From: cmzmasek@gmail.com Date: Sat, 23 Jun 2012 04:02:19 +0000 (+0000) Subject: in progress X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=9cf85e9438934b56d83f446a22f3df3e1e81a730;p=jalview.git in progress --- diff --git a/forester/data/tol_143.xml b/forester/data/tol_143.xml deleted file mode 100644 index 37051b5..0000000 --- a/forester/data/tol_143.xml +++ /dev/null @@ -1,6694 +0,0 @@ - - - - - cellular_organisms - - - Neomura - - - - 2759 - Eukaryota - superkingdom - - - Unikonta - - Opisthokonta & Apusozoa - - - 33154 - Opisthokonta - Fungi/Metazoa group - - - - Holozoa - - - Choanoflagellatea & Metazoa - - Metazoa - - 33208 - Metazoa - kingdom - - - Eumetazoa - - - - Bilateria_Cnidaria - - Bilateria - - Deuterostomia - - - - Chordata - - 7711 - Chordata - phylum - - - Urochordata & Vertebrata - - - 7742 - Vertebrata - - - - 7776 - Gnathostomata - jawed vertebrates - superclass - - - - 117571 - Euteleostomi - - - Tetrapoda - - Amniota - - - 40674 - Mammalia - class - - - Theria - - - 9347 - Eutheria - Placental mammals - - - The new framework for understanding placental mammal evolution - - - - Boreoeutheria - Boreotheria - - - - 314146 - Euarchontoglires - superorder - - - - Euarchonta - - - - 9443 - Primates - order - - - - 376913 - Haplorrhini - suborder - - - - 314293 - Simiiformes - infraorder - - - - 9526 - Catarrhini - - - - 314295 - Hominoidea - Apes - superfamily - - - - 9604 - Hominidae - Great apes - family - - - - 207598 - Homininae - subfamily - - - - Hominini - tribe - - - - 9606 - HUMAN - Homo sapiens - Human - species - http://www.thehindu.com/multimedia/dynamic/00029/IN05_DARWIN_29896f.jpg - - - - - 9598 - PANTR - Pan troglodytes - Chimpanzee - species - http://upload.wikimedia.org/wikipedia/commons/thumb/8/8b/Schimpanse_zoo-leipig.jpg/800px-Schimpanse_zoo-leipig.jpg - - - - - - 9595 - GORGO - Gorilla gorilla gorilla - Western lowland gorilla - subspecies - http://upload.wikimedia.org/wikipedia/commons/c/c7/Stavenn_Gorilla_gorilla_00.jpg - - - - - - 9601 - PONAB - Pongo abelii - Sumatran orangutan - Pongo pygmaeus abelii - species - http://www.kidszoo.org/images/animals/orangutan.jpg - - - - - - 61853 - NOMLE - Nomascus leucogenys - Northern white-cheeked gibbon - Hylobates leucogenys - Hylobates concolor leucogenys - species - http://uswest.ensembl.org/img/species/pic_Nomascus_leucogenys.png - http://upload.wikimedia.org/wikipedia/commons/thumb/1/1b/Hylobates_concolor2.jpg/450px-Hylobates_concolor2.jpg - - - - - - 9528 - Cercopithecinae - subfamily - - - - 9544 - MACMU - Macaca mulatta - Rhesus macaque - species - http://www.biolib.cz/IMG/GAL/39329.jpg - - - - - 9557 - PAPHA - Papio hamadryas - Hamadryas baboon - species - http://pin.primate.wisc.edu/fs/sheets/images/227lg.jpg - - - - - - - 9483 - CALJA - Callithrix jacchus - White-tufted-ear marmoset - Callithrix jacchus jacchus - species - http://www.arthurgrosset.com/mammals/photos/caljac28086.jpg - - - - - - 9478 - TARSY - Tarsius syrichta - Philippine tarsier - species - http://calphotos.berkeley.edu/imgs/512x768/0000_0000/0408/1425.jpeg - - - - - - 376911 - Strepsirrhini - suborder - - - - 30608 - MICMU - Microcebus murinus - Lesser mouse lemur - species - http://daniel.montagnon.pagesperso-orange.fr/images/MicrocbusMurinus.jpg - - - - - 30611 - OTOGA - Otolemur garnettii - Garnett's greater bushbaby - Galago garnetti - Small-eared galago - Garnett's greater bushbaby - species - http://www.mbweni.com/images/Mbweni%20Images/naturetrail/small-earedgalago.jpg - - - - - - - 37347 - TUPBE - Tupaia belangeri - Common tree shrew - Tupaia glis belangeri - species - http://upload.wikimedia.org/wikipedia/commons/thumb/4/44/Tupaia_belangeri.JPG/800px-Tupaia_belangeri.JPG - - - - - - 314147 - Glires - Rodents and rabbits - - - - 9989 - Rodentia - order - - - Ctenohystrica & Mouse-related clade - - Rodent phylogeny revised: analysis of six nuclear genes from all major rodent clades. - - - - Mouse-related clade - - - - 337687 - Muroidea - - - - 39107 - Murinae - subfamily - - - - 10090 - MOUSE - Mus musculus - Mouse - species - http://www.zoologi.no/patlas/images/husmus-RS.jpg - - - - - 10116 - RAT - Rattus norvegicus - Rat - species - http://upload.wikimedia.org/wikipedia/commons/0/01/Rattus_norvegicus_1.jpg - - - - - - 10036 - MESAU - Mesocricetus auratus - Golden hamster - species - http://www.zipcodezoo.com/hp350/Mesocricetus_auratus_0.jpg - - - - - - 10020 - DIPOR - Dipodomys ordii - Ord's kangaroo rat - species - http://www.nsrl.ttu.edu/tmot1/images/dipoordi.jpg - - - - - - 10141 - CAVPO - Cavia porcellus - Guinea pig - species - http://upload.wikimedia.org/wikipedia/commons/7/77/Guinea_1.jpg - - - - - - 43179 - SPETR - Spermophilus tridecemlineatus - Thirteen-lined ground squirrel - Ictidomys tridecemlineatus - species - http://animaldiversity.ummz.umich.edu/site/resources/phil_myers/ADW_mammals/Rodentia/Spermophilus4345.jpg/medium.jpg - - - - - - 9975 - Lagomorpha - Rabbits, hares, pikas - order - - - - 9978 - OCHPR - Ochotona princeps - Southern American pika - species - http://upload.wikimedia.org/wikipedia/commons/3/3b/Ochotona_princeps.jpg - - - - - 9986 - RABIT - Oryctolagus cuniculus - Rabbit - species - http://www.animalpictures.tk/wp-content/uploads/pictures/pictures-of-rabbit-pictures-818.jpg - http://greennature.com/gallery/farm-animal-pictures/albino_rabbit.jpg - - - - - - - - 314145 - Laurasiatheria - superorder - - - - Scrotifera - - - Perissodactyla & Cetartiodactyla & Chiroptera - - Perissodactyla & Cetartiodactyla - - - 91561 - Cetartiodactyla - Even-toed ungulates - - - Cetruminantia & Suina - - - Cetruminantia - - - - 9895 - Bovidae - family - - - - 9913 - BOVIN - Bos taurus - Bovine - Bos bovis - species - http://www.biolib.cz/IMG/GAL/18578.jpg - - - - - 9940 - SHEEP - Ovis aries - Sheep - species - http://animaldiversity.ummz.umich.edu/site/resources/james_dowlinghealey/blacksheep.jpg/medium.jpg - - - - - - 9721 - Cetacea - Whales - order - - - - 9771 - BALMU - Balaenoptera musculus - Blue whale - species - http://2.bp.blogspot.com/_W90V87w3sr8/TT63uRT_U9I/AAAAAAAAAo8/to9O8zEeo7k/s1600/bluewhale.jpg - - - - - 9739 - TURTR - Tursiops truncatus - Atlantic bottle-nosed dolphin - Delphinus truncatus - species - http://upload.wikimedia.org/wikipedia/commons/thumb/a/a6/Bottlenose_Dolphin_KSC04pd0178.jpg/800px-Bottlenose_Dolphin_KSC04pd0178.jpg - - - - - - - 9823 - PIG - Sus scrofa - Pig - species - http://www.batraciens-reptiles.com/sus%20scrofa2.jpg - - - - - - 30538 - LAMPA - Lama guanicoe pacos - Alpaca - Lama pacos - species - http://upload.wikimedia.org/wikipedia/commons/thumb/8/8f/A_group_of_Alpacas_on_a_property_including_cria.jpg/800px-A_group_of_Alpacas_on_a_property_including_cria.jpg - - - - - - 9796 - HORSE - Equus caballus - Horse - species - http://calphotos.berkeley.edu/imgs/512x768/0000_0000/0801/0088.jpeg - - - - - - 9397 - Chiroptera - Bats - order - - - - 59463 - MYOLU - Myotis lucifugus - Little brown bat - species - http://biology.lakeheadu.ca/uploads/Nature_photography/brown_bat.jpg - - - - - 132908 - PTEVA - Pteropus vampyrus - Large flying fox - species - http://upload.wikimedia.org/wikipedia/commons/thumb/5/5e/Pteropus_vampyrus1.jpg/412px-Pteropus_vampyrus1.jpg - - - - - - Carnivora - - 33554 - Carnivora - order - - - - 379584 - Caniformia - suborder - - - - 9646 - AILME - Ailuropoda melanoleuca - Giant panda - species - http://upload.wikimedia.org/wikipedia/commons/thumb/3/3c/Giant_Panda_2004-03-2.jpg/800px-Giant_Panda_2004-03-2.jpg - - - - CANFA - - 9615 - CANFA - Canis familiaris - Dog - Canis lupus familiaris - subspecies - http://upload.wikimedia.org/wikipedia/commons/a/ab/Wikilabrador_jardin.JPG - - - - - FELCA - - 9685 - FELCA - Felis catus - Cat - Felis silvestris catus - species - 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 - Anas platyrhynchos - Domestic duck - Anas boschas - species - http://content.ornith.cornell.edu/UEWebApp/images/MPR_070302_100009_L.jpg - - - - - TAEGU - - 59729 - TAEGU - Taeniopygia guttata - Zebra finch - Poephila guttata - species - http://upload.wikimedia.org/wikipedia/commons/thumb/8/84/Taeniopygia_guttata_-_front_view_-_dundee_wildlife_park.jpg/355px-Taeniopygia_guttata_-_front_view_-_dundee_wildlife_park.jpg - - - - - ANOCA - - 795869 - ANOCA - Anolis carolinensis - Voigt, 1832 - Green anole - American chameleon - species - http://content61.eol.org/content/2009/09/20/01/05528_580_360.jpg - http://content61.eol.org/content/2008/10/08/13/66818_580_360.jpg - - - - - - XENTR - - 8364 - XENTR - Xenopus tropicalis - Western clawed frog - Silurana tropicalis - species - http://genoweb.univ-rennes1.fr/OGP/xenopus%20tropicalis.jpg - - - - - Teleostei - - 32443 - Teleostei - - - - 123368 - Acanthomorpha - - - - 32485 - Percomorpha - - - Smegmamorpha - - GASAC - - 69293 - GASAC - 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 - TRICA - Tribolium castaneum - Red flour beetle - species - - - - - - 7524 - Hemiptera - order - - - ACYPI - - 7029 - ACYPI - Acyrthosiphon pisum - Pea aphid - species - - - - RHOPR - - 13249 - RHOPR - Rhodnius prolixus - Triatomid bug - species - http://upload.wikimedia.org/wikipedia/commons/b/b9/Rhodnius_prolixus.jpg - - - - - - - 6658 - Branchiopoda - class - - - - 6661 - ARTSF - Artemia franciscana - Brine shrimp - Artemia sanfranciscana - species - http://www.alireza-asem.ir/images/Artemia.jpg - - - - DAPPU - - 6669 - DAPPU - Daphnia pulex - Water flea - species - http://www.microscopy-uk.org.uk/mag/imgjun99/daphni.jpg - - - - - - - 61985 - Myriapoda - subphylum - - - - 7553 - Diplopoda - millipedes - class - - - - 118561 - Helminthomorpha - subclass - - - - 364406 - Antrokoreana gracilipes - species - http://www.gwbaekdu.com/data/2d/%EA%B3%A1%EC%84%9D%EA%B5%B4_4(%EB%93%B1%EC%A4%84%EA%B5%B4%EB%85%B8%EB%9E%98%EA%B8%B0).jpg - - - - - 174156 - NARAN - Narceus annularis - Millipede - 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 - Aspergillus niger - species - - - - - - - - 33183 - Onygenales - order - - - COCIM - - 5501 - COCIM - Coccidioides immitis - Valley fever fungus - species - - - - UNCRE - - 336963 - UNCRE - Uncinocarpus reesii (strain UAMH 1704) - - - - - - - 656061 - TUBMM - Tuber melanosporum (strain Mel28) - Perigord black truffle - Tuber melanosporum Mel28 - http://www.gmvmonza.org/images%20parco/Tuber%20melanosporum%20p106.jpg - - - - - - 4892 - Saccharomycetales - budding yeasts - order - - - Candida & Debaryomyces & Saccharomycetacea - - - 4893 - Saccharomycetaceae - family - - - Saccharomyces_Pichia - - Saccharomyces - - SACCA - - 27288 - SACCA - Saccharomyces castellii - Yeast - Saccharomyces castellii - species - - - - YEAST - - 4932 - YEAST - Saccharomyces cerevisiae - Baker's yeast - species - - - - - PICAN - - 4905 - PICAN - Pichia angusta - Yeast - Hansenula polymorpha - species - - - - - Kluyveromyces & Ashbya - - Kluyveromyces - - KLULA - - 28985 - KLULA - Kluyveromyces lactis - Yeast - Candida sphaerica - species - - - - KLUWA - - 4914 - KLUWA - Kluyveromyces waltii - Yeast - species - - - - - ASHGO - - 33169 - ASHGO - Ashbya gossypii - Yeast - Eremothecium gossypii - 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 - - - Pneumocystidomycetes & Schizosaccharomycetes - - - 4895 - Schizosaccharomyces - genus - - - SCHJP - - 4897 - SCHJP - Schizosaccharomyces japonicus - Fission yeast - species - - - - - 4899 - SCHOT - Schizosaccharomyces octosporus - Fission yeast - species - http://www.dipbot.unict.it/sistematica/Immagini/12002.JPG - - - - SCHPO - - 4896 - SCHPO - 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 aspergillata - species - http://upload.wikimedia.org/wikipedia/commons/e/e9/Coprinopsis.cinerea.-.lindsey.jpg - - - - - - 29883 - LACBI - Laccaria bicolor - Bicoloured deceiver - Laccaria laccata var. bicolor - species - https://www.llnl.gov/news/newsreleases/2006/images/Laccaria_big.jpg - - - - - GYMLUX - - 206324 - Gymnopus luxurians - species - http://www.mushroomexpert.com/images/kuo3/gymnopus_luxurians_02.jpg - - - - - PLEOS - - 5322 - PLEOS - Pleurotus ostreatus - Oyster mushroom - White-rot fungus - species - http://botit.botany.wisc.edu/toms_fungi/images/post1.jpg - - - - - - 68889 - Boletales - Melanogastrales - Sclerodermatales - order - - - - 227334 - Coniophorineae - suborder - - - CONPUT - - 80637 - Coniophora puteana - Schum. ex Fries - cellar fungus - species - http://genome.jgi-psf.org/public/Conpu1/P1240066_dp.jpg - - - - SERLAC - - 85982 - Serpula lacrymans - dry rot fungus - species - http://www.biolib.cz/IMG/GAL/BIG/18135.jpg - - - - - HYDPIN - - 388859 - Hydnomerulius pinastri - Spiny dry rot fungus - species - http://mycoweb-stv.narod.ru/fungi/Submitted/STV1/Hydnomerulius_pinastri_1_STV_20100913.jpg - - - - - - JAAARG - - 202697 - Jaapia argillacea - species - http://upload.wikimedia.org/wikipedia/commons/thumb/f/f4/Jaapia-argillacea.jpeg/640px-Jaapia-argillacea.jpeg - - - - - GLOTR - - 104355 - GLOTR - Gloeophyllum trabeum - Brown rot fungus - species - http://www.cbs.knaw.nl/images/Images_CBSFungi/CD/0001/0008/Gloeophyllum_trabeum.jpg - - - - - - 5303 - Aphyllophorales - Gäum. (1926) - Shelf Fungi - Polyporales - order - - - - 83233 - Coriolaceae - family - - - The phylogenetic distribution of resupinate forms across the major clades of mushroom-forming fungi (Homobasidiomycetes) - - - - - - - Postia & Fomitopsis & Wolfiporia & Trametes - - Antrodia clade - - Antrodia clade - - - FOMPIN - - 40483 - Fomitopsis pinicola - P. Karst. 1881 - Red banded polypore - Fomes pinicola - species - http://content6.eol.org/content/2009/06/07/01/48471_large.jpg - - - - POSPL - - 104341 - Postia placenta - species - http://www.commanster.eu/commanster/Mushrooms/Polypore/SuPolypore/Postia.placenta.jpg - - - - - core polyporoid clade - - core polyporoid clade - - - TRAVE - - 5325 - TRAVE - Trametes versicolor - (L.) 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. Reid 1965 - Red rot - Polyporus anceps - species - http://www.fs.fed.us/r3/resources/health/field-guide/images/large/sds-f199-large.jpg - - - - - - 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 - - - - - - - 452284 - Ustilaginomycotina - subphylum - - - - 425265 - MALGO - Malassezia globosa (strain ATCC MYA-4612 / CBS 7966) - Dandruff-associated fungus - - - - USTMA - - 5270 - USTMA - Ustilago maydis - Smut fungus - species - - - - - - - 29000 - Pucciniomycotina - subphylum - - - - 5258 - Pucciniales - rusts - order - - - MELLP - - 156696 - MELLP - Melampsora laricis-populina - Kleb. 1902 - Melampsora larici-populina - Melampsora laricipopulina - species - - - - PUCGR - - 1029947 - PUCGR - Puccinia