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Galaxy Australia FGENESH++ Access Request

FGENESH++ is a bioinformatics pipeline for automatic prediction of genes in eukaryotic genomes. It can produce fully automated genome annotations of a quality similar to manual annotation, and is extremely fast compared to some other automated genome annotation pipelines.

FGENESH++ is available on Galaxy Australia for Australian researchers. Please apply for access, using your institutional email. The following sign up form is to confirm eligibility for access to the Australian FGENESH++ Service on Galaxy Australia.

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Locate a matrix for your analysis

An annotation matrix for your species (or a related species) must be selected when you run this tool. This will be used as a reference to annotate your genome.

info	A matrix with close taxonomic proximity to your subject species will provide higher quality gene predictions. Please use the explorer below to ensure that a suitable matrix exists for your analysis. Take a note of the matrix you intend to use for when you run this tool in Galaxy.

Fungi
- Ascomycota
  - Eurotiomycetes
    - Chaetothyriales
      - Cyphellophoraceae
        
        Cyphellophora
        
        Cyphellophora europaea - Cyphellophora europaea
      - Herpotrichiellaceae
        
        Coniosporium
        
        Coniosporium apollinis - rock-inhabiting microcolonial fungi
        
        Fonsecaea
        
        Fonsecaea pedrosoi - major causative agent of chromoblastomycosis
        
        Rhinocladiella
        
        Rhinocladiella mackenziei - Ramichloridium mackenziei, cause of cerebral phaeohyphomycosis
        
        Capronia - Capronia coronata+epimyces+semiimmersa
        Cladophialophora - Cladophialophora bantiana+carrionii+immunda+psammophila+yegresii
        Exophiala - Exophiala_aquamarina+dermatitidis+mesophila+oligosperma+sideris+spinifera+xenobiotica
    - Eurotiales
      - Aspergillaceae
        
        Aspergillus
        
        Aspergillus fischeri - Aspergillus fischeri
        
        Byssochlamys
        
        Byssochlamys spectabilis - anamorph Paecilomyces variotii
        
        Penicillium
        
        Penicillium chrysogenum - fungus, Penicillium notatum
        
        Rasamsonia
        
        Rasamsonia emersonii - Talaromyces emersonii, Penicillium emersonii
        
        Emericella - Aspergillus; filamentous fungi
        Talaromyces - generic, Talaromyces marneffei+stipitatus
    - Onygenales
      - Ajellomycetaceae
        
        Histoplasma
        
        Histoplasma capsulatum - cause the histoplasmosis
        Histoplasma - generic, dimorphic fungi
        
        Ajellomyces - generic, Ajellomyces capsulatus+dermatitidis
        Paracoccidioides - generic, Paracoccidioides_brasiliensis+lutzii
      - Arthrodermataceae
        
        Microsporum
        
        Microsporum gypseum - soil-associated dermatophyte, Arthroderma gypseum
        
        Arthroderma - generic, causal agent of dermatophytosis
      - Onygenaceae
        
        Coccidioides
        
        Coccidioides immitis - pathogenic fungus
        
        Uncinocarpus
        
        Uncinocarpus reesii - non-pathogenic fungus
        
        Blastomyces - generic, causal agent of blastomycosis
        Emmonsia - generic, Emmonsia crescens+parva
    - Phaeomoniellales
      - Phaeomoniellaceae
        
        Phaeomoniella
        
        Phaeomoniella chlamydospora - Phaeoacremonium chlamydosporum
  - Leotiomycetes
    - Erysiphales
      - Amorphothecaceae
        
        Amorphotheca
        
        Amorphotheca resinae - creosote fungus
        
        Oidiodendron
        
        Oidiodendron majus - ascomycetes
      - Erysiphaceae
        
        Blumeria
        
        Blumeria graminis - grass mildew
        
        Erysiphe
        
        Erysiphe necator - grape powdery mildew
    - Helotiales
      - Drepanopezizaceae
        
        Drepanopeziza
        
        Drepanopeziza brunnea - plant pathogen
      - Gelatinodiscaceae
        
        Ascocoryne
        
        Ascocoryne sarcoides - jelly drops, purple jellydisc
      - Helotiaceae
        
        Glarea
        
        Glarea lozoyensis - ascomycetes
        
        Lanzia
        
        Lanzia echinophila - Sclerotinia echinophila
        
        Hymenoscyphus
        
        Hymenoscyphus herbarum - Hymenoscyphus herbarum
        Hymenoscyphus - generic, Hymenoscyphus fraxineus+ fructigenus+ infarciens+ laetus+ repandus+ salicellus+ scutula+ varicosporoides
      - Rutstroemiaceae
        
        Rutstroemia
        
        Rutstroemia sydowiana - Rutstroemia sydowiana
      - Sclerotiniaceae
        
        Botryotinia
        
        Botryotinia fuckeliana - plant pathogen, Botrytis cinerea
        
        Ciborinia
        
        Ciborinia camelliae - causal agent of Camellia flower blight
        
        Sclerotinia
        
        Sclerotinia sclerotiorum - plant pathogen
        Sclerotinia - generic, Sclerotinia borealis+sclerotiorum
        
