceae - family - - - CRYNE - - 5207 - CRYNE - Cryptococcus neoformans - Filobasidiella neoformans - species - - - - TREME - - 1029985 - TREME - Tremella mesenterica - Pers. 1800 - Jelly fungus - Yellow Brain - Tremella lutescens - species - - - - - - USTMA - - 5270 - USTMA - Ustilago maydis - Smut fungus - species - - - - - - 29000 - Pucciniomycotina - subphylum - - - - 5258 - Pucciniales - rusts - order - - - PUCGR - - 1029947 - PUCGR - Puccinia graminis - Pers. 1794 - Black stem rust fungus - Wheat rust - species - - - - MELLP - - 156696 - MELLP - Melampsora laricis-populina - Kleb. 1902 - Melampsora larici-populina - Melampsora laricipopulina - species - - - - - - 89013 - mitosporic Sporidiobolales - - - SPORO - - 1013696 - Sporobolomyces roseus - Kluyver & C. B. Niel 1924 - species - - - - RHOGR - - 29898 - RHOGR - Rhodotorula graminis - Yeast - species - - - - - - - WALSE - - 148960 - WALSE - Wallemia sebi - species - - - - - - - 451507 - Mucoromycotina - subphylum - - - - 34489 - Mucoraceae - family - - - MUCCI - - 36080 - MUCCI - Mucor circinelloides - Mucor griseo-roseus - species - - - - PHYBL - - 4837 - PHYBL - Phycomyces blakesleeanus - species - - - - RHIOR - - 64495 - RHIOR - Rhizopus oryzae - Rhizopus delemar - species - - - - - MORVER - - 78898 - Mortierella verticillata - species - - - - - - ALLMA - - 28583 - ALLMA - Allomyces macrogynus - species - - - - - - 451435 - Chytridiomycetes - class - - - BATDE - - 109871 - BATDE - Batrachochytrium dendrobatidis - Frog chytrid fungus - species - - - - SPIPN - - SPIPN - Spizellomyces punctatus - species - - - - - - ENCCU - - 6035 - ENCCU - Encephalitozoon cuniculi - Microsporidian parasite - species - - - - - Fonticula & Nucleariidae - - - - FONALB - - 691883 - Fonticula alba - Fonticula alba Worley, Raper & Hohl. 1979 - species - - - - NUCSIM - - 154970 - Nuclearia simplex - species - - - - - - - THETRA - - 529818 - Thecamonas trahens - species - - - - - Amoebozoa - - 554915 - Amoebozoa - - - Dictyostelium - - 5782 - Dictyostelium - genus - - - DICDI - - 44689 - DICDI - Dictyostelium discoideum - Slime mold - species - - - - DICPU - - 5786 - DICPU - Dictyostelium purpureum - Slime mold - species - - - - - ENTHI - - 5759 - ENTHI - Entamoeba histolytica - species - - - - - - Bikonta - - - - Corticata - - Archaeplastida - - - 33090 - Viridiplantae - green plants - kingdom - - - - 3193 - Embryophyta - - - - 58023 - Tracheophyta - - - - 3398 - Magnoliophyta - - - - 91827 - core eudicotyledons - - - - 71275 - rosids - subclass - - - fabids & Brassicales - - - 91835 - fabids - - - - 3646 - Malpighiales - order - - - POPTR - - 3694 - POPTR - Populus trichocarpa - Western balsam poplar - Populus balsamifera subsp. trichocarpa - species - - - - MANES - - 3983 - MANES - Manihot esculenta - Tapioca - Jatropha manihot - species - - - - - Fabales & Cucurbitales - - SOYBN - - 3847 - SOYBN - Glycine max - cv. Wye - Soybean - Glycine hispida - species - - - - CUCSA - - 3659 - CUCSA - Cucumis sativus - Cucumber - species - - - - - - - 3701 - Arabidopsis - genus - - - ARATH - - 3702 - ARATH - Arabidopsis thaliana - Mouse-ear cress - species - - - - ARALY - - 59689 - ARALY - Arabidopsis lyrata - Lyre-leaved rock-cress - species - - - - - - VITVI - - 582304 - VITVI - Vitis vinifera - Grape - species - - - - - MIMGU - - 4155 - MIMGU - Mimulus guttatus - Yellow monkey flower - Yellow monkey flower - species - - - - - - 4479 - Poaceae - family - - - - 359160 - BEP clade - - - - 4527 - Oryza - genus - - - ORYSJ - - 39947 - ORYSJ - Oryza sativa subsp. japonica - Rice - - - - ORYSA - - 4530 - ORYSA - Oryza sativa - Rice - species - - - - - BRADI - - BRADI - Brachypodium distachyon - Purple false brome - Trachynia distachya - species - - - - - SORBI - - 4558 - SORBI - Sorghum bicolor - Sorghum - Sorghum vulgare - species - - - - - - SELMO - - 34167 - SELMO - Selaginella mollis - Moss - species - - - - - PHYPA - - 145481 - PHYPA - Physcomitrella patens subsp. patens - Moss - subspecies - - - - - - 3041 - Chlorophyta - phylum - - - - 13792 - Mamiellales - order - - - - 70447 - Ostreococcus - genus - - - OSTLU - - 436017 - OSTLU - Ostreococcus lucimarinus (strain CCE9901) - - - - OSTTA - - 70448 - OSTTA - Ostreococcus tauri - species - - - - OSTRC - - 385169 - Ostreococcus sp. RCC809 - species - - - - - - 38832 - Micromonas - genus - - - MICPC - - 564608 - MICPC - Micromonas pusilla (strain CCMP1545) - Picoplanktonic green alga - - - - MICSR - - 296587 - MICSR - Micromonas sp. (strain RCC299 / NOUM17) - Picoplanktonic green alga - Micromonas sp. RCC299 - species - - - - - - Trebouxiophyceae_Chlorophyceae - - - 3042 - Chlamydomonadales - order - - - CHLRE - - 3055 - CHLRE - Chlamydomonas reinhardtii - species - - - - VOLCA - - 3067 - VOLCA - Volvox carteri - species - - - - - - 75966 - Trebouxiophyceae - class - - - CHLSP - - 554065 - Chlorella variabilis - Chlorella sp. NC64A - species - - - - CHLVUL - - 574566 - Coccomyxa sp. C-169 - Chlorella vulgaris C-169 - species - - - - - - - - CYAME - - 45157 - CYAME - Cyanidioschyzon merolae - Red alga - species - http://merolae.biol.s.u-tokyo.ac.jp/ - - - - - Chromalveolate - - - - Heterokonta_Alveolata - - Alveolata - - 33630 - Alveolata - - - - 5794 - Apicomplexa - phylum - - - - 422676 - Aconoidasida - class - - - - 5820 - Plasmodium - genus - - - PLAFA - - 5833 - PLAFA - Plasmodium falciparum - species - - - - PLAYO - - 73239 - PLAYO - Plasmodium yoelii yoelii - subspecies - - - - PLACH - - 5825 - PLACH - Plasmodium chabaudi - species - - - - - Theileria - - 5873 - Theileria - genus - - - THEPA - - 5875 - THEPA - Theileria parva - species - - - - THEAN - - 5874 - THEAN - Theileria annulata - species - - - - - - - 423054 - Eimeriorina - suborder - - - - 5806 - Cryptosporidium - genus - - - CRYHO - - 237895 - CRYHO - Cryptosporidium hominis - species - - - - CRYPV - - 5807 - CRYPV - Cryptosporidium parvum - species - - - - - TOXGO - - 5811 - TOXGO - Toxoplasma gondii - species - - - - - - - 6020 - Oligohymenophorea - class - - - TETTH - - 5911 - TETTH - Tetrahymena thermophila - species - - - - PARTE - - 5888 - PARTE - Paramecium tetraurelia - species - - - - - - Heterokonta - - 33634 - stramenopiles - Chromophyta - - - Pelagophyceae_Bacillariophyta - - - 2836 - Bacillariophyta - diatoms - phylum - - - - 33850 - Bacillariophycidae - - - PHATR - - 912693 - PHATR - Phaeodactylum tricornutum - Bohlin - species - - - - FRACY - - 911694 - FRACY - Fragilariopsis cylindrus - Krieger - Nitzschia cylindrus - species - - - - - THAPS - - 916868 - THAPS - Thalassiosira pseudonana - Hasle & Heimdal - Marine diatom - species - - - - - AURAN - - 912461 - AURAN - Aureococcus anophagefferens - Hargraves & Sieburth - species - - - - - - 4783 - Phytophthora - genus - - - PHYIN - - 4787 - PHYIN - Phytophthora infestans - Potato late blight fungus - species - - - - PHYRM - - 164328 - PHYRM - Phytophthora ramorum - Sudden oak death agent - species - - - - PHYSO - - 67593 - Phytophthora sojae - species - - - - - - - EMIHU - - 2903 - EMIHU - Emiliania huxleyi - species - - - - - - Excavata - - - - Kinetoplastida_Heterolobosea - - - 5654 - Trypanosomatidae - family - - - LEIMA - - 5664 - LEIMA - Leishmania major - species - - - - TRYBB - - 5702 - TRYBB - Trypanosoma brucei brucei - subspecies - - - - - NAEGR - - 5762 - NAEGR - Naegleria gruberi - Amoeba - species - - - - - Metamonada - - GIALA - - 5741 - GIALA - Giardia lamblia - Giardia intestinalis - Giardia lamblia - species - - - - TRIVA - - 5722 - TRIVA - Trichomonas vaginalis - species - - - - - - - - Archaea - - a_62 - - a_56 - - a_52 - - a_44 - - a_28 - - a_26 - - a_16 - - a_14 - - a_12 - - a_6 - - a_4 - - a_2 - - METAC - - 2214 - METAC - Methanosarcina acetivorans - species - - - - METBF - - 269797 - METBF - Methanosarcina barkeri (strain Fusaro / DSM 804) - - - - - METMA - - 2209 - METMA - Methanosarcina mazei - Methanosarcina frisia - species - - - - - METBU - - 259564 - METBU - Methanococcoides burtonii (strain DSM 6242) - - - - - a_11 - - a_9 - - METHU - - 2203 - METHU - Methanospirillum hungatei - species - - - - METB6 - - 456442 - METB6 - Methanoregula boonei (strain 6A8) - - - - - METMJ - - 368407 - METMJ - Methanoculleus marisnigri (strain ATCC 35101 / DSM 1498 / JR1) - - - - - - METLZ - - 410358 - METLZ - Methanocorpusculum labreanum (strain ATCC 43576 / DSM 4855 / Z) - - - - - METTP - - 349307 - METTP - Methanosaeta thermophila (strain DSM 6194 / PT) - Methanothrix thermophila (strain DSM 6194 / PT) - - - - - a_25 - - a_23 - - a_19 - - NATPH - - 2257 - NATPH - Natronomonas pharaonis - Natronobacterium pharaonis - species - - - - HALMA - - 2238 - HALMA - Haloarcula marismortui - Halobacterium marismortui - species - - - - - a_22 - - HALSP - - 2243 - HALSP - Halobacterium sp. - species - - - - HALS3 - - 478009 - HALS3 - Halobacterium salinarum (strain ATCC 29341 / DSM 671 / R1) - - - - - - HALWD - - 362976 - HALWD - Haloquadratum walsbyi (strain DSM 16790) - - - - - - ARCFU - - 2234 - ARCFU - Archaeoglobus fulgidus - species - - - - - a_43 - - a_41 - - a_35 - - a_31 - - METJA - - 2190 - METJA - Methanocaldococcus jannaschii - Methanococcus jannaschii - species - - - - META3 - - 419665 - META3 - Methanococcus aeolicus (strain Nankai-3 / ATCC BAA-1280) - - - - - a_34 - - METMP - - 39152 - METMP - Methanococcus maripaludis - species - - - - METVS - - 406327 - METVS - Methanococcus vannielii (strain SB / ATCC 35089 / DSM 1224) - - - - - - a_40 - - a_38 - - METST - - 339860 - METST - Methanosphaera