graminis - Pers. 1794 - Black stem rust fungus - Wheat rust - species - - - - - - 89013 - mitosporic Sporidiobolales - - - RHOGR - - 29898 - RHOGR - Rhodotorula graminis - Yeast - species - - - - SPORO - - 1013696 - Sporobolomyces roseus - Kluyver & C. B. Niel 1924 - 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 - http://www.diark.org/img/species_pict/Mortierella_verticillata - - - - - - COEREV - - 61392 - Coemansia reversa - species - - - - - - 28583 - ALLMA - Allomyces macrogynus - species - - - - - - 4761 - Chytridiomycota - chytrids - Mastigomycotina - phylum - - - - 451435 - Chytridiomycetes - class - - - - 109871 - BATDE - Batrachochytrium dendrobatidis - Frog chytrid fungus - species - - - - - 109760 - SPIPN - Spizellomyces punctatus - species - - - - - GONPRO - - 157984 - Gonapodya prolifera - A. Fisch. 1892 - species - http://genome.jgi-psf.org/public/Ganpr1/Picture5.jpg - - - - - - PIRSPE - - 73868 - Piromyces sp. E2 - species - http://www.bsu.edu/classes/ruch/msa/barr/4-17.jpg - - - - - 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 - flowering plants - Angiospermae - - - - 71240 - eudicotyledons - - - - 91827 - core eudicotyledons - - - - 71275 - rosids - subclass - - - fabids & malvids - - - 91835 - fabids - - - Rosales & Cucurbitales & Fabales - - Rosales & Cucurbitales - - - 3745 - Rosaceae - family - - - FRAVE - - 57918 - FRAVE - Fragaria vesca - Woodland strawberry - Fragaria vesca L. - European strawberry - alpine strawberry - species - http://www.boga.ruhr-uni-bochum.de/html/Fragaria.vesca.ja6.jpg - http://caliban.mpiz-koeln.mpg.de/thome/band3/tafel_092_small.jpg - - - - PRUPE - - 3760 - PRUPE - Prunus persica - Peach - Persica vulgaris - Amygdalus persica - species - http://www.mezhenskyjv.narod.ru/foto_sortov/dokaz.jpg - - - - - CUCSA - - 3659 - CUCSA - Cucumis sativus - Cucumber - species - - - - - - 3814 - Papilionoideae - subfamily - - - SOYBN - - 3847 - SOYBN - Glycine max - cv. Wye - Soybean - Glycine hispida - species - - - - MEDTR - - 3880 - MEDTR - Medicago truncatula - Barrel medic - Medicago tribuloides - species - http://crdp.ac-besancon.fr/flore/FABACEAE/photos/medicago_truncatula_30.jpg - - - - - - - 3646 - Malpighiales - order - - - - 3977 - Euphorbiaceae - family - - - MANES - - 3983 - MANES - Manihot esculenta - Tapioca - Jatropha manihot - species - http://upload.wikimedia.org/wikipedia/commons/9/99/Iwata_kenichi_cassava.jpg - - - - RICCO - - 3988 - RICCO - Ricinus communis - Castor bean - Ricinus sanguineus - species - http://nmorganics.net/wp-content/uploads/2011/09/castor.jpg - - - - - POPTR - - 3694 - POPTR - Populus trichocarpa - Western balsam poplar - Populus balsamifera subsp. trichocarpa - species - - - - - - - 91836 - malvids - - - Brassicales & Sapindales - - - 3699 - Brassicales - order - - - - 3700 - Brassicaceae - family - - - - 3701 - Arabidopsis - genus - - - ARALY - - 59689 - ARALY - Arabidopsis lyrata - Lyre-leaved rock-cress - species - - - - ARATH - - 3702 - ARATH - Arabidopsis thaliana - Mouse-ear cress - species - - - - - - 98038 - THEHA - Thellungiella halophila - Salt cress - species - http://thellungiella.org/images/thellun1.jpg - - - - - CARPA - - 3649 - CARPA - Carica papaya - Papaya - species - http://www.biopix.com/photos/jko-carica-papaya-00412.jpg - http://www.texasriviera.com/greenthumbs/papaya10.jpg - - - - - - 2706 - Citrus - genus - - - CITCLE - - 85681 - Citrus clementina - Citrus clementina hort. ex Tanaka - species - http://palmen-bolschetz.de/images/citrus%20clementine.jpg - - - - CITSI - - 2711 - CITSI - Citrus sinensis - Sweet orange - Citrus x sinensis - Citrus aurantium var. sinensis - species - http://www.west-crete.com/flowers/photos/citrus_sinensis-1.jpg - - - - - - EUCGR - - 71139 - EUCGR - Eucalyptus grandis - Flooded gum - species - http://www.calflora.net/losangelesarboretum/images/eucalyptus_grandis.jpg - http://www.anbg.gov.au/projects/eucalypts/images/eucalyptus-grandis-bark.jpg - - - - - - VITVI - - 582304 - VITVI - Vitis vinifera - Grape - species - - - - - - 91888 - lamiids - - - - 4070 - Solanaceae - family - - - - 4107 - Solanum - genus - - - - 49274 - Lycopersicon - subgenus - - - - 4081 - SOLLC - Solanum lycopersicum - Tomato - Lycopersicon esculentum - species - http://calphotos.berkeley.edu/imgs/512x768/0000_0000/0905/1214.jpeg - - - - - 4084 - SOLPI - Solanum pimpinellifolium - Currant tomato - Lycopersicon pimpinellifolium - species - http://botany.csdl.tamu.edu/FLORA/hdwimages2/hdwt4-14.jpg - - - - - - uniprot - SOLTU - Solanum tuberosum - Potato - species - http://www.hear.org/starr/images/images/plants/600/starr-080914-9947.jpg - - - - - - 4097 - TOBAC - Nicotiana tabacum - Common tobacco - species - http://calphotos.berkeley.edu/imgs/512x768/0000_0000/0105/2073.jpeg - - - - - MIMGU - - 4155 - MIMGU - Mimulus guttatus - Yellow monkey flower - Yellow monkey flower - species - - - - - - AQUCA - - 218851 - AQUCA - Aquilegia caerulea - E.James - Rocky mountain columbine - Aquilegia coerulea - species - http://content9.eol.org/content/2010/01/01/03/15137_large.jpg - - - - - - 4479 - Poaceae - grass family - Gramineae - family - - - - 147369 - Panicoideae - Link, 1827 - Centothecoideae - subfamily - - - - 147429 - Andropogoneae - Dumort., 1824 - tribe - - - SORBI - - 4558 - SORBI - Sorghum bicolor - Sorghum - Sorghum vulgare - species - - - - MAIZE - - 4577 - MAIZE - Zea mays - Maize - species - - - - - - 147428 - Paniceae - tribe - - - PANVIR - - 38727 - Panicum virgatum - switchgrass - species - http://upload.wikimedia.org/wikipedia/commons/thumb/2/29/PanicumVirgatum.jpg/220px-PanicumVirgatum.jpg - - - - SETIT - - 4555 - SETIT - Setaria italica - Foxtail millet - Panicum italicum - species - http://en.academic.ru/pictures/enwiki/83/Setaria_italica0.jpg - - - - - - - 359160 - BEP clade - - - - 4527 - Oryza - genus - - - ORYSA - - 4530 - ORYSA - Oryza sativa - Rice - species - - - - ORYSJ - - 39947 - ORYSJ - Oryza sativa subsp. japonica - Rice - - - - - BRADI - - 15368 - BRADI - Brachypodium distachyon - Purple false brome - Trachynia distachya - species - http://content5.eol.org/content/2011/01/15/20/16311_large.jpg - - - - - - - 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) - - - - OSTRC - - 385169 - Ostreococcus sp. RCC809 - species - - - - OSTTA - - 70448 - OSTTA - Ostreococcus tauri - 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 - - - 75966 - Trebouxiophyceae - class - - - ASTSPC - - 763042 - Asterochloris sp. Cgr/DA1pho - species - http://genome.jgi-psf.org/Astpho1/Figure_3.jpg - - - - CHLSP - - 554065 - Chlorella variabilis - Chlorella sp. NC64A - species - - - - CHLVUL - - 574566 - Coccomyxa sp. C-169 - Chlorella vulgaris C-169 - species - - - - - - 3042 - Chlamydomonadales - order - - - CHLRE - - 3055 - CHLRE - Chlamydomonas reinhardtii - Chlamydomonas smithii - species - - - - VOLCA - - 3067 - VOLCA - Volvox carteri - Green alga - 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 - - - PLACH - - 5825 - PLACH - Plasmodium chabaudi - species - - - - PLAFA - - 5833 - PLAFA - Plasmodium falciparum - species - - - - PLAYO - - 73239 - PLAYO - Plasmodium yoelii yoelii - subspecies - - - - - Theileria - - 5873 - Theileria - genus - - - THEAN - - 5874 - THEAN - Theileria annulata - species - - - - THEPA - - 5875 - THEPA - Theileria parva - species - - - - - - - 423054 - Eimeriorina - suborder - - - - 5806 - Cryptosporidium - genus - - - CRYHO - - 237895 - CRYHO - Cryptosporidium hominis - species - - - - CRYPV - - 5807 - CRYPV - Cryptosporidium parvum - species - - - - - Eimeria & Toxoplasma - - - 0 - 0 - 0 - - - - The Apicomplexan Whole-Genome Phylogeny: An Analysis of Incongruence among Gene Trees - - - - - - 5802 - EIMTE - Eimeria tenella - Coccidian parasite - species - http://www.k-state.edu/parasitology/625tutorials/FIGtenella.jpg - - - - TOXGO - - 5811 - TOXGO - Toxoplasma gondii - species - - - - - - - - 6020 - Oligohymenophorea - class - - - PARTE - - 5888 - PARTE - Paramecium tetraurelia - species - - - - TETTH - - 5911 - TETTH - Tetrahymena thermophila - species - - - - - - Heterokonta - - 33634 - stramenopiles - Chromophyta - - - Pelagophyceae_Bacillariophyta - - - 2836 - Bacillariophyta - diatoms - phylum - - - - 33850 - Bacillariophycidae - - - FRACY - - 911694 - FRACY - Fragilariopsis cylindrus - Krieger - Nitzschia cylindrus - species - - - - PHATR - - 912693 - PHATR - Phaeodactylum tricornutum - Bohlin - species - - - - - THAPS - - 916868 - THAPS - Thalassiosira pseudonana - Hasle & Heimdal - Marine diatom - Cyclotella nana - 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 - - 2157 - Archaea - superkingdom - - - a_62 - - a_56 - - - 28890 - Euryarchaeota - phylum - - - a_44 - - a_28 - - a_26 - - - 224756 - Methanomicrobia - class - - - a_14 - - a_12 - - - 2206 - Methanosarcinaceae - family - - - - 2207 - Methanosarcina - genus - - - 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 - - 2191 - Methanomicrobiales - order - - - a_9 - - METB6 - - 456442 - METB6 - Methanoregula boonei (strain 6A8) - - - - METHU - - 2203 - METHU - Methanospirillum hungatei - species - - - - - 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 - - 2236 - Halobacteriaceae - family - - - a_23 - - a_19 - - HALMA - - 2238 - HALMA - Haloarcula marismortui - Halobacterium marismortui - species - - - - NATPH - - 2257 - NATPH - Natronomonas pharaonis - Natronobacterium pharaonis - species - - - - - a_22 - - 2239 - Halobacterium - genus - - - HALS3 - - 478009 - HALS3 - Halobacterium salinarum (strain ATCC 29341 / DSM 671 / R1) - - - - HALSP - - 2243 - HALSP - Halobacterium sp. - species - - - - - - HALWD - - 362976 - HALWD - Haloquadratum walsbyi (strain DSM 16790) - - - - - - ARCFU - - 2234 - ARCFU - Archaeoglobus