stadtmanae (strain DSM 3091) - - - - METS3 - - 420247 - METS3 - Methanobrevibacter smithii (strain PS / ATCC 35061 / DSM 861) - - - - - METTH - - 187420 - METTH - Methanobacterium thermoautotrophicum - - - - - - METKA - - 2320 - METKA - Methanopyrus kandleri - species - - - - - - a_51 - - a_47 - - PYRFU - - 2261 - PYRFU - Pyrococcus furiosus - species - - - - THEKO - - THEKO - - - - - a_50 - - PYRAB - - 29292 - PYRAB - Pyrococcus abyssi - species - - - - PYRHO - - 53953 - PYRHO - Pyrococcus horikoshii - species - - - - - - - a_55 - - NITMA - - NITMA - - - - NANEQ - - 228908 - NANEQ - Nanoarchaeum equitans (strain Kin4-M) - - - - - - a_61 - - a_59 - - THEVO - - 273116 - THEVO - Thermoplasma volcanium (strain ATCC 51530 / DSM 4299 / IFO 15438 / JCM 9571 / GSS1) - - - - THEAC - - 273075 - THEAC - Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165) - - - - - PICTO - - 263820 - PICTO - Picrophilus torridus (strain ATCC 700027 / DSM 9790 / JCM 10055 / NBRC 100828) - - - - - - a_93 - - a_91 - - a_83 - - a_81 - - a_73 - - a_71 - - a_67 - - a_65 - - PYRAR - - 340102 - PYRAR - Pyrobaculum arsenaticum (strain DSM 13514 / JCM 11321) - - - - PYRCJ - - 410359 - PYRCJ - Pyrobaculum calidifontis (strain JCM 11548 / VA1) - - - - - PYRAE - - 13773 - PYRAE - Pyrobaculum aerophilum - species - - - - - a_70 - - PYRIL - - 384616 - PYRIL - Pyrobaculum islandicum (strain DSM 4184 / JCM 9189) - - - - THENV - - 444157 - THENV - Thermoproteus neutrophilus (strain DSM 2338 / JCM 9278 / V24Sta) - - - - - - CALMA - - 28682 - CALMA - Calidris maritima - Purple sandpiper - Erolia maritima - species - - - - - a_80 - - a_78 - - a_76 - - SULTO - - 273063 - SULTO - Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) - - - - SULAC - - 2285 - SULAC - Sulfolobus acidocaldarius - species - - - - - SULSO - - 2287 - SULSO - Sulfolobus solfataricus - species - - - - - METS5 - - 399549 - METS5 - Metallosphaera sedula (strain ATCC 51363 / DSM 5348) - - - - - - AERPE - - 56636 - AERPE - Aeropyrum pernix - species - - - - - a_90 - - a_88 - - a_86 - - STAMF - - 399550 - STAMF - Staphylothermus marinus (strain ATCC 43588 / DSM 3639 / F1) - - - - THEPD - - 368408 - THEPD - Thermofilum pendens (strain Hrk 5) - - - - - HYPBU - - 415426 - HYPBU - Hyperthermus butylicus (strain DSM 5456 / JCM 9403) - - - - - IGNH4 - - 453591 - IGNH4 - Ignicoccus hospitalis (strain KIN4/I / DSM 18386 / JCM 14125) - - - - - - KORCR - - KORCR - - - - - - - Bacteria - - b_278 - - b_268 - - b_226 - - b_200 - - b_194 - - b_104 - - b_80 - - b_72 - - b_52 - - b_44 - - b_30 - - b_24 - - b_16 - - b_10 - - b_8 - - b_6 - - b_4 - - b_2 - - ECOLI - - 83333 - ECOLI - Escherichia coli (strain K12) - - - - ECO57 - - 83334 - ECO57 - Escherichia coli O157:H7 - - - - - SHIFL - - 623 - SHIFL - Shigella flexneri - species - - - - - SALTY - - 90371 - SALTY - Salmonella typhimurium - - - - - YERPE - - 632 - YERPE - Yersinia pestis - species - - - - - PHOLU - - 29488 - PHOLU - Photorhabdus luminescens - Xenorhabdus luminescens - species - - - - - b_15 - - b_13 - - PHOPR - - 74109 - PHOPR - Photobacterium profundum - Photobacterium sp. (strain SS9) - species - - - - VIBCH - - 666 - VIBCH - Vibrio cholerae - species - - - - - SHEDO - - 318161 - SHEDO - Shewanella denitrificans (strain OS217 / ATCC BAA-1090 / DSM 15013) - - - - - - b_23 - - b_21 - - b_19 - - PSEF5 - - 220664 - PSEF5 - Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477) - - - - PSEPF - - 205922 - PSEPF - Pseudomonas fluorescens (strain Pf0-1) - - - - - PSEAE - - 287 - PSEAE - Pseudomonas aeruginosa - species - - - - - CHRSD - - 290398 - CHRSD - Chromohalobacter salexigens (strain DSM 3043 / ATCC BAA-138 / NCIMB 13768) - - - - - - b_29 - - b_27 - - RALME - - 266264 - RALME - Ralstonia metallidurans (strain CH34 / ATCC 43123 / DSM 2839) - - - - RHOFT - - RHOFT - - - - - DECAR - - 159087 - DECAR - Dechloromonas aromatica (strain RCB) - - - - - - b_43 - - b_41 - - b_35 - - b_33 - - NITMU - - 323848 - NITMU - Nitrosospira multiformis (strain ATCC 25196 / NCIMB 11849) - - - - NITEU - - 915 - NITEU - Nitrosomonas europaea - species - - - - - THIDE - - 36861 - THIDE - Thiobacillus denitrificans - species - - - - - b_40 - - b_38 - - ALHEH - - 187272 - ALHEH - Alkalilimnicola ehrlichei (strain MLHE-1) - - - - HALHL - - 349124 - HALHL - Halorhodospira halophila (strain DSM 244 / SL1) - Ectothiorhodospira halophila (strain DSM 244 / SL1) - - - - - NITOC - - 323261 - NITOC - Nitrosococcus oceani (strain ATCC 19707 / NCIMB 11848) - - - - - - THICR - - 317025 - THICR - Thiomicrospira crunogena (strain XCL-2) - - - - - - b_51 - - b_47 - - LEGPN - - 446 - LEGPN - Legionella pneumophila - species - - - - IDILO - - 135577 - IDILO - Idiomarina loihiensis - species - - - - - b_50 - - XANAC - - 92829 - XANAC - Xanthomonas axonopodis pv. citri - Citrus canker - - - - XYLFT - - 183190 - XYLFT - Xylella fastidiosa (strain Temecula1 / ATCC 700964) - - - - - - - b_71 - - b_67 - - b_65 - - b_61 - - b_57 - - b_55 - - SINME - - SINME - - - - RHIEC - - 347834 - RHIEC - Rhizobium etli (strain CFN 42 / ATCC 51251) - - - - - AGRT5 - - 176299 - AGRT5 - Agrobacterium tumefaciens (strain C58 / ATCC 33970) - - - - - b_60 - - BRAJA - - 375 - BRAJA - Bradyrhizobium japonicum - species - - - - RHOPT - - 395960 - RHOPT - Rhodopseudomonas palustris (strain TIE-1) - - - - - - b_64 - - ROSDO - - 375451 - ROSDO - Roseobacter denitrificans (strain ATCC 33942 / OCh 114) - Erythrobacter sp. (strain OCh 114) - Roseobacter denitrificans - - - - RHOS1 - - 349101 - RHOS1 - Rhodobacter sphaeroides (strain ATCC 17029 / ATH 2.4.9) - - - - - - CAUCR - - 155892 - CAUCR - Caulobacter crescentus - Caulobacter vibrioides - species - - - - - b_70 - - RHORU - - 1085 - RHORU - Rhodospirillum rubrum - species - - - - ACICY - - 524 - ACICY - Acidiphilium cryptum - species - - - - - - - b_79 - - b_77 - - b_75 - - PASMU - - 747 - PASMU - Pasteurella multocida - species - - - - HAEIN - - 727 - HAEIN - Haemophilus influenzae - species - - - - - NEIME - - 487 - NEIME - Neisseria meningitidis - species - - - - - ACIFE - - 905 - ACIFE - Acidaminococcus fermentans - species - - - - - - b_103 - - b_91 - - b_87 - - b_83 - - DESDE - - 876 - DESDE - Desulfovibrio desulfuricans - species - - - - DESPS - - 84980 - DESPS - Desulfotalea psychrophila - species - - - - - b_86 - - SYNAS - - 56780 - SYNAS - Syntrophus aciditrophicus (strain SB) - - - - DESOL - - DESOL - - - - - - b_90 - - GEOME - - 28232 - GEOME - Geobacter metallireducens - species - - - - GEOSL - - 35554 - GEOSL - Geobacter sulfurreducens - species - - - - - - b_102 - - b_98 - - b_94 - - ANADE - - 290397 - ANADE - Anaeromyxobacter dehalogenans (strain 2CP-C) - - - - MYXXA - - 34 - MYXXA - Myxococcus xanthus - species - - - - - b_97 - - SOLUS - - 332163 - SOLUS - Solibacter usitatus - species - - - - ACIBL - - 204669 - ACIBL - Acidobacteria bacterium (strain Ellin345) - - - - - - b_101 - - RHOBA - - 265606 - RHOBA - Rhodopirellula baltica - species - - - - OPITE - - OPITE - - - - - - - - b_193 - - b_163 - - b_133 - - b_127 - - b_119 - - b_115 - - b_113 - - b_111 - - b_109 - - b_107 - - MYCTU - - 1773 - MYCTU - Mycobacterium tuberculosis - species - - - - MYCLE - - 1769 - MYCLE - Mycobacterium leprae - species - - - - - RHOR1 - - RHOR1 - - - - - STRCO - - 1902 - STRCO - Streptomyces coelicolor - species - - - - - KINRD - - 266940 - KINRD - Kineococcus radiotolerans (strain ATCC BAA-149 / DSM 14245 / SRS30216) - - - - - THEFY - - 269800 - THEFY - Thermobifida fusca (strain YX) - - - - - b_118 - - CORJK - - 306537 - CORJK - Corynebacterium jeikeium (strain K411) - - - - KOCRD - - 378753 - KOCRD - Kocuria rhizophila (strain ATCC 9341 / DSM 348 / NBRC 103217 / DC2201) - - - - - - b_126 - - b_124 - - b_122 - - CHLAU - - 1108 - CHLAU - Chloroflexus aurantiacus - species - - - - ROSCA - - 74638 - ROSCA - Rosa carolina - Pasture rose - species - - - - - HERAU - - 65 - HERAU - Herpetosiphon aurantiacus - Herpetosiphon giganteus - species - - - - - RUBXD - - 266117 - RUBXD - Rubrobacter xylanophilus (strain DSM 9941 / NBRC 16129) - - - - - - b_132 - - b_130 - - DEIRA - - 1299 - DEIRA - Deinococcus radiodurans - species - - - - DEIGD - - 319795 - DEIGD - Deinococcus geothermalis (strain DSM 11300) - - - - - THETH - - 274 - THETH - Thermus thermophilus - species - - - - - - b_162 - - b_154 - - b_152 - - b_146 - - b_144 - - b_142 - - b_140 - - b_138 - - b_136 - - NOSS7 - - 28072 - NOSS7 - Nostoc sp. (strain PCC 7524) - species - - - - ANAVA - - 1172 - ANAVA - Anabaena variabilis - species - - - - - NOSP7 - - 63737 - NOSP7 - Nostoc punctiforme (strain ATCC 29133 / PCC 73102) - - - - - CYAA2 - - CYAA2 - - - - - ACAMR - - 155978 - ACAMR - Acaryochloris marina - species - - - - - MICAN - - 449447 - MICAN - Microcystis aeruginosa (strain NIES-843) - - - - - TRIER - - 1206 - TRIER - Trichodesmium erythraeum - species - - - - - b_151 - - b_149 - - SYNEL - - 32046 - SYNEL - Synechococcus elongatus - species - - - - SYNY3 - - 1148 - SYNY3 - Synechocystis sp. (strain PCC 6803) - species - - - - - THEEL - - THEEL - - - - - - GLOVI - - 33072 - GLOVI - Gloeobacter violaceus - species - - - - - b_161 - - b_159 - - b_157 - - PROMA - - 1219 - PROMA - Prochlorococcus marinus - species - - - - PROMP - - 59919 - PROMP - Prochlorococcus marinus subsp. pastoris (strain CCMP1986 / MED4) - - - - - PROMM - - 74547 - PROMM - Prochlorococcus marinus (strain MIT 9313) - - - - - SYNS3 - - 64471 - SYNS3 - Synechococcus sp. (strain CC9311) - species - - - - - - - b_192 - - b_190 - - b_178 - - b_176 - - b_170 - - b_166 - - CHLPB - - 331678 - CHLPB - Chlorobium phaeobacteroides (strain BS1) - - - - PROAE - - 1102 - PROAE - Prosthecochloris aestuarii - species - - - - - b_169 - - PROVI - - 290318 - PROVI - Prosthecochloris vibrioformis (strain DSM 265) - Chlorobium vibrioforme subsp. thiosulfatophilum (strain DSM 265) - Chlorobium phaeovibrioides (strain DSM 265) - - - - PELLU - - 1100 - PELLU - Pelodictyon luteolum - species - - - - - - b_175 - - b_173 - - CHLTE - - 1097 - CHLTE - Chlorobium tepidum - species - - - - CHLP8 - - 517417 - CHLP8 - Chlorobaculum parvum (strain NCIB 8327) - Chlorobium vibrioforme subsp. thiosulfatophilum (strain DSM 263 / NCIB 8327) - - - - - CHLCH - - 340177 - CHLCH - Chlorobium chlorochromatii (strain CaD3) - - - - - - CHLTA - - 315277 - CHLTA - Chlamydia trachomatis serovar A (strain HAR-13 / ATCC VR-571B) - - - - - b_189 - - b_183 - - b_181 - - FLAJO - - 986 - FLAJO - Flavobacterium johnsoniae - Cytophaga johnsonae - species - - - - GRAFK - - 411154 - GRAFK - Gramella forsetii (strain KT0803) - - - - - CYTH3 - - 269798 - CYTH3 - Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) - - - - - b_188 - - b_186 - - BACFR - - 817 - BACFR - Bacteroides fragilis - species - - - - BACTN - - 818 - BACTN - Bacteroides thetaiotaomicron - species - - - - - PORGI - - 837 - PORGI - Porphyromonas gingivalis - Bacteroides gingivalis - species - - - - - - - SALRD - - 309807 - SALRD - Salinibacter ruber (strain DSM 13855 / M31) - - - - - - - b_199 - - b_197 - - METI4 - - 481448 - METI4 - Methylacidiphilum infernorum (isolate V4) - Methylokorus infernorum (strain V4) - - - - AKKM8 - - 349741 - AKKM8 - Akkermansia muciniphila (strain ATCC BAA-835) - - - - - LEPIC - - 44275 - LEPIC - Leptospira interrogans serogroup Icterohaemorrhagiae serovar copenhageni - - - - - - b_225 - - b_219 - - b_213 - - b_211 - - b_207 - - b_203 - - BACSU - - 1423 - BACSU - Bacillus subtilis - species - - - - BACAN - - 1392 - BACAN - Bacillus anthracis - species - - - - - b_206 - - GEOKA - - 1462 - GEOKA - Geobacillus kaustophilus - species - - - - BACHD - - 86665 - BACHD - Bacillus halodurans - species - - - - - - b_210 - - LISMO - - 1639 - LISMO - Listeria monocytogenes - species - - - - STAAU - - 1280 - STAAU - Staphylococcus aureus - species - - - - - - CLOP1 - - 195103 - CLOP1 - Clostridium perfringens (strain ATCC 13124 / NCTC 8237 / Type A) - - - - - Clostridia - - 186801 - Clostridia - class - - - b_218 - - b_216 - - CARHZ - - 246194 - CARHZ - Carboxydothermus hydrogenoformans (strain Z-2901 / DSM 6008) - - - - THETN - - 119072 - THETN - Thermoanaerobacter tengcongensis - species - - - - - DESHA - - 49338 - DESHA - Desulfitobacterium hafniense - Desulfitobacterium frappieri - species - - - - - EUBR3 - - 515619 - EUBR3 - Eubacterium rectale (strain ATCC 33656 / VPI 0990) - - - - - - b_224 - - b_222 - - THELT - - 416591 - THELT - Thermotoga lettingae (strain ATCC BAA-301 / DSM 14385 / TMO) - - - - FERNB - - 381764 - FERNB - Fervidobacterium nodosum (strain ATCC 35602 / DSM 5306 / Rt17-B1) - - - - - THEMA - - 2336 - THEMA - Thermotoga maritima - species - - - - - - - b_267 - - b_263 - - b_251 - - b_249 - - b_245 - - b_237 - - b_233 - - b_231 - - b_229 - - MYCPN - - 2104 - MYCPN - Mycoplasma pneumoniae - species - - - - MYCGE - - 2097 - MYCGE - Mycoplasma genitalium - species - - - - - MESFL - - 2151 - MESFL - Mesoplasma florum - Acholeplasma florum - species - - - - - UREPA - - 134821 - UREPA - Ureaplasma parvum - Ureaplasma urealyticum biotype 1 - species - - - - - b_236 - - BORBU - - 139 - BORBU - Borrelia burgdorferi - Lyme disease spirochete - species - - - - TREPA - - 160 - TREPA - Treponema pallidum - species - - - - - - b_244 - - b_242 - - b_240 - - CHLPN - - 83558 - CHLPN - Chlamydia pneumoniae - Chlamydophila pneumoniae - species - - - - CHLFF - - 264202 - CHLFF - Chlamydophila felis (strain Fe/C-56) - - - - - CHLMU - - 83560 - CHLMU - Chlamydia muridarum - species - - - - - RICTY - - 785 - RICTY - Rickettsia typhi - species - - - - - - b_248 - - PELUB - - 198252 - PELUB - Pelagibacter ubique - species - - - - BARHE - - 38323 - BARHE - Bartonella henselae - Rochalimaea henselae - species - - - - - - FRATU - - 263 - FRATU - Francisella tularensis - species - - - - - b_262 - - b_260 - - b_258 - - b_256 - - b_254 - - STRPN - - 1313 - STRPN - Streptococcus pneumoniae - species - - - - STRPY - - 1314 - STRPY - Streptococcus pyogenes - species - - - - - LACLA - - 1360 - LACLA - Lactococcus lactis subsp. lactis - Streptococcus lactis - subspecies - - - - - LACAC - - 1579 - LACAC - Lactobacillus acidophilus - species - - - - - BIFLO - - 216816 - BIFLO - Bifidobacterium longum - species - - - - - FUSNU - - 851 - FUSNU - Fusobacterium nucleatum - species - - - - - - b_266 - - DEHE1 - - 243164 - DEHE1 - Dehalococcoides ethenogenes (strain 195) - - - - DEHSB - - 216389 - DEHSB - Dehalococcoides sp. (strain BAV1) - species - - - - - - - b_277 - - b_273 - - b_271 - - THIDN - - THIDN - - - - NITSB - - 387092 - NITSB - Nitratiruptor sp. (strain SB155-2) - species - - - - - SULNB - - 387093 - SULNB - Sulfurovum sp. 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http://upload.wikimedia.org/wikipedia/commons/thumb/9/9b/Domestic_cat_cropped.jpg/755px-Domestic_cat_cropped.jpg + + + + + + + 9362 + Insectivora + hedgehogs, shrews, moles and others + order + + + + 9365 + ERIEU + Erinaceus europaeus + Western European hedgehog + species + http://upload.wikimedia.org/wikipedia/commons/d/d4/Igel01.jpg + + + + + 42254 + SORAR + Sorex araneus + Eurasian common shrew + European shrew + species + http://www.batraciens-reptiles.com/musaraigne2.jpg + + + + + + + + Atlantogenata + + + + 311790 + Afrotheria + superorder + + + + Paenungulata + + + + 9785 + LOXAF + Loxodonta africana + African savanna elephant + species + http://animaldiversity.ummz.umich.edu/site/resources/susan_hoffman/elephants.jpg + + + + + 9813 + PROCA + Procavia capensis + Cape hyrax + Rock dassie + species + http://calphotos.berkeley.edu/imgs/512x768/0000_0000/1206/0460.jpeg + + + + + + 9371 + ECHTE + Echinops telfairi + Lesser hedgehog tenrec + species + http://animaldiversity.ummz.umich.edu/site/resources/david_kupitz/etelfairi.jpg + + + + + + 9348 + Xenarthra + Edentata + superorder + + + + 9358 + CHOHO + Choloepus hoffmanni + Hoffmann's two-fingered sloth + species + http://upload.wikimedia.org/wikipedia/commons/thumb/8/89/Sloth8.jpg/800px-Sloth8.jpg + + + + + 9361 + DASNO + Dasypus novemcinctus + Nine-banded armadillo + species + http://images.enature.com/mammals/mammals_l/ma0154_1l.jpg + http://anthropometaphors.files.wordpress.com/2008/11/nine-banded-armadillo41.jpg + + + + + + + + 9263 + Metatheria + Marsupials + + + + 0 + 0 + 0 + + + + First combined cladistic analysis of marsupial mammal interrelationships + + + + + + Eometatheria + + + + 9315 + MACEU + Macropus eugenii + Tammar wallaby + species + http://upload.wikimedia.org/wikipedia/commons/d/de/Macropus_eugenii.jpg + + + + + 9305 + SARHA + Sarcophilus harrisii + Tasmanian devil + Sarcophilus laniarius + species + http://upload.wikimedia.org/wikipedia/commons/thumb/3/3b/Sarcophilus_harrisii_-Healesville_Sanctuary-8a.jpg/727px-Sarcophilus_harrisii_-Healesville_Sanctuary-8a.jpg + + + + + MONDO + + 13616 + MONDO + Monodelphis domestica + Short-tailed gray opossum + species + http://animaldiversity.ummz.umich.edu/site/resources/phil_myers/classic/monodelphis.jpg/medium.jpg + + + + + + ORNAN + + 9258 + ORNAN + Ornithorhynchus anatinus + Duckbill platypus + species + http://www.biolib.cz/IMG/GAL/39610.jpg + + + + + Diapsida + + Neognathae + + 8825 + Neognathae + superorder + + + Phasianidae & Anatidae (waterfowl) + + + 9005 + Phasianidae + family + + + CHICK + + 9031 + CHICK + Gallus gallus + Chicken + Gallus domesticus + species + http://upload.wikimedia.org/wikipedia/commons/thumb/f/f8/Rooster04_adjusted.jpg/800px-Rooster04_adjusted.jpg + + + + + 9103 + MELGA + Meleagris gallopavo + Common turkey + species + http://calphotos.berkeley.edu/imgs/512x768/0000_0000/0205/0858.jpeg + + + + + + 8839 + ANAPL 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Gasterosteus aculeatus + Three-spined stickleback + species + http://www.fiskbasen.se/images/gasterosteus_aculeatus.jpg + + + + ORYLA + + 8090 + ORYLA + Oryzias latipes + Medaka fish + Japanese ricefish + species + http://upload.wikimedia.org/wikipedia/commons/4/49/Nihonmedaka.jpg + + + + + + 31031 + Tetraodontidae + puffers + family + + + FUGRU + + 31033 + FUGRU + Takifugu rubripes + Japanese pufferfish + Fugu rubripes + species + http://upload.wikimedia.org/wikipedia/commons/thumb/2/25/Fugu_in_Tank.jpg/800px-Fugu_in_Tank.jpg + + + + TETNG + + 99883 + TETNG + Tetraodon nigroviridis + Green puffer + Chelonodon nigroviridis + species + http://upload.wikimedia.org/wikipedia/commons/thumb/b/b6/Tetraodon_nigroviridis_1.jpg/800px-Tetraodon_nigroviridis_1.jpg + + + + + + + 8049 + GADMO + Gadus morhua + Atlantic cod + species + http://www.marinbi.com/g-morhua.jpg + + + + + DANRE + + 7955 + DANRE + Danio rerio + Zebrafish + Brachydanio rerio + species + http://fishbase.org.cn/images/species/Darer_m0.jpg + + + + + + + 7868 + CALMI + Callorhynchus milii + Australian ghost shark + Australian ghost shark + species + http://www.tudiscovery.com/tiburones/que_es/popup_que/asset/07914907646434433_elephant_shark_380x290.jpg + + + + + + 7757 + PETMA + Petromyzon marinus + Sea lamprey + species + http://www.uk-fish.info/pics/sealampray01.jpg + + + + + Urochordata + + 7712 + Urochordata + subphylum + + + + 7718 + Ciona + genus + + + CIOIN + + 7719 + CIOIN + Ciona intestinalis + Transparent sea squirt + Ascidia intestinalis + species + http://adl.brs.gov.au/marinepests/images/Ciona_intestinalis2.jpg + + + + CIOSA + + 51511 + CIOSA + Ciona savignyi + Pacific transparent sea squirt + species + http://www.pnwscuba.com/invasives/photos/ciona4.jpg + + + + + OIKDI + + 34765 + OIKDI + Oikopleura dioica + Tunicate + species + http://jellieszone.com/images/oikopleura.jpg + + + + + + BRAFL + + 7739 + BRAFL + Branchiostoma floridae + Florida lancelet + Amphioxus + species + http://genome.jgi-psf.org/Brafl1/Amphioxus-1.jpg + + + + + Hemichordata & Echinodermata + + SACKO + + 10224 + SACKO + Saccoglossus kowalevskii + Agassiz, 1873 + Acorn worm + species + http://www.amnh.org/exhibitions/hall_tour/spectrum/specimens/a158.jpg + + + + STRPU + + 7668 + STRPU + Strongylocentrotus purpuratus + Purple sea urchin + species + http://upload.wikimedia.org/wikipedia/commons/thumb/f/f4/Strongylocentrotus_purpuratus_1.jpg/724px-Strongylocentrotus_purpuratus_1.jpg + + + + + + Protostomia + + Ecdysozoa + + + 6656 + Arthropoda + phylum + + + + 197563 + Mandibulata + + + Pancrustacea + + + 33340 + Neoptera + subclass + + + + 33392 + Endopterygota + infraclass + + + Hymenoptera & Lepidoptera & Diptera + + Lepidoptera & Diptera + + + 7147 + Diptera + order + + + + 7157 + Culicidae + mosquitos + family + + + AEDAE + + 7159 + AEDAE + Aedes aegypti + Yellowfever mosquito + Culex aegypti + species + http://upload.wikimedia.org/wikipedia/commons/thumb/4/48/Aedes_aegypti_biting_human.jpg/757px-Aedes_aegypti_biting_human.jpg + + + + ANOGA + + 7165 + ANOGA + Anopheles gambiae + African malaria mosquito + species + http://upload.wikimedia.org/wikipedia/commons/e/e9/Anopheles_gambiae_Mosquito.jpg + + + + CULPI + + 7175 + CULPI + Culex pipiens + House mosquito + species + http://upload.wikimedia.org/wikipedia/commons/thumb/3/35/Culex_pipiens_2007-1.jpg/628px-Culex_pipiens_2007-1.jpg + + + + + + 32341 + Sophophora + subgenus + + + DROME + + 7227 + DROME + Drosophila melanogaster + Fruit fly + species + + + + DROPS + + 46245 + DROPS + Drosophila pseudoobscura pseudoobscura + Fruit fly + subspecies + + + + + + BOMMO + + 7091 + BOMMO + Bombyx mori + Silk moth + species + + + + + + 7400 + Apocrita + wasps, ants and bees + + + APIME + + 7460 + APIME + Apis mellifera + Honeybee + species + + + + NASVI + + 7425 + NASVI + Nasonia vitripennis + Parasitic wasp + species + + + + + + TRICA + + 7070 + 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species + http://i.pbase.com/g4/59/68959/2/59864073.narceus0705062large.jpg + + + + + + 52428 + Polyxenus lagurus + bristly millipede + species + http://upload.wikimedia.org/wikipedia/commons/5/54/Polyxenus.lagurus.1.jpg + + + + + + 7540 + Chilopoda + centipedes + class + + + + 29022 + SCUCO + Scutigera coleoptrata + House centipede + species + http://upload.wikimedia.org/wikipedia/commons/1/14/Scutigera_coleoptrata.JPG + + + + + 126957 + Strigamia maritima + species + http://images.marinespecies.org/resized/22703_strigamia-maritima-male-loch-linnhe-scotland.jpg + + + + + + + IXOSC + + 6945 + IXOSC + Ixodes scapularis + Black-legged tick + Deer tick + species + http://upload.wikimedia.org/wikipedia/commons/8/8c/Deertick.jpg + + + + + + 119089 + Chromadorea + class + + + + + nematode Clade V + + Caenorhabditis + + 6237 + Caenorhabditis + genus + + + CAEBR + + 6238 + CAEBR + Caenorhabditis briggsae + species + + + + CAEEL + + 6239 + CAEEL + Caenorhabditis elegans + species + + + + + PRIPA + + 54126 + PRIPA + Pristionchus pacificus + species + + + + + BRUMA + + 6279 + BRUMA + Brugia malayi + Filarial nematode worm + species + + + + + + Lophotrochozoa + + Annelida & Mollusca + + + 6340 + Annelida + phylum + + + CAP + + 283909 + Capitella teleta + species + + + + HELRO + + 6412 + HELRO + Helobdella robusta + Californian leech + species + + + + + LOTGI + + 225164 + LOTGI + Lottia gigantea + Owl limpet + species + + + + + + 6157 + Platyhelminthes + phylum + + + SCHMA + + 6183 + SCHMA + Schistosoma mansoni + Blood fluke + species + + + + SCHMD + + 79327 + SCHMD + Schmidtea mediterranea + Freshwater planarian flatworm + species + + + + + + + + Cnidaria + + 6073 + Cnidaria + phylum + + + HYDMA + + 9119928 + HYDMA + Hydra magnipapillata + Ito, 1947 + species + http://www.nig.ac.jp/labs/OntoGen/magni.html + + + + NEMVE + + 45351 + NEMVE + Nematostella vectensis + Starlet sea anemone + species + + + + + + TRIAD + + 10228 + TRIAD + Trichoplax adhaerens + Trichoplax reptans + species + + + + + + + AMPQU + + 400682 + AMPQU + Amphimedon queenslandica + species + + + + + + 81524 + Codonosigidae + family + + + MONBE + + 81824 + MONBE + Monosiga brevicollis + Choanoflagellate + species + + + + + 946362 + SALS5 + Salpingoeca rosetta + Proterospongia sp. ATCC 50818 + Salpingoeca sp. ATCC 50818 + species + + + + + + Ichthyophonida & Filasterea + + + 198625 + Ichthyophonida + order + + + + 4881 + AMOPA + Amoebidium parasiticum + species + http://www.diark.org/img/species_pict/Amoebidium_parasiticum + + + + SPHARC + + 72019 + Sphaeroforma arctica + species + http://www.sciencedirect.com/cache/MiamiImageURL/1-s2.0-S0168952507000236-gr2.jpg + + + + + + Filasterea + + + + + + + CAPOWC + + 192875 + Capsaspora owczarzaki + species + + + + MINVIB + + 134558 + Ministeria vibrans + species + + + + + + + + Holomycota + Nucletmycea + + + + 4751 + Fungi + kingdom + + + Dikarya & Mucoromycotina & Kickxellomycotina & Blastocladiomycota & Chytridiomycota & Neocallimastigomycota + + Dikarya & Mucoromycotina & Kickxellomycotina & Blastocladiomycota & Chytridiomycota + + Dikarya & Mucoromycotina & Kickxellomycotina & Blastocladiomycota + + Dikarya & Mucoromycotina & Kickxellomycotina + + Dikarya & Mucoromycotina + + + 451864 + Dikarya + subkingdom + + + + + + + + 4890 + Ascomycota + phylum + + + Pezizomycotina_Saccharomycetales + + + 147538 + Pezizomycotina + Euascomycota + subphylum + + + A five-gene phylogeny of Pezizomycotina + + + + + + 716546 + Leotiomyceta + + + Sordariomyceta & Dothideomycetes & Trichocomaceae & Lecanoromycetes + + Sordariomyceta & Dothideomycetes & Lecanoromycetes + + Sordariomyceta & Lecanoromycetes + + + 715989 + Sordariomyceta + + + + 147550 + Sordariomycetes + class + + + Magnaporthales & Hypocreales + + + 5125 + Hypocreales + order + + + ACRALC + + 398408 + Acremonium alcalophilum + species + http://genome.jgi-psf.org/public/Acral1_c3a/Acral1.jpg + + + + GIBZE + + 5518 + GIBZE + Gibberella zeae + Wheat head blight fungus + Fusarium graminearum + species + + + + TRIVE + + 29875 + TRIVE + Trichoderma virens + Gliocladium virens + Trichoderma virens + species + + + + + MAGGR + + 148305 + MAGGR + Magnaporthe grisea + Rice blast fungus + Pyricularia grisea + species + + + + + + 5139 + Sordariales + order + + + + 35718 + Chaetomiaceae + family + + + + 35719 + Thielavia + genus + + + MYCTHE + + 573728 + Myceliophthora thermophila + (Apinis) Oorschot 1977 + Sporotrichum thermophilum + anamorph of Thielavia heterothallica + species + http://genome.jgi-psf.org/public/Spoth2/Spoth0.jpg + + + + THITER + + 193532 + Thielavia terrestris + Malloch & Cain 1972 + Acremonium alabamense + species + http://genome.jgi-psf.org/public/Thite2/Thite1.jpg + + + + + CHAGB + + 1029505 + CHAGB + Chaetomium globosum + Kunze 1817 + Soil fungus + species + + + + + NEUCR + + 5141 + NEUCR + Neurospora crassa + species + + + + + + + 147548 + Leotiomycetes + class + + + + 28983 + Sclerotiniaceae + family + + + + 40559 + BOTFU + Botryotinia fuckeliana + Noble rot fungus + Botrytis cinerea + species + + + + + 5180 + SCLSC + Sclerotinia sclerotiorum + White mold + Whetzelinia sclerotiorum + species + + + + + OIDMAI + + 78148 + Oidiodendron maius + species + + + + + + + 388435 + Lecanoromycetidae + subclass + + + CLAGRA + + 27339 + Cladonia grayi + Cladonia grayi Merr + species + http://upload.wikimedia.org/wikipedia/commons/b/b6/Cladonia_grayi-11.jpg + + + + XANPAR + + 107463 + Xanthoria parietina + species + http://upload.wikimedia.org/wikipedia/commons/thumb/7/70/Xanthoria_parietina_%2806_03_31%29.jpg/800px-Xanthoria_parietina_%2806_03_31%29.jpg + + + + + + + 147541 + Dothideomycetes + class + + + A class-wide phylogenetic assessment of Dothideomycetes + + + + 134362 + Capnodiales + order + + + + 41254 + Mycosphaerella + genus + + + MYCFI + + 83344 + Mycosphaerella fijiensis + species + + + + MYCGR + + 54734 + MYCGR + Mycosphaerella graminicola + Speckled leaf blotch fungus + Septoria tritici + species + + + + MYCPJ + + 64363 + MYCPJ + Mycosphaerella pini + Red band needle blight disease fungus + Dothistroma septosporum + Dothistroma pini + species + + + + MYCPOP + + 85929 + Mycosphaerella populorum + Septoria musiva + species + + + + + + 430998 + BAUCOM + Baudoinia compniacensis + species + http://www.diark.org/img/species_pict/Baudoinia_compniacensis + + + + + + 715340 + Pleosporineae + suborder + + + + 28556 + Pleosporaceae + family + + + Cochliobolus & Setosphaeria + + + 5015 + Cochliobolus + genus + + + COCHE + + 5016 + COCHE + Cochliobolus heterostrophus + Drechslera maydis + species + + + + + 45130 + COCSA + Cochliobolus sativus + Bipolaris sorokiniana + species + http://www.plantmanagementnetwork.org/pub/php/diagnosticguide/2003/rootrot/image/mathre6sm.jpg + + + + + + 93612 + SETTU + Setosphaeria turcica + (Luttr.) K.J. Leonard & Suggs, (1974) + Northern corn leaf blight disease fungus + Exserohilum turcicum + Helminthosporium turcicum + species + http://www.pflanzenkrankheiten.ch/diseases/STU/figures_STU/HTU_Mais_Mik_7_k.jpg + http://www.pflanzenkrankheiten.ch/diseases/STU/figures_STU/Exserohilum_turcicum_001_k.jpg + + + + + PYRTR + + 426418 + PYRTR + Pyrenophora tritici-repentis (strain Pt-1C-BFP) + Wheat tan spot fungus + Drechslera tritici-repentis + + + + + PHANO + + 13684 + PHANO + Phaeosphaeria nodorum + Glume blotch fungus + Septoria nodorum + species + + + + + + + + 28568 + Trichocomaceae + family + + + Neosartorya_Emericella + + EMENI + + 195546 + EMENI + Emericella nidulans + Vuill. 