fulgidus - species - - - - - a_43 - - a_41 - - a_35 - - 2182 - Methanococcales - order - - - a_31 - - METJA - - 2190 - METJA - Methanocaldococcus jannaschii - Methanococcus jannaschii - species - - - - META3 - - 419665 - META3 - Methanococcus aeolicus (strain Nankai-3 / ATCC BAA-1280) - - - - - a_34 - - 2184 - Methanococcus - genus - - - METMP - - 39152 - METMP - Methanococcus maripaludis - Methanococcus deltae - species - - - - METVS - - 406327 - METVS - Methanococcus vannielii (strain SB / ATCC 35089 / DSM 1224) - - - - - - a_40 - - 2159 - Methanobacteriaceae - family - - - a_38 - - METS3 - - 420247 - METS3 - Methanobrevibacter smithii (strain PS / ATCC 35061 / DSM 861) - - - - METST - - 339860 - METST - Methanosphaera stadtmanae (strain DSM 3091) - - - - - METTH - - 187420 - METTH - Methanobacterium thermoautotrophicum - - - - - - METKA - - 2320 - METKA - Methanopyrus kandleri - species - - - - - - a_51 - - 2259 - Thermococcaceae - family - - - a_47 - - PYRFU - - 2261 - PYRFU - Pyrococcus furiosus - species - - - - - 69014 - PYRKO - Pyrococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) - Thermococcus kodakaraensis (strain KOD1) - - - - - a_50 - - 2260 - Pyrococcus - genus - - - PYRAB - - 29292 - PYRAB - Pyrococcus abyssi - species - - - - PYRHO - - 53953 - PYRHO - Pyrococcus horikoshii - species - - - - - - - a_55 - - NANEQ - - 228908 - NANEQ - Nanoarchaeum equitans (strain Kin4-M) - - - - - 436308 - NITMS - Nitrosopumilus maritimus (strain SCM1) - - - - - - - 2301 - Thermoplasmatales - order - - - a_59 - - 2302 - Thermoplasma - genus - - - THEAC - - 273075 - THEAC - Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165) - - - - THEVO - - 273116 - THEVO - Thermoplasma volcanium (strain ATCC 51530 / DSM 4299 / IFO 15438 / JCM 9571 / GSS1) - - - - - PICTO - - 263820 - PICTO - Picrophilus torridus (strain ATCC 700027 / DSM 9790 / JCM 10055 / NBRC 100828) - - - - - - a_93 - - - 183924 - Thermoprotei - class - - - a_83 - - a_81 - - a_73 - - 2267 - Thermoproteaceae - family - - - a_71 - - a_67 - - 2276 - Pyrobaculum - genus - - - 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) - - - - - - - 397948 - CALMQ - Caldivirga maquilingensis (strain ATCC 700844 / DSMZ 13496 / JCM 10307 / IC-167) - - - - - a_80 - - 118883 - Sulfolobaceae - family - - - a_78 - - 2284 - Sulfolobus - genus - - - a_76 - - SULAC - - 2285 - SULAC - Sulfolobus acidocaldarius - species - - - - SULTO - - 273063 - SULTO - Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) - - - - - 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) - - - - - - - 374847 - KORCO - Korarchaeum cryptofilum (strain OPF8) - - - - - - - - 2 - Bacteria - superkingdom - - - b_278 - - b_268 - - b_226 - - b_200 - - b_194 - - b_104 - - b_80 - - - 1224 - Proteobacteria - phylum - - - b_52 - - b_44 - - b_30 - - b_24 - - 1236 - Gammaproteobacteria - class - - - b_16 - - b_10 - - 543 - Enterobacteriaceae - family - - - b_8 - - b_6 - - b_4 - - b_2 - - 561 - Escherichia - genus - - - 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 - - 641 - Vibrionaceae - family - - - 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 - - 286 - Pseudomonas - genus - - - 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 - - 28216 - Betaproteobacteria - class - - - DECAR - - 159087 - DECAR - Dechloromonas aromatica (strain RCB) - - - - RALME - - 266264 - RALME - Ralstonia metallidurans (strain CH34 / ATCC 43123 / DSM 2839) - - - - - - b_43 - - b_41 - - b_35 - - 28216 - Betaproteobacteria - class - - - b_33 - - 206379 - Nitrosomonadaceae - family - - - NITEU - - 915 - NITEU - Nitrosomonas europaea - species - - - - NITMU - - 323848 - NITMU - Nitrosospira multiformis (strain ATCC 25196 / NCIMB 11849) - - - - - THIDE - - 36861 - THIDE - Thiobacillus denitrificans - species - - - - - b_40 - - 135613 - Chromatiales - order - - - b_38 - - 72276 - Ectothiorhodospiraceae - purple sulfur bacteria - family - - - 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 - - 1236 - Gammaproteobacteria - class - - - b_47 - - IDILO - - 135577 - IDILO - Idiomarina loihiensis - species - - - - LEGPN - - 446 - LEGPN - Legionella pneumophila - species - - - - - b_50 - - 32033 - Xanthomonadaceae - family - - - XANAC - - 92829 - XANAC - Xanthomonas axonopodis pv. citri - Citrus canker - - - - XYLFT - - 183190 - XYLFT - Xylella fastidiosa (strain Temecula1 / ATCC 700964) - - - - - - - b_71 - - 28211 - Alphaproteobacteria - class - - - b_67 - - b_65 - - b_61 - - 356 - Rhizobiales - order - - - b_57 - - 227290 - Rhizobium/Agrobacterium group - - - AGRT5 - - 176299 - AGRT5 - Agrobacterium tumefaciens (strain C58 / ATCC 33970) - - - - RHIEC - - 347834 - RHIEC - Rhizobium etli (strain CFN 42 / ATCC 51251) - - - - - b_60 - - 41294 - Bradyrhizobiaceae - family - - - BRAJA - - 375 - BRAJA - Bradyrhizobium japonicum - species - - - - RHOPT - - 395960 - RHOPT - Rhodopseudomonas palustris (strain TIE-1) - - - - - - b_64 - - 31989 - Rhodobacteraceae - family - - - RHOS1 - - 349101 - RHOS1 - Rhodobacter sphaeroides (strain ATCC 17029 / ATH 2.4.9) - - - - ROSDO - - 375451 - ROSDO - Roseobacter denitrificans (strain ATCC 33942 / OCh 114) - Erythrobacter sp. (strain OCh 114) - Roseobacter denitrificans - - - - - - CAUCR - - 155892 - CAUCR - Caulobacter crescentus - Caulobacter vibrioides - species - - - - - b_70 - - 204441 - Rhodospirillales - order - - - ACICY - - 524 - ACICY - Acidiphilium cryptum - species - - - - RHORU - - 1085 - RHORU - Rhodospirillum rubrum - species - - - - - - - b_79 - - b_77 - - 1224 - Proteobacteria - phylum - - - b_75 - - 712 - Pasteurellaceae - family - - - HAEIN - - 727 - HAEIN - Haemophilus influenzae - species - - - - PASMU - - 747 - PASMU - Pasteurella multocida - species - - - - - NEIME - - 487 - NEIME - Neisseria meningitidis - species - - - - - ACIFE - - 905 - ACIFE - Acidaminococcus fermentans - species - - - - - - b_103 - - b_91 - - 28221 - Deltaproteobacteria - class - - - b_87 - - b_83 - - DESPS - - 84980 - DESPS - Desulfotalea psychrophila - species - - - - DESDE - - 876 - DESDE - Desulfovibrio desulfuricans - species - - - - - SYNAS - - 56780 - SYNAS - Syntrophus aciditrophicus (strain SB) - - - - - b_90 - - 28231 - Geobacter - genus - - - GEOME - - 28232 - GEOME - Geobacter metallireducens - species - - - - GEOSL - - 35554 - GEOSL - Geobacter sulfurreducens - species - - - - - - b_102 - - b_98 - - b_94 - - 31 - Myxococcaceae - family - - - ANADE - - 290397 - ANADE - Anaeromyxobacter dehalogenans (strain 2CP-C) - - - - MYXXA - - 34 - MYXXA - Myxococcus xanthus - species - - - - - b_97 - - 57723 - Acidobacteria - phylum - - - ACIBL - - 204669 - ACIBL - Acidobacteria bacterium (strain Ellin345) - - - - SOLUS - - 332163 - SOLUS - Solibacter usitatus - species - - - - - - RHOBA - - 265606 - RHOBA - Rhodopirellula baltica - species - - - - - - - b_193 - - b_163 - - b_133 - - Chloroflexi & Actinobacteria - - - 200795 - Chloroflexi - GNS bacteria - Thermomicrobia - phylum - - - - 32061 - Chloroflexi (class) - Chloroflecales - Chloroflexus/Deinococcus group - class - - - b_122 - - 1106 - Chloroflexaceae - filamentous anoxygenic phototrophic bacteria - family - - - CHLAU - - 1108 - CHLAU - Chloroflexus aurantiacus - species - - - - - 383372 - ROSCS - Roseiflexus castenholzii (strain DSM 13941 / HLO8) - species - - - - - HERAU - - 65 - HERAU - Herpetosiphon aurantiacus - Herpetosiphon giganteus - species - - - - - - 479434 - SPHTD - Sphaerobacter thermophilus (strain DSM 20745 / S 6022) - strain - - - - - - 201174 - Actinobacteria - phylum - - - - 2037 - Actinomycetales - order - - - b_115 - - KINRD - - 266940 - KINRD - Kineococcus radiotolerans (strain ATCC BAA-149 / DSM 14245 / SRS30216) - - - - KOCRD - - 378753 - KOCRD - Kocuria rhizophila (strain ATCC 9341 / DSM 348 / NBRC 103217 / DC2201) - - - - STRCO - - 1902 - STRCO - Streptomyces coelicolor - species - - - - THEFY - - 269800 - THEFY - Thermobifida fusca (strain YX) - - - - - 1032480 - MICPN - Microlunatus phosphovorus (strain ATCC 700054 / DSM 10555 / JCM 9379 / NBRC 101784 / NCIMB 13414 / VKM Ac-1990 / NM-1) - Microlunatus phosphovorus NM-1 - strain - - - - - - 85007 - Corynebacterineae - suborder - - - - 1763 - Mycobacterium - genus - - - MYCLE - - 1769 - MYCLE - Mycobacterium leprae - species - - - - MYCTU - - 1773 - MYCTU - Mycobacterium tuberculosis - species - - - - - CORJK - - 306537 - CORJK - Corynebacterium jeikeium (strain K411) - - - - - 632772 - RHOOB - Rhodococcus opacus (strain B4) - strain - - - - - - RUBXD - - 266117 - RUBXD - Rubrobacter xylanophilus (strain DSM 9941 / NBRC 16129) - - - - - - b_132 - - 188787 - Deinococci - class - - - b_130 - - 1298 - Deinococcus - genus - - - DEIGD - - 319795 - DEIGD - Deinococcus geothermalis (strain DSM 11300) - - - - DEIRA - - 1299 - DEIRA - Deinococcus radiodurans - species - - - - - THETH - - 274 - THETH - Thermus thermophilus - species - - - - - - b_162 - - 1117 - Cyanobacteria - phylum - - - b_154 - - b_152 - - b_146 - - b_144 - - b_142 - - b_138 - - 1162 - Nostocaceae - family - - - b_136 - - ANAVA - - 1172 - ANAVA - Anabaena variabilis - species - - - - NOSS7 - - 28072 - NOSS7 - Nostoc sp. (strain PCC 7524) - species - - - - - NOSP7 - - 63737 - NOSP7 - Nostoc punctiforme (strain ATCC 29133 / PCC 73102) - - - - - ACAMR - - 155978 - ACAMR - Acaryochloris marina - species - - - - - MICAN - - 449447 - MICAN - Microcystis aeruginosa (strain NIES-843) - - - - - TRIER - - 1206 - TRIER - Trichodesmium erythraeum - species - - - - - b_149 - - 1118 - Chroococcales - order - - - SYNEL - - 32046 - SYNEL - Synechococcus elongatus - species - - - - SYNY3 - - 1148 - SYNY3 - Synechocystis sp. (strain PCC 6803) - species - - - - - - GLOVI - - 33072 - GLOVI - Gloeobacter violaceus - species - - - - - b_161 - - b_159 - - 1218 - Prochlorococcus - genus - - - 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 - - 191412 - Chlorobiaceae - family - - - b_170 - - b_166 - - CHLPB - - 331678 - CHLPB - Chlorobium phaeobacteroides (strain BS1) - - - - PROAE - - 1102 - PROAE - Prosthecochloris aestuarii - species - - - - - b_169 - - 274493 - Chlorobium/Pelodictyon group - - - PELLU - - 1100 - PELLU - Pelodictyon luteolum - species - - - - PROVI - - 290318 - PROVI - Prosthecochloris vibrioformis (strain DSM 265) - Chlorobium vibrioforme subsp. thiosulfatophilum (strain DSM 265) - Chlorobium phaeovibrioides (strain DSM 265) - - - - - - b_175 - - b_173 - - 256319 - Chlorobaculum - genus - - - CHLP8 - - 517417 - CHLP8 - Chlorobaculum parvum (strain NCIB 8327) - Chlorobium vibrioforme subsp. thiosulfatophilum (strain DSM 263 / NCIB 8327) - - - - CHLTE - - 1097 - CHLTE - Chlorobium tepidum - species - - - - - CHLCH - - 340177 - CHLCH - Chlorobium chlorochromatii (strain CaD3) - - - - - - CHLTA - - 315277 - CHLTA - Chlamydia trachomatis serovar A (strain HAR-13 / ATCC VR-571B) - - - - - b_189 - - 976 - Bacteroidetes - phylum - - - b_183 - - b_181 - - 49546 - Flavobacteriaceae - family - - - 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 - - 171549 - Bacteroidales - order - - - b_186 - - 816 - Bacteroides - genus - - - 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 - - Verrucomicrobia - - - AKKM8 - - 349741 - AKKM8 - Akkermansia muciniphila (strain ATCC BAA-835) - - - - METI4 - - 481448 - METI4 - Methylacidiphilum infernorum (isolate V4) - Methylokorus infernorum (strain V4) - - - - - LEPIC - - 44275 - LEPIC - Leptospira interrogans serogroup Icterohaemorrhagiae serovar copenhageni - - - - - - b_225 - - b_219 - - 1239 - Firmicutes - phylum - - - b_213 - - - 1385 - Bacillales - order - - - - 186817 - Bacillaceae - family - - - - 1386 - Bacillus - genus - - - - 86661 - Bacillus cereus group - - - BACAN - - 1392 - BACAN - Bacillus anthracis - species - - - - - 572264 - BACC3 - Bacillus cereus (strain 03BB102) - strain - - - - - - 1423 - BACSU - Bacillus subtilis - species - - - - - b_206 - - BACHD - - 86665 - BACHD - Bacillus halodurans - species - - - - GEOKA - - 1462 - GEOKA - Geobacillus kaustophilus - 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 - - 186814 - Thermoanaerobacteriaceae - family - - - 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 - - 188709 - Thermotogaceae - family - - - b_222 - - FERNB - - 381764 - FERNB - Fervidobacterium nodosum (strain ATCC 35602 / DSM 5306 / Rt17-B1) - - - - THELT - - 416591 - THELT - Thermotoga lettingae (strain ATCC BAA-301 / DSM 14385 / TMO) - - - - - THEMA - - 2336 - THEMA - Thermotoga maritima - species - - - - - - - b_267 - - b_263 - - b_251 - - b_249 - - b_245 - - b_237 - - b_233 - - 31969 - Mollicutes - class - - - b_231 - - b_229 - - Mycoplasma - - - MYCGE - - 2097 - MYCGE - Mycoplasma genitalium - species - - - - MYCPN - - 2104 - MYCPN - Mycoplasma pneumoniae - species - - - - - MESFL - - 2151 - MESFL - Mesoplasma florum - Acholeplasma florum - species - - - - - UREPA - - 134821 - UREPA - Ureaplasma parvum - Ureaplasma urealyticum biotype 1 - species - - - - - b_236 - - 137 - Spirochaetaceae - family - - - BORBU - - 139 - BORBU - Borrelia burgdorferi - Lyme disease spirochete - species - - - - TREPA - - 160 - TREPA - Treponema pallidum - species - - - - - - b_244 - - b_242 - - 1113537 - Chlamydia/Chlamydophila group - - - 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 - - - - - - - 28211 - Alphaproteobacteria - class - - - - 38323 - BARHE - Bartonella henselae - Rochalimaea henselae - species - - - - - 198252 - PELUB - Pelagibacter ubique - species - - - - - 780 - Rickettsia - genus - - - - 452659 - RICRO - Rickettsia rickettsii (strain Iowa) - strain - - - - - 391896 - RICB8 - Rickettsia bellii (strain OSU 85-389) - - - - - - - FRATU - - 263 - FRATU - Francisella tularensis - species - - - - - b_262 - - b_260 - - b_258 - - 186826 - Lactobacillales - order - - - b_256 - - 1300 - Streptococcaceae - family - - - b_254 - - 1301 - Streptococcus - genus - - - 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 - - 61434 - Dehalococcoides - genus - - - DEHE1 - - 243164 - DEHE1 - Dehalococcoides ethenogenes (strain 195) - - - - DEHSB - - 216389 - DEHSB - Dehalococcoides sp. (strain BAV1) - species - - - - - - - b_277 - - 29547 - Epsilonproteobacteria - class - - - b_273 - - NITSB - - 387092 - NITSB - Nitratiruptor sp. (strain SB155-2) - species - - - - SULNB - - 387093 - SULNB - Sulfurovum sp. (strain NBC37-1) - species - - - - - b_276 - - 213849 - Campylobacterales - order - - - CAMJE - - 197 - CAMJE - Campylobacter jejuni - species - - - - HELPH - - 357544 - HELPH - Helicobacter pylori (strain HPAG1) - - - - - - - AQUAE - - 63363 - AQUAE - Aquifex aeolicus - species - - - - - - \ No newline at end of file