1927 + Aspergillus nidulans + species + + + + NEOFI + + 331117 + NEOFI + Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) + Aspergillus fischerianus + + + + + + 5052 + Aspergillus + genus + + + ASPFL + + 5059 + ASPFL + Aspergillus flavus + species + + + + ASPNG + + 5061 + ASPNG + 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Schizosaccharomyces pombe + Fission yeast + species + + + + + PNECA + + 4754 + PNECA + Pneumocystis carinii + species + + + + + SAICOM + + 5606 + Saitoella complicata + species + + + + + + + 5204 + Basidiomycota + phylum + + + Agaricomycotina & Ustilaginomycotina & Pucciniomycotina + + Agaricomycotina & Ustilaginomycotina + + + 5302 + Agaricomycotina + + + + 155619 + Homobasidiomycetes + class + + + Evolution of complex fruiting–body morphologies in homobasidiomycetes + + + Agaricomycetidae & Gloeophyllum & Aphyllophorales + + Agaricomycetidae & Gloeophyllum + + + 452333 + Agaricomycetidae + subclass + + + Agaricales & Boletales + + + 5338 + Agaricales + order + + + Agaricus & Coprinopsis & Laccaria & Pleurotus + + Agaricus & Coprinopsis & Laccaria + + Agaricus & Coprinopsis + + AGABB + + 192524 + Agaricus bisporus var. burnettii + http://www.mykoweb.com/CAF/photos/Agaricus_bisporus(fs-03).jpg + + + + COPCI + + 5346 + COPCI + Coprinopsis cinerea + Inky cap fungus + Hormographiella 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Lloyd 1921 + White-rot fungus + Coriolus versicolor + Bjerkandera versicolor + species + http://www.mykoweb.com/CAF/photos/Trametes_versicolor(bab-1).jpg + http://www.mykoweb.com/CAF/photos/Trametes_versicolor(bab-2).jpg + http://www.mykoweb.com/CAF/photos/Trametes_versicolor(mgw-01).jpg + http://genome.jgi-psf.org/public/Trave1/Trametes_versicolor.JPG + + + + WOLCOC + + 81056 + Wolfiporia cocos + species + http://toolate.s7.coreserver.jp/kinoko/fungi/wolfiporia_cocos/w_cocos_002.jpg + + + + + + CERSU + + 42742 + CERSU + Ceriporiopsis subvermispora + species + + + + + DICSQU + + 114155 + Dichomitus squalens + (P. Karst.) D. A. 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- - THEAC - - - - - a_4 - - ARCFU - - - a_5 - - Halobacteria - - HALSP - - - a_17 - - NATPH - - - HALMA - - - - - a_6 - - METHU - - - Methanosarcinales - - METTP - - - a_7 - - METBU - - - a_8 - - METBF - - - a_9 - - METMA - - - METAC - - - - - - - - - - - - - - - Eukaryota - - Bikonta - - - Excavata - - - GIALA - - - Kinetoplastida_Heterolobosea - - NAEGR - - - Kinetoplastida - - LEIMA - - - TRYBB - - - - - - Corticata - - Chromalveolate - - - EMIHU - - - Heterokonta_Alveolata - - Heterokonta - - Bacillariophyta - - THAPS - - - PHATR - - - - Oomycetes - - PHYIN - - - PHYRM - - - PHYSO - - - - - Alveolata - - Ciliophora - - TETTH - - - PARTE - - - - Apicomplexa - - Coccidia - - TOXGO - - - Cryptosporidium - - CRYHO - - - CRYPV - - - - - Aconoidasida - - Plasmodium - - PLAFA - - - PLAYO - - - - Theileria - - THEPA - - - THEAN - - - - - - - - - Archaeplastida - - CYAME - - - Viridiplantae - - - Chlorophyceae_Prasinophyceae - - Chlorophyceae - - CHLRE - - - VOLCA - - - - Prasinophyceae - - Ostreococcus - - OSTLU - - - OSTTA - - - - Micromonas - - MICPU - - - MIC99 - - - - - - Embryophyta - - PHYPA - - - Tracheophyta - - SELMO - - - Magnoliophyta - - Eudicotyledons - - ARATH - - - POPTR - - - VITVI - - - - Poales - - SORBI - - - Oryza - - ORYSJ - - - ORYSA - - - - - - - - - - - - Unikonta - - Amoebozoa - - DICDI - - - ENTHI - - - - Opisthokonta - - Fungi - - - Mucoromycotina - - PHYBL - - - RHIOR - - - - Dikarya - - Basidiomycota - - USTMA - - - Agaricomycotina - - CRYNE - - - Agaricomycetes - - PHACH - - - Agaricales - - COPCI - - - LACBI - - - - - - - Ascomycota - - SCHPO - - - f_1 - - Pezizomycotina - - Eurotiomycetes - - f_2 - - AJECA - - - f_3 - - UNCRE - - - COCIM - - - - - Trichocomaceae - - f_4 - - EMENI - - - ASPFU - - - - f_5 - - ASPOR - - - ASPTE - - - - - - f_6 - - PHANO - - - f_7 - - Leotiomycetes - - BOTFB - - - SCLSC - - - - Sordariomycetes - - Hypocreales - - TRIRE - - - Gibberella - - GIBMO - - - GIBZE - - - - - f_8 - - MAGGR - - - f_9 - - NEUCR - - - f_10 - - PODAN - - - CHAGB - - - - - - - - - - Saccharomycotina - - YARLI - - - f_11 - - f_12 - - f_13 - - CLALS - - - f_14 - - PICGU - - - DEBHA - - - - - Candida - - CANPA - - - f_15 - - CANTR - - - f_16 - - CANDU - - - CANAL - - - - - - - f_17 - - f_18 - - f_19 - - KLUWA - - - SACKL - - - - f_20 - - ASHGO - - - KLULA - - - - - Saccharomyces - - SACCA - - - f_21 - - SACBA - - - f_22 - - SACKU - - - f_23 - - SACMI - - - f_24 - - SACPA - - - YEAST - - - - - - - - - - - - - - - Metazoa_Choanoflagellata - - MONBE - - - Metazoa - - TRIAD - - - - Bilateria_Cnidaria - - NEMVE - - - Bilateria - - Protostomia - - Lophotrochozoa - - LOTGI - - - Annelida - - CAP - - - HELRO - - - - - Ecdysozoa - - Nematoda - - CAEEL - - - CAEBR - - - - Arthropoda - - DAPPU - - - Insecta - - TRICA - - - Diptera_Hymenoptera - - APIME - - - Diptera - - Muscomorpha - - DROME - - - DROPS - - - - Culicoidea - - AEDAE - - - ANOGA - - - - - - - - - - Deuterostomia - - - STRPU - - - Chordata - - BRAFL - - - Urochordata_Vertebrata - - Urochordata - - CIOIN - - - CIOSA - - - - Vertebrata - - Teleostei - - DANRE - - - Euteleostei - - Smegmamorpha - - 129949 - - - GASAC - - - ORYLA - - - - Tetraodontiformes - - FUGRU - - - TETNG - - - - - - Tetrapoda - - XENTR - - - Amniota - - CHICK - - - Mammalia - - CANFA - - - Euarchontoglires - - Rodentia - - MOUSE - - - RAT - - - - Primates - - HUMAN - - - PANTR - - - - - - - - - - - - - - - - - - - - - diff --git a/forester/data/tol_173_no_ecdy.xml b/forester/data/tol_173_no_ecdy.xml deleted file mode 100644 index bac8c8d..0000000 --- a/forester/data/tol_173_no_ecdy.xml +++ /dev/null @@ -1,1048 +0,0 @@ - - - - - cellular_organisms - - Bacteria - - - Spirochaetes - - BORBU - - - TREPA - - - - b_1 - - Chlamydiales - - CHLFF - - - Chlamydia - - CHLMU - - - CHLPN - - - - - b_2 - - hyperthermophilic - - AQUAE - - - THEMA - - - - b_3 - - Proteobacteria - - Epsilonproteobacteria - - NITSB - - - Campylobacterales - - HELPH - - - CAMJE - - - - - b_5 - - Alphaproteobacteria - - RICTY - - - CAUCR - - - - b_4 - - Betaproteobacteria - - NEIME - - - RALME - - - - Gammaproteobacteria - - XYLFT - - - b_6 - - PSEAE - - - b_7 - - b_8 - - ECOLI - - - VIBCH - - - - Pasteurellales - - PASMU - - - HAEIN - - - - - - - - - - b_9 - - Firmicutes - - Mycoplasmataceae - - UREPA - - - Mycoplasma - - MYCPN - - - MYCGE - - - - - b_10 - - Lactobacillales - - STRPY - - - LACLA - - - - Bacillales - - STAAU - - - Bacillaceae - - BACSU - - - BACHD - - - - - - - b_11 - - Cyanobacteria - - Synechococcus - - SYNEL - - - SYNS3 - - - - Nostocaceae - - NOSS7 - - - ANAVA - - - - - b_12 - - DEIRA - - - Actinobacteria - - STRCO - - - Mycobacterium - - MYCTU - - - MYCLE - - - - - - - - - - - - Archaea_Eukaryota - - Archaea - - - Crenarchaeota - - PYRAE - - - a_14 - - AERPE - - - a_15 - - SULSO - - - a_16 - - SULTO - - - SULAC - - - - - - - Euryarchaeota - - Thermococci - - THEKO - - - a_12 - - PYRFU - - - a_13 - - PYRAB - - - PYRHO - - - - - - a_1 - - METKA - - - a_2 - - a_11 - - Methanococcales - - METJA - - - METMP - - - - Methanobacteria - - METTH - - - METST - - - - - a_3 - - Thermoplasmata - - PICTO - - - a_10 - - THEVO - - - THEAC - - - - - a_4 - - ARCFU - - - a_5 - - Halobacteria - - HALSP - - - a_17 - - NATPH - - - HALMA - - - - - a_6 - - METHU - - - Methanosarcinales - - METTP - - - a_7 - - METBU - - - a_8 - - METBF - - - a_9 - - METMA - - - METAC - - - - - - - - - - - - - - - Eukaryota - - Bikonta - - - Excavata - - - GIALA - - - Kinetoplastida_Heterolobosea - - NAEGR - - - Kinetoplastida - - LEIMA - - - TRYBB - - - - - - Corticata - - Chromalveolate - - - EMIHU - - - Heterokonta_Alveolata - - Heterokonta - - Bacillariophyta - - THAPS - - - PHATR - - - - Oomycetes - - PHYIN - - - PHYRM - - - PHYSO - - - - - Alveolata - - Ciliophora - - TETTH - - - PARTE - - - - Apicomplexa - - Coccidia - - TOXGO - - - Cryptosporidium - - CRYHO - - - CRYPV - - - - - Aconoidasida - - Plasmodium - - PLAFA - - - PLAYO - - - - Theileria - - THEPA - - - THEAN - - - - - - - - - Archaeplastida - - CYAME - - - Viridiplantae - - - Chlorophyceae_Prasinophyceae - - Chlorophyceae - - CHLRE - - - VOLCA - - - - Prasinophyceae - - Ostreococcus - - OSTLU - - - OSTTA - - - - Micromonas - - MICPU - - - MIC99 - - - - - - Embryophyta - - PHYPA - - - Tracheophyta - - SELMO - - - Magnoliophyta - - Eudicotyledons - - ARATH - - - POPTR - - - VITVI - - - - Poales - - SORBI - - - Oryza - - ORYSJ - - - ORYSA - - - - - - - - - - - - Unikonta - - Amoebozoa - - DICDI - - - ENTHI - - - - Opisthokonta - - Fungi - - - Mucoromycotina - - PHYBL - - - RHIOR - - - - Dikarya - - Basidiomycota - - USTMA - - - Agaricomycotina - - CRYNE - - - Agaricomycetes - - PHACH - - - Agaricales - - COPCI - - - LACBI - - - - - - - Ascomycota - - SCHPO - - - f_1 - - Pezizomycotina - - Eurotiomycetes - - f_2 - - AJECA - - - f_3 - - UNCRE - - - COCIM - - - - - Trichocomaceae - - f_4 - - EMENI - - - ASPFU - - - - f_5 - - ASPOR - - - ASPTE - - - - - - f_6 - - PHANO - - - f_7 - - Leotiomycetes - - BOTFB - - - SCLSC - - - - Sordariomycetes - - Hypocreales - - TRIRE - - - Gibberella - - GIBMO - - - GIBZE - - - - - f_8 - - MAGGR - - - f_9 - - NEUCR - - - f_10 - - PODAN - - - CHAGB - - - - - - - - - - Saccharomycotina - - YARLI - - - f_11 - - f_12 - - f_13 - - CLALS - - - f_14 - - PICGU - - - DEBHA - - - - - Candida - - CANPA - - - f_15 - - CANTR - - - f_16 - - CANDU - - - CANAL - - - - - - - f_17 - - f_18 - - f_19 - - KLUWA - - - SACKL - - - - f_20 - - ASHGO - - - KLULA - - - - - Saccharomyces - - SACCA - - - f_21 - - SACBA - - - f_22 - - SACKU - - - f_23 - - SACMI - - - f_24 - - SACPA - - - YEAST - - - - - - - - - - - - - - - Metazoa_Choanoflagellata - - MONBE - - - Metazoa - - TRIAD - - - - Bilateria_Cnidaria - - NEMVE - - - Bilateria - - Nematoda - - CAEEL - - - CAEBR - - - - Protostomia_Deuterostomia - - Protostomia - - Lophotrochozoa - - LOTGI - - - Annelida - - CAP - - - HELRO - - - - - Arthropoda - - DAPPU - - - Insecta - - TRICA - - - Diptera_Hymenoptera - - APIME - - - Diptera - - Muscomorpha - - DROME - - - DROPS - - - - Culicoidea - - AEDAE - - - ANOGA - - - - - - - - - Deuterostomia - - - STRPU - - - Chordata - - BRAFL - - - Urochordata_Vertebrata - - Urochordata - - CIOIN - - - CIOSA - - - - Vertebrata - - Teleostei - - DANRE - - - Euteleostei - - Smegmamorpha - - 129949 - - - GASAC - - - ORYLA - - - - Tetraodontiformes - - FUGRU - - - TETNG - - - - - - Tetrapoda - - XENTR - - - Amniota - - CHICK - - - Mammalia - - CANFA - - - Euarchontoglires - - Rodentia - - MOUSE - - - RAT - - - - Primates - - HUMAN - - - PANTR - - - - - - - - - - - - - - - - - - - - - - diff --git a/forester/data/tol_335.xml b/forester/data/tol_335.xml deleted file mode 100644 index 8b320b3..0000000 --- a/forester/data/tol_335.xml +++ /dev/null @@ -1,2019 +0,0 @@ - - - - - cellular_organisms - - Neomura - - Eukaryota - - Unikonta - - Opisthokonta - - Metazoa_Choanoflagellata - - Metazoa - - - Bilateria_Cnidaria - - Bilateria - - Deuterostomia - - - Chordata - - Urochordata_Vertebrata - - Vertebrata - - Tetrapoda - - Amniota - - Mammalia - - Theria - - Eutheria - - Euarchontoglires - - Primates - - HUMAN - - - PANTR - - - - Rodentia - - MOUSE - - - RAT - - - - - CANFA - - - - MONDO - - - - ORNAN - - - - CHICK - - - - XENTR - - - - Teleostei - - Euteleostei - - Smegmamorpha - - 129949 - - - GASAC - - - ORYLA - - - - Tetraodontiformes - - FUGRU - - - TETNG - - - - - DANRE - - - - - Urochordata - - CIOIN - - - CIOSA - - - - - BRAFL - - - - STRPU - - - - Protostomia - - Ecdysozoa - - Arthropoda - - Insecta - - Lepidoptera_Diptera_Hymenoptera - - Lepidoptera_Diptera - - Diptera - - Muscomorpha - - DROME - - - DROPS - - - - Culicoidea - - AEDAE - - - ANOGA - - - CULPI - - - - - BOMMO - - - - Hymenoptera - - APIME - - - NASVI - - - - - TRICA - - - - DAPPU - - - - Nematoda - - CAEEL - - - CAEBR - - - - - Lophotrochozoa - - Annelida_Mollusca - - Annelida - - CAP - - - HELRO - - - - LOTGI - - - - Platyhelminthes - - SCHMA - - - SCHMD - - - - - - - NEMVE - - - - TRIAD - - - - - MONBE - - - - Fungi - - f_122 - - f_120 - - f_116 - - Ascomycota - - Pezizomycotina - - f_54 - - f_50 - - f_34 - - f_24 - - f_14 - - f_12 - - f_6 - - f_4 - - f_2 - - TRIVE - - - TRIAT - - - - TRIRE - - - - FUSSH - - - - f_11 - - f_9 - - FUSOX - - - GIBMO - - - - GIBZE - - - - - MAGGR - - - - f_23 - - f_19 - - f_17 - - NEUCR - - - PODAN - - - - CHAGB - - - - f_22 - - BOTFB - - - SCLSC - - - - - - f_33 - - f_29 - - f_27 - - PYRTR - - - COCHE - - - - PHANO - - - - f_32 - - MYCFI - - - MYCGR - - - - - - f_49 - - f_41 - - f_39 - - f_37 - - ASPFU - - - NEOFI - - - - ASPCL - - - - EMENI - - - - f_48 - - f_44 - - ASPFL - - - ASPOR - - - - f_47 - - ASPNG - - - ASPTE - - - - - - - f_53 - - COCIM - - - UNCRE - - - - - f_57 - - AJECA - - - PARBR - - - - - f_99 - - Saccharomycotina - - f_91 - - f_77 - - f_69 - - f_67 - - f_65 - - f_63 - - f_61 - - YEAST - - - SACCR - - - - SACPA - - - - SACBA - - - - SACMI - - - - SACCA - - - - f_76 - - f_74 - - f_72 - - ASHGO - - - CANGA - - - - KLUWA - - - - KLULA - - - - - f_90 - - f_84 - - f_82 - - f_80 - - CANAL - - - CANTR - - - - LODEL - - - - CLALS - - - - f_89 - - f_87 - - DEBHA - - - PICST - - - - PICGU - - - - - - YARLI - - - - Taphrinomycotina - - f_96 - - SCHPO - - - SCHOT - - - - SCHJP - - - - - - Basidiomycota - - f_113 - - f_111 - - f_107 - - f_105 - - f_103 - - COPCI - - - LACBI - - - - POSPL - - - - PHACH - - - - f_110 - - CRYNE - - - PUCGR - - - - - SPORO - - - - USTMA - - - - - Mucoromycotina - - PHYBL - - - RHIOR - - - - - BATDE - - - - ENCCU - - - - - Amoebozoa - - Dictyostelium - - DICDI - - - DICPU - - - - ENTHI - - - - - Bikonta - - - Corticata - - Chromalveolate - - - Heterokonta_Alveolata - - Alveolata - - Apicomplexa - - Aconoidasida - - Plasmodium - - PLAFA - - - PLAYO - - - PLACH - - - - Theileria - - THEPA - - - THEAN - - - - - Coccidia - - Cryptosporidium - - CRYHO - - - CRYPV - - - - TOXGO - - - - - Ciliophora - - TETTH - - - PARTE - - - - - Heterokonta - - Heterokonta - Stramenophiles - - - Pelagophyceae_Bacillariophyta - - Bacillariophyta - - Bacillariophyta - Diatoms - - - THAPS - - - PHATR - - - - AURAN - - - - Oomycetes - - PHYIN - - - PHYRM - - - PHYSO - - - - - - EMIHU - - - - Archaeplastida - - Viridiplantae - - Embryophyta - - Tracheophyta - - Magnoliophyta - - Eudicotyledons - - Arabidopsis - - ARATH - - - ARALY - - - - POPTR - - - VITVI - - - - Poales - - Oryza - - ORYSJ - - - ORYSA - - - - SORBI - - - - - SELMO - - - - PHYPA - - - - Chlorophyta - - Prasinophyceae - - Ostreococcus - - OSTLU - - - OSTTA - - - OSTRC - - - - Micromonas - - MICPU - - - MIC99 - - - - - Trebouxiophyceae_Chlorophyceae - - Chlorophyceae - - CHLRE - - - VOLCA - - - - CHLSP - - 310507 - CHLSP - Chlorella sp. NC64A - - - - - - - CYAME - - - - - Excavata - - - Kinetoplastida_Heterolobosea - - Kinetoplastida - - LEIMA - - - TRYBB - - - - NAEGR - - - - Metamonada - - GIALA - - - TRIVA - - - - - - - Archaea - - a_62 - - a_56 - - a_52 - - a_44 - - a_28 - - a_26 - - a_16 - - a_14 - - a_12 - - a_6 - - a_4 - - a_2 - - METAC - - - METBF - - - - METMA - - - - METBU - - - - a_11 - - a_9 - - METHU - - - METB6 - - - - METMJ - - - - - METLZ - - - - METTP - - - - a_25 - - a_23 - - a_19 - - NATPH - - - HALMA - - - - a_22 - - HALSP - - - HALS3 - - - - - HALWD - - - - - ARCFU - - - - a_43 - - a_41 - - a_35 - - a_31 - - METJA - - - META3 - - - - a_34 - - METMP - - - METVS - - - - - a_40 - - a_38 - - METST - - - METS3 - - - - METTH - - - - - METKA - - - - - a_51 - - a_47 - - PYRFU - - - THEKO - - - - a_50 - - PYRAB - - - PYRHO - - - - - - a_55 - - NITMA - - - NANEQ - - - - - a_61 - - a_59 - - THEVO - - - THEAC - - - - PICTO - - - - - a_93 - - a_91 - - a_83 - - a_81 - - a_73 - - a_71 - - a_67 - - a_65 - - PYRAR - - - PYRCJ - - - - PYRAE - - - - a_70 - - PYRIL - - - THENV - - - - - CALMA - - - - a_80 - - a_78 - - a_76 - - SULTO - - - SULAC - - - - SULSO - - - - METS5 - - - - - AERPE - - - - a_90 - - a_88 - - a_86 - - STAMF - - - THEPD - - - - HYPBU - - - - IGNH4 - - - - - KORCR - - - - - - Bacteria - - b_278 - - b_268 - - b_226 - - b_200 - - b_194 - - b_104 - - b_80 - - b_72 - - b_52 - - b_44 - - b_30 - - b_24 - - b_16 - - b_10 - - b_8 - - b_6 - - b_4 - - b_2 - - ECOLI - - - ECO57 - - - - SHIFL - - - - SALTY - - - - YERPE - - - - PHOLU - - - - b_15 - - b_13 - - PHOPR - - - VIBCH - - - - SHEDO - - - - - b_23 - - b_21 - - b_19 - - PSEF5 - - - PSEPF - - - - PSEAE - - - - CHRSD - - - - - b_29 - - b_27 - - RALME - - - RHOFT - - - - DECAR - - - - - b_43 - - b_41 - - b_35 - - b_33 - - NITMU - - - NITEU - - - - THIDE - - - - b_40 - - b_38 - - ALHEH - - - HALHL - - - - NITOC - - - - - THICR - - - - - b_51 - - b_47 - - LEGPN - - - IDILO - - - - b_50 - - XANAC - - - XYLFT - - - - - - b_71 - - b_67 - - b_65 - - b_61 - - b_57 - - b_55 - - SINME - - - RHIEC - - - - AGRT5 - - - - b_60 - - BRAJA - - - RHOPT - - - - - b_64 - - ROSDO - - - RHOS1 - - - - - CAUCR - - - - b_70 - - RHORU - - - ACICY - - - - - - b_79 - - b_77 - - b_75 - - PASMU - - - HAEIN - - - - NEIME - - - - ACIFE - - - - - b_103 - - b_91 - - b_87 - - b_83 - - DESDE - - - DESPS - - - - b_86 - - SYNAS - - - DESOL - - - - - b_90 - - GEOME - - - GEOSL - - - - - b_102 - - b_98 - - b_94 - - ANADE - - - MYXXA - - - - b_97 - - SOLUS - - - ACIBL - - - - - b_101 - - RHOBA - - - OPITE - - - - - - - b_193 - - b_163 - - b_133 - - b_127 - - b_119 - - b_115 - - b_113 - - b_111 - - b_109 - - b_107 - - MYCTU - - - MYCLE - - - - RHOR1 - - - - STRCO - - - - KINRD - - - - THEFY - - - - b_118 - - CORJK - - - KOCRD - - - - - b_126 - - b_124 - - b_122 - - CHLAU - - - ROSCA - - - - HERAU - - - - RUBXD - - - - - b_132 - - b_130 - - DEIRA - - - DEIGD - - - - THETH - - - - - b_162 - - b_154 - - b_152 - - b_146 - - b_144 - - b_142 - - b_140 - - b_138 - - b_136 - - NOSS7 - - - ANAVA - - - - NOSP7 - - - - CYAA2 - - - - ACAMR - - - - MICAN - - - - TRIER - - - - b_151 - - b_149 - - SYNEL - - - SYNY3 - - - - THEEL - - - - - GLOVI - - - - b_161 - - b_159 - - b_157 - - PROMA - - - PROMP - - - - PROMM - - - - SYNS3 - - - - - - b_192 - - b_190 - - b_178 - - b_176 - - b_170 - - b_166 - - CHLPB - - - PROAE - - - - b_169 - - PROVI - - - PELLU - - - - - b_175 - - b_173 - - CHLTE - - - CHLP8 - - - - CHLCH - - - - - CHLTA - - - - b_189 - - b_183 - - b_181 - - FLAJO - - - GRAFK - - - - CYTH3 - - - - b_188 - - b_186 - - BACFR - - - BACTN - - - - PORGI - - - - - - SALRD - - - - - - b_199 - - b_197 - - METI4 - - - AKKM8 - - - - LEPIC - - - - - b_225 - - b_219 - - b_213 - - b_211 - - b_207 - - b_203 - - BACSU - - - BACAN - - - - b_206 - - GEOKA - - - BACHD - - - - - b_210 - - LISMO - - - STAAU - - - - - CLOP1 - - - - b_218 - - b_216 - - CARHZ - - - THETN - - - - DESHA - - - - - b_224 - - b_222 - - THELT - - - FERNB - - - - THEMA - - - - - - b_267 - - b_263 - - b_251 - - b_249 - - b_245 - - b_237 - - b_233 - - b_231 - - b_229 - - MYCPN - - - MYCGE - - - - MESFL - - - - UREPA - - - - b_236 - - BORBU - - - TREPA - - - - - b_244 - - b_242 - - b_240 - - CHLPN - - - CHLFF - - - - CHLMU - - - - RICTY - - - - - b_248 - - PELUB - - - BARHE - - - - - FRATU - - - - b_262 - - b_260 - - b_258 - - b_256 - - b_254 - - STRPN - - - STRPY - - - - LACLA - - - - LACAC - - - - BIFLO - - - - FUSNU - - - - - b_266 - - DEHE1 - - - DEHSB - - - - - - b_277 - - b_273 - - b_271 - - THIDN - - - NITSB - - - - SULNB - - - - b_276 - - HELPH - - - CAMJE - - - - - - b_283 - - b_281 - - AQUAE - - - HYDY0 - - - - SULYO - - - - - - \ No newline at end of file diff --git a/forester/data/tol_336.xml b/forester/data/tol_336.xml deleted file mode 100644 index 22e0694..0000000 --- a/forester/data/tol_336.xml +++ /dev/null @@ -1,2041 +0,0 @@ - - - - - cellular_organisms - - Neomura - - Eukaryota - - Unikonta - - Opisthokonta - - Metazoa_Choanoflagellata - - Metazoa - - - Bilateria_Cnidaria - - Bilateria - - Deuterostomia - - - Chordata - - Urochordata_Vertebrata - - Vertebrata - - Tetrapoda - - Amniota - - Mammalia - - Theria - - Eutheria - - Euarchontoglires - - Primates - - HUMAN - - - PANTR - - - - Rodentia - - MOUSE - - - RAT - - - - - CANFA - - - - MONDO - - - - ORNAN - - - - CHICK - - - - XENTR - - - - Teleostei - - Euteleostei - - Smegmamorpha - - 129949 - - - GASAC - - - ORYLA - - - - Tetraodontiformes - - FUGRU - - - TETNG - - - - - DANRE - - - - - Urochordata - - 7712 - Urochordata - tunicates - - - Ascidiacea - - 7713 - Ascidiacea - sea squirts - - - CIOIN - - - CIOSA - - - - OIKDI - - 34765 - Oikopleura dioica - - - - - - BRAFL - - - - STRPU - - - - Protostomia - - Ecdysozoa - - Arthropoda - - Insecta - - Lepidoptera_Diptera_Hymenoptera - - Lepidoptera_Diptera - - Diptera - - Muscomorpha - - DROME - - - DROPS - - - - Culicoidea - - AEDAE - - - ANOGA - - - CULPI - - - - - BOMMO - - - - Hymenoptera - - APIME - - - NASVI - - - - - TRICA - - - - DAPPU - - - - Nematoda - - CAEEL - - - CAEBR - - - - - Lophotrochozoa - - Annelida_Mollusca - - Annelida - - CAP - - - HELRO - - - - LOTGI - - - - Platyhelminthes - - SCHMA - - - SCHMD - - - - - - - NEMVE - - - - TRIAD - - - - - MONBE - - - - Fungi - - f_122 - - f_120 - - f_116 - - Ascomycota - - Pezizomycotina - - f_54 - - f_50 - - f_34 - - f_24 - - f_14 - - f_12 - - f_6 - - f_4 - - f_2 - - TRIVE - - - TRIAT - - - - TRIRE - - - - FUSSH - - - - f_11 - - f_9 - - FUSOX - - - GIBMO - - - - GIBZE - - - - - MAGGR - - - - f_23 - - f_19 - - f_17 - - NEUCR - - - PODAN - - - - CHAGB - - - - f_22 - - BOTFB - - - SCLSC - - - - - - f_33 - - f_29 - - f_27 - - PYRTR - - - COCHE - - - - PHANO - - - - f_32 - - MYCFI - - - MYCGR - - - - - - f_49 - - f_41 - - f_39 - - f_37 - - ASPFU - - - NEOFI - - - - ASPCL - - - - EMENI - - - - f_48 - - f_44 - - ASPFL - - - ASPOR - - - - f_47 - - ASPNG - - - ASPTE - - - - - - - f_53 - - COCIM - - - UNCRE - - - - - f_57 - - AJECA - - - PARBR - - - - - f_99 - - Saccharomycotina - - f_91 - - f_77 - - f_69 - - f_67 - - f_65 - - f_63 - - f_61 - - YEAST - - - SACCR - - - - SACPA - - - - SACBA - - - - SACMI - - - - SACCA - - - - f_76 - - f_74 - - f_72 - - ASHGO - - - CANGA - - - - KLUWA - - - - KLULA - - - - - f_90 - - f_84 - - f_82 - - f_80 - - CANAL - - - CANTR - - - - LODEL - - - - CLALS - - - - f_89 - - f_87 - - DEBHA - - - PICST - - - - PICGU - - - - - - YARLI - - - - Taphrinomycotina - - f_96 - - SCHPO - - - SCHOT - - - - SCHJP - - - - - - Basidiomycota - - f_113 - - f_111 - - f_107 - - f_105 - - f_103 - - COPCI - - - LACBI - - - - POSPL - - - - PHACH - - - - f_110 - - CRYNE - - - PUCGR - - - - - SPORO - - - - USTMA - - - - - Mucoromycotina - - PHYBL - - - RHIOR - - - - - BATDE - - - - ENCCU - - - - - Amoebozoa - - Dictyostelium - - DICDI - - - DICPU - - - - ENTHI - - - - - Bikonta - - - Corticata - - Chromalveolate - - - Heterokonta_Alveolata - - Alveolata - - Apicomplexa - - Aconoidasida - - Plasmodium - - PLAFA - - - PLAYO - - - PLACH - - - - Theileria - - THEPA - - - THEAN - - - - - Coccidia - - Cryptosporidium - - CRYHO - - - CRYPV - - - - TOXGO - - - - - Ciliophora - - TETTH - - - PARTE - - - - - Heterokonta - - Heterokonta - Stramenophiles - - - Pelagophyceae_Bacillariophyta - - Bacillariophyta - - Bacillariophyta - Diatoms - - - THAPS - - - PHATR - - - - AURAN - - - - Oomycetes - - PHYIN - - - PHYRM - - - PHYSO - - - - - - EMIHU - - - - Archaeplastida - - Viridiplantae - - Embryophyta - - Tracheophyta - - Magnoliophyta - - Eudicotyledons - - Arabidopsis - - ARATH - - - ARALY - - - - POPTR - - - VITVI - - - - Poales - - Oryza - - ORYSJ - - - ORYSA - - - - SORBI - - - - - SELMO - - - - PHYPA - - - - Chlorophyta - - Prasinophyceae - - Ostreococcus - - OSTLU - - - OSTTA - - - OSTRC - - - - Micromonas - - MICPU - - - MIC99 - - - - - Trebouxiophyceae_Chlorophyceae - - Chlorophyceae - - CHLRE - - - VOLCA - - - - CHLSP - - 310507 - CHLSP - Chlorella sp. NC64A - - - - - - - CYAME - - - - - Excavata - - - Kinetoplastida_Heterolobosea - - Kinetoplastida - - LEIMA - - - TRYBB - - - - NAEGR - - - - Metamonada - - GIALA - - - TRIVA - - - - - - - Archaea - - a_62 - - a_56 - - a_52 - - a_44 - - a_28 - - a_26 - - a_16 - - a_14 - - a_12 - - a_6 - - a_4 - - a_2 - - METAC - - - METBF - - - - METMA - - - - METBU - - - - a_11 - - a_9 - - METHU - - - METB6 - - - - METMJ - - - - - METLZ - - - - METTP - - - - a_25 - - a_23 - - a_19 - - NATPH - - - HALMA - - - - a_22 - - HALSP - - - HALS3 - - - - - HALWD - - - - - ARCFU - - - - a_43 - - a_41 - - a_35 - - a_31 - - METJA - - - META3 - - - - a_34 - - METMP - - - METVS - - - - - a_40 - - a_38 - - METST - - - METS3 - - - - METTH - - - - - METKA - - - - - a_51 - - a_47 - - PYRFU - - - THEKO - - - - a_50 - - PYRAB - - - PYRHO - - - - - - a_55 - - NITMA - - - NANEQ - - - - - a_61 - - a_59 - - THEVO - - - THEAC - - - - PICTO - - - - - a_93 - - a_91 - - a_83 - - a_81 - - a_73 - - a_71 - - a_67 - - a_65 - - PYRAR - - - PYRCJ - - - - PYRAE - - - - a_70 - - PYRIL - - - THENV - - - - - CALMA - - - - a_80 - - a_78 - - a_76 - - SULTO - - - SULAC - - - - SULSO - - - - METS5 - - - - - AERPE - - - - a_90 - - a_88 - - a_86 - - STAMF - - - THEPD - - - - HYPBU - - - - IGNH4 - - - - - KORCR - - - - - - Bacteria - - b_278 - - b_268 - - b_226 - - b_200 - - b_194 - - b_104 - - b_80 - - b_72 - - b_52 - - b_44 - - b_30 - - b_24 - - b_16 - - b_10 - - b_8 - - b_6 - - b_4 - - b_2 - - ECOLI - - - ECO57 - - - - SHIFL - - - - SALTY - - - - YERPE - - - - PHOLU - - - - b_15 - - b_13 - - PHOPR - - - VIBCH - - - - SHEDO - - - - - b_23 - - b_21 - - b_19 - - PSEF5 - - - PSEPF - - - - PSEAE - - - - CHRSD - - - - - b_29 - - b_27 - - RALME - - - RHOFT - - - - DECAR - - - - - b_43 - - b_41 - - b_35 - - b_33 - - NITMU - - - NITEU - - - - THIDE - - - - b_40 - - b_38 - - ALHEH - - - HALHL - - - - NITOC - - - - - THICR - - - - - b_51 - - b_47 - - LEGPN - - - IDILO - - - - b_50 - - XANAC - - - XYLFT - - - - - - b_71 - - b_67 - - b_65 - - b_61 - - b_57 - - b_55 - - SINME - - - RHIEC - - - - AGRT5 - - - - b_60 - - BRAJA - - - RHOPT - - - - - b_64 - - ROSDO - - - RHOS1 - - - - - CAUCR - - - - b_70 - - RHORU - - - ACICY - - - - - - b_79 - - b_77 - - b_75 - - PASMU - - - HAEIN - - - - NEIME - - - - ACIFE - - - - - b_103 - - b_91 - - b_87 - - b_83 - - DESDE - - - DESPS - - - - b_86 - - SYNAS - - - DESOL - - - - - b_90 - - GEOME - - - GEOSL - - - - - b_102 - - b_98 - - b_94 - - ANADE - - - MYXXA - - - - b_97 - - SOLUS - - - ACIBL - - - - - b_101 - - RHOBA - - - OPITE - - - - - - - b_193 - - b_163 - - b_133 - - b_127 - - b_119 - - b_115 - - b_113 - - b_111 - - b_109 - - b_107 - - MYCTU - - - MYCLE - - - - RHOR1 - - - - STRCO - - - - KINRD - - - - THEFY - - - - b_118 - - CORJK - - - KOCRD - - - - - b_126 - - b_124 - - b_122 - - CHLAU - - - ROSCA - - - - HERAU - - - - RUBXD - - - - - b_132 - - b_130 - - DEIRA - - - DEIGD - - - - THETH - - - - - b_162 - - b_154 - - b_152 - - b_146 - - b_144 - - b_142 - - b_140 - - b_138 - - b_136 - - NOSS7 - - - ANAVA - - - - NOSP7 - - - - CYAA2 - - - - ACAMR - - - - MICAN - - - - TRIER - - - - b_151 - - b_149 - - SYNEL - - - SYNY3 - - - - THEEL - - - - - GLOVI - - - - b_161 - - b_159 - - b_157 - - PROMA - - - PROMP - - - - PROMM - - - - SYNS3 - - - - - - b_192 - - b_190 - - b_178 - - b_176 - - b_170 - - b_166 - - CHLPB - - - PROAE - - - - b_169 - - PROVI - - - PELLU - - - - - b_175 - - b_173 - - CHLTE - - - CHLP8 - - - - CHLCH - - - - - CHLTA - - - - b_189 - - b_183 - - b_181 - - FLAJO - - - GRAFK - - - - CYTH3 - - - - b_188 - - b_186 - - BACFR - - - BACTN - - - - PORGI - - - - - - SALRD - - - - - - b_199 - - b_197 - - METI4 - - - AKKM8 - - - - LEPIC - - - - - b_225 - - b_219 - - b_213 - - b_211 - - b_207 - - b_203 - - BACSU - - - BACAN - - - - b_206 - - GEOKA - - - BACHD - - - - - b_210 - - LISMO - - - STAAU - - - - - CLOP1 - - - - b_218 - - b_216 - - CARHZ - - - THETN - - - - DESHA - - - - - b_224 - - b_222 - - THELT - - - FERNB - - - - THEMA - - - - - - b_267 - - b_263 - - b_251 - - b_249 - - b_245 - - b_237 - - b_233 - - b_231 - - b_229 - - MYCPN - - - MYCGE - - - - MESFL - - - - UREPA - - - - b_236 - - BORBU - - - TREPA - - - - - b_244 - - b_242 - - b_240 - - CHLPN - - - CHLFF - - - - CHLMU - - - - RICTY - - - - - b_248 - - PELUB - - - BARHE - - - - - FRATU - - - - b_262 - - b_260 - - b_258 - - b_256 - - b_254 - - STRPN - - - STRPY - - - - LACLA - - - - LACAC - - - - BIFLO - - - - FUSNU - - - - - b_266 - - DEHE1 - - - DEHSB - - - - - - b_277 - - b_273 - - b_271 - - THIDN - - - NITSB - - - - SULNB - - - - b_276 - - HELPH - - - CAMJE - - - - - - b_283 - - b_281 - - AQUAE - - - HYDY0 - - - - SULYO - - - - - - diff --git a/forester/data/tol_336_traditional_metazoans.xml b/forester/data/tol_336_traditional_metazoans.xml deleted file mode 100644 index 72c1c39..0000000 --- a/forester/data/tol_336_traditional_metazoans.xml +++ /dev/null @@ -1,2039 +0,0 @@ - - - - - cellular_organisms - - Neomura - - Eukaryota - - Unikonta - - Opisthokonta - - Metazoa_Choanoflagellata - - Metazoa - - - Bilateria_Cnidaria - - Bilateria - - Deuterostomia_Protostomia_Nematoda - - Deuterostomia_Protostomia - - Deuterostomia - - - Chordata - - Cephalochordata_Vertebrata - - Vertebrata - - Tetrapoda - - Amniota - - Mammalia - - Theria - - Eutheria - - Euarchontoglires - - Primates - - HUMAN - - - PANTR - - - - Rodentia - - MOUSE - - - RAT - - - - - CANFA - - - - MONDO - - - - ORNAN - - - - CHICK - - - - XENTR - - - - Teleostei - - Euteleostei - - Smegmamorpha - - 129949 - - - GASAC - - - ORYLA - - - - Tetraodontiformes - - FUGRU - - - TETNG - - - - - DANRE - - - - - BRAFL - - - - Urochordata - - 7712 - Urochordata - tunicates - - - Ascidiacea - - 7713 - Ascidiacea - sea squirts - - - CIOIN - - - CIOSA - - - - OIKDI - - 34765 - Oikopleura dioica - - - - - - STRPU - - - - Protostomia - - Arthropoda_Annelida - - Arthropoda - - Insecta - - Lepidoptera_Diptera_Hymenoptera - - Lepidoptera_Diptera - - Diptera - - Muscomorpha - - DROME - - - DROPS - - - - Culicoidea - - AEDAE - - - ANOGA - - - CULPI - - - - - BOMMO - - - - Hymenoptera - - APIME - - - NASVI - - - - - TRICA - - - - DAPPU - - - - Annelida - - CAP - - - HELRO - - - - - LOTGI - - - - - Nematoda - - CAEEL - - - CAEBR - - - - - Platyhelminthes - - SCHMA - - - SCHMD - - - - - NEMVE - - - - TRIAD - - - - - MONBE - - - - Fungi - - f_122 - - f_120 - - f_116 - - Ascomycota - - Pezizomycotina - - f_54 - - f_50 - - f_34 - - f_24 - - f_14 - - f_12 - - f_6 - - f_4 - - f_2 - - TRIVE - - - TRIAT - - - - TRIRE - - - - FUSSH - - - - f_11 - - f_9 - - FUSOX - - - GIBMO - - - - GIBZE - - - - - MAGGR - - - - f_23 - - f_19 - - f_17 - - NEUCR - - - PODAN - - - - CHAGB - - - - f_22 - - BOTFB - - - SCLSC - - - - - - f_33 - - f_29 - - f_27 - - PYRTR - - - COCHE - - - - PHANO - - - - f_32 - - MYCFI - - - MYCGR - - - - - - f_49 - - f_41 - - f_39 - - f_37 - - ASPFU - - - NEOFI - - - - ASPCL - - - - EMENI - - - - f_48 - - f_44 - - ASPFL - - - ASPOR - - - - f_47 - - ASPNG - - - ASPTE - - - - - - - f_53 - - COCIM - - - UNCRE - - - - - f_57 - - AJECA - - - PARBR - - - - - f_99 - - Saccharomycotina - - f_91 - - f_77 - - f_69 - - f_67 - - f_65 - - f_63 - - f_61 - - YEAST - - - SACCR - - - - SACPA - - - - SACBA - - - - SACMI - - - - SACCA - - - - f_76 - - f_74 - - f_72 - - ASHGO - - - CANGA - - - - KLUWA - - - - KLULA - - - - - f_90 - - f_84 - - f_82 - - f_80 - - CANAL - - - CANTR - - - - LODEL - - - - CLALS - - - - f_89 - - f_87 - - DEBHA - - - PICST - - - - PICGU - - - - - - YARLI - - - - Taphrinomycotina - - f_96 - - SCHPO - - - SCHOT - - - - SCHJP - - - - - - Basidiomycota - - f_113 - - f_111 - - f_107 - - f_105 - - f_103 - - COPCI - - - LACBI - - - - POSPL - - - - PHACH - - - - f_110 - - CRYNE - - - PUCGR - - - - - SPORO - - - - USTMA - - - - - Mucoromycotina - - PHYBL - - - RHIOR - - - - - BATDE - - - - ENCCU - - - - - Amoebozoa - - Dictyostelium - - DICDI - - - DICPU - - - - ENTHI - - - - - Bikonta - - - Corticata - - Chromalveolate - - - Heterokonta_Alveolata - - Alveolata - - Apicomplexa - - Aconoidasida - - Plasmodium - - PLAFA - - - PLAYO - - - PLACH - - - - Theileria - - THEPA - - - THEAN - - - - - Coccidia - - Cryptosporidium - - CRYHO - - - CRYPV - - - - TOXGO - - - - - Ciliophora - - TETTH - - - PARTE - - - - - Heterokonta - - Heterokonta - Stramenophiles - - - Pelagophyceae_Bacillariophyta - - Bacillariophyta - - Bacillariophyta - Diatoms - - - THAPS - - - PHATR - - - - AURAN - - - - Oomycetes - - PHYIN - - - PHYRM - - - PHYSO - - - - - - EMIHU - - - - Archaeplastida - - Viridiplantae - - Embryophyta - - Tracheophyta - - Magnoliophyta - - Eudicotyledons - - Arabidopsis - - ARATH - - - ARALY - - - - POPTR - - - VITVI - - - - Poales - - Oryza - - ORYSJ - - - ORYSA - - - - SORBI - - - - - SELMO - - - - PHYPA - - - - Chlorophyta - - Prasinophyceae - - Ostreococcus - - OSTLU - - - OSTTA - - - OSTRC - - - - Micromonas - - MICPU - - - MIC99 - - - - - Trebouxiophyceae_Chlorophyceae - - Chlorophyceae - - CHLRE - - - VOLCA - - - - CHLSP - - 310507 - CHLSP - Chlorella sp. NC64A - - - - - - - CYAME - - - - - Excavata - - - Kinetoplastida_Heterolobosea - - Kinetoplastida - - LEIMA - - - TRYBB - - - - NAEGR - - - - Metamonada - - GIALA - - - TRIVA - - - - - - - Archaea - - a_62 - - a_56 - - a_52 - - a_44 - - a_28 - - a_26 - - a_16 - - a_14 - - a_12 - - a_6 - - a_4 - - a_2 - - METAC - - - METBF - - - - METMA - - - - METBU - - - - a_11 - - a_9 - - METHU - - - METB6 - - - - METMJ - - - - - METLZ - - - - METTP - - - - a_25 - - a_23 - - a_19 - - NATPH - - - HALMA - - - - a_22 - - HALSP - - - HALS3 - - - - - HALWD - - - - - ARCFU - - - - a_43 - - a_41 - - a_35 - - a_31 - - METJA - - - META3 - - - - a_34 - - METMP - - - METVS - - - - - a_40 - - a_38 - - METST - - - METS3 - - - - METTH - - - - - METKA - - - - - a_51 - - a_47 - - PYRFU - - - THEKO - - - - a_50 - - PYRAB - - - PYRHO - - - - - - a_55 - - NITMA - - - NANEQ - - - - - a_61 - - a_59 - - THEVO - - - THEAC - - - - PICTO - - - - - a_93 - - a_91 - - a_83 - - a_81 - - a_73 - - a_71 - - a_67 - - a_65 - - PYRAR - - - PYRCJ - - - - PYRAE - - - - a_70 - - PYRIL - - - THENV - - - - - CALMA - - - - a_80 - - a_78 - - a_76 - - SULTO - - - SULAC - - - - SULSO - - - - METS5 - - - - - AERPE - - - - a_90 - - a_88 - - a_86 - - STAMF - - - THEPD - - - - HYPBU - - - - IGNH4 - - - - - KORCR - - - - - - Bacteria - - b_278 - - b_268 - - b_226 - - b_200 - - b_194 - - b_104 - - b_80 - - b_72 - - b_52 - - b_44 - - b_30 - - b_24 - - b_16 - - b_10 - - b_8 - - b_6 - - b_4 - - b_2 - - ECOLI - - - ECO57 - - - - SHIFL - - - - SALTY - - - - YERPE - - - - PHOLU - - - - b_15 - - b_13 - - PHOPR - - - VIBCH - - - - SHEDO - - - - - b_23 - - b_21 - - b_19 - - PSEF5 - - - PSEPF - - - - PSEAE - - - - CHRSD - - - - - b_29 - - b_27 - - RALME - - - RHOFT - - - - DECAR - - - - - b_43 - - b_41 - - b_35 - - b_33 - - NITMU - - - NITEU - - - - THIDE - - - - b_40 - - b_38 - - ALHEH - - - HALHL - - - - NITOC - - - - - THICR - - - - - b_51 - - b_47 - - LEGPN - - - IDILO - - - - b_50 - - XANAC - - - XYLFT - - - - - - b_71 - - b_67 - - b_65 - - b_61 - - b_57 - - b_55 - - SINME - - - RHIEC - - - - AGRT5 - - - - b_60 - - BRAJA - - - RHOPT - - - - - b_64 - - ROSDO - - - RHOS1 - - - - - CAUCR - - - - b_70 - - RHORU - - - ACICY - - - - - - b_79 - - b_77 - - b_75 - - PASMU - - - HAEIN - - - - NEIME - - - - ACIFE - - - - - b_103 - - b_91 - - b_87 - - b_83 - - DESDE - - - DESPS - - - - b_86 - - SYNAS - - - DESOL - - - - - b_90 - - GEOME - - - GEOSL - - - - - b_102 - - b_98 - - b_94 - - ANADE - - - MYXXA - - - - b_97 - - SOLUS - - - ACIBL - - - - - b_101 - - RHOBA - - - OPITE - - - - - - - b_193 - - b_163 - - b_133 - - b_127 - - b_119 - - b_115 - - b_113 - - b_111 - - b_109 - - b_107 - - MYCTU - - - MYCLE - - - - RHOR1 - - - - STRCO - - - - KINRD - - - - THEFY - - - - b_118 - - CORJK - - - KOCRD - - - - - b_126 - - b_124 - - b_122 - - CHLAU - - - ROSCA - - - - HERAU - - - - RUBXD - - - - - b_132 - - b_130 - - DEIRA - - - DEIGD - - - - THETH - - - - - b_162 - - b_154 - - b_152 - - b_146 - - b_144 - - b_142 - - b_140 - - b_138 - - b_136 - - NOSS7 - - - ANAVA - - - - NOSP7 - - - - CYAA2 - - - - ACAMR - - - - MICAN - - - - TRIER - - - - b_151 - - b_149 - - SYNEL - - - SYNY3 - - - - THEEL - - - - - GLOVI - - - - b_161 - - b_159 - - b_157 - - PROMA - - - PROMP - - - - PROMM - - - - SYNS3 - - - - - - b_192 - - b_190 - - b_178 - - b_176 - - b_170 - - b_166 - - CHLPB - - - PROAE - - - - b_169 - - PROVI - - - PELLU - - - - - b_175 - - b_173 - - CHLTE - - - CHLP8 - - - - CHLCH - - - - - CHLTA - - - - b_189 - - b_183 - - b_181 - - FLAJO - - - GRAFK - - - - CYTH3 - - - - b_188 - - b_186 - - BACFR - - - BACTN - - - - PORGI - - - - - - SALRD - - - - - - b_199 - - b_197 - - METI4 - - - AKKM8 - - - - LEPIC - - - - - b_225 - - b_219 - - b_213 - - b_211 - - b_207 - - b_203 - - BACSU - - - BACAN - - - - b_206 - - GEOKA - - - BACHD - - - - - b_210 - - LISMO - - - STAAU - - - - - CLOP1 - - - - b_218 - - b_216 - - CARHZ - - - THETN - - - - DESHA - - - - - b_224 - - b_222 - - THELT - - - FERNB - - - - THEMA - - - - - - b_267 - - b_263 - - b_251 - - b_249 - - b_245 - - b_237 - - b_233 - - b_231 - - b_229 - - MYCPN - - - MYCGE - - - - MESFL - - - - UREPA - - - - b_236 - - BORBU - - - TREPA - - - - - b_244 - - b_242 - - b_240 - - CHLPN - - - CHLFF - - - - CHLMU - - - - RICTY - - - - - b_248 - - PELUB - - - BARHE - - - - - FRATU - - - - b_262 - - b_260 - - b_258 - - b_256 - - b_254 - - STRPN - - - STRPY - - - - LACLA - - - - LACAC - - - - BIFLO - - - - FUSNU - - - - - b_266 - - DEHE1 - - - DEHSB - - - - - - b_277 - - b_273 - - b_271 - - THIDN - - - NITSB - - - - SULNB - - - - b_276 - - HELPH - - - CAMJE - - - - - - b_283 - - b_281 - - AQUAE - - - HYDY0 - - - - SULYO - - - - - - \ No newline at end of file