        Botrytis - generic, plant pathogen
    - Thelebolales
      - Thelebolaceae
        
        Pseudogymnoascus
        
        Pseudogymnoascus destructans - Pseudogymnoascus destructans, a psychrophilic fungus that causes white-nose syndrome (WNS
        Pseudogymnoascus - generic, Pseudogymnoascus destructans+pannorum
  - Orbiliomycetes
    - Orbiliales
      - Orbiliaceae
        
        Arthrobotrys
        
        Arthrobotrys oligosporus - mitosporic predatory fungi
  - Pezizomycetes
    - Pezizales
      - Pyronemataceae
        
        Pyronema
        
        Pyronema omphalodes - Pyronema confluens
  - Pneumocystomycetes
    - Pneumocystales
      - Pneumocystaceae
        
        Pneumocystis - generic, Pneumocystis carinii+ jirovecii+ murina
  - Saccharomycetes
    - Saccharomycetales
      - Debaryomycetaceae
        
        Candida
        
        Candida albicans - diploid yeast, human pathogen
        Candida glabrata - haploid yeast, human pathogen
        
        Millerozyma
        
        Millerozyma farinosa - yeast
        
        Scheffersomyces
        
        Scheffersomyces stipitis - yeast, Pichia stipitis
      - Dipodascaceae
        
        Dipodascus
        
        Dipodascus geotrichum - Oospora lactis, teleomorph: Geotrichum candidum
        
        Yarrowia
        
        Yarrowia lipolytica - yeast
      - Eremotheciaceae
        
        Eremothecium - generic, Eremothecium coryli+ cymbalariae+ gossypii
      - Metschnikowiaceae
        
        Clavispora
        
        Clavispora lusitaniae - yeast
        
        Metschnikowia
        
        Metschnikowia fructicola - ascosporic yeast, 137 sequences
      - Phaffomycetaceae
        
        Cyberlindnera - generic, Cyberlindnera fabianii+ jadinii
      - Pichiaceae
        
        Dekkera
        
        Dekkera bruxellensis - yeast
        Dekkera bruxellensis - Brettanomyces bruxellensis
        
        Issatchenkia
        
        Issatchenkia orientalis - Candida krusei, Issatchenkia orientalis, Candida acidothermophilum
        
        Komagataella
        
        Komagataella pastoris - methylotrophic yeast, Pichia pastoris
      - Saccharomycetaceae
        
        Kluyveromyces
        
        Kluyveromyces lactis - yeast
        
        Saccharomyces
        
        Saccharomyces cerevisiae - baker's yeast
        
        Zygosaccharomyces
        
        Zygosaccharomyces rouxii - osmoresistant yeast
        
        Kazachstania - yeast, generic
        Lachancea - generic
        Nakaseomyces - generic, Nakaseomyces bacillisporus+ delphensis
        Naumovozyma - generic, Naumovozyma_castellii+dairenensis
        Ogataea - generic, Ogataea parapolymorpha+ polymorpha
        Spathaspora - generic, Spathaspora arborariae+ passalidarum
  - Schizosaccharomycetes
    - Schizosaccharomycetales
      - Schizosaccharomycetaceae
        
        Schizosaccharomyces
        
        Schizosaccharomyces pombe - fission yeast
  - Sordariomycetes
    - Amphisphaeriales
      - Pestalotiopsidaceae
        
        Pestalotiopsis
        
        Pestalotiopsis fici - plant pathogen
    - Diaporthales
      - Cryphonectriaceae
        
        Chrysoporthe - generic, Chrysoporthe austroafricana+cubensis+deuterocubensis
      - Diaporthaceae
        
        Diaporthe
        
        Diaporthe ampelina - Phomopsis viticola, Phomopsis ampelina, Fusicoccum viticolum
    - Glomerellales
      - Glomerellaceae
        
        Colletotrichum - Colletotrichum fioriniae+gloeosporioides+graminicola+higginsianum+orbiculare+sublineola
    - Hypocreales
      - Bionectriaceae
        
        Acremonium
        
        Acremonium chrysogenum - Cephalosporium acremonium
      - Clavicipitaceae
        
        Claviceps
        
        Claviceps purpurea - ergot fungus
        
        Epichloe
        
        Epichloe typhina - plant pathogen
        
        Hypocrella
        
        Hypocrella siamensis - anamorph: Aschersonia badia
        
        Periglandula
        
        Periglandula ipomoeae
        
        Metacordyceps - generic, Metacordyceps brittlebankisoides+ chlamydosporia+ taii
        Metarhizium - generic
      - Cordycipitaceae
        
        Cordyceps
        
        Cordyceps farinosa - Paecilomyces farinosus
        Cordyceps militaris - entomopathogenic fungi
        
        Beauveria - generic, asexually-reproducing fungi
      - Hypocreaceae
        
        Escovopsis
        
        Escovopsis weberi - parasitic microfungus
        
        Hypocrea - generic, Hypocrea jecorina+ lixii+ pseudokoningii+ virens
      - Nectriaceae
        
        Dactylonectria
        
        Dactylonectria macrodidyma - plant pathogen
        
        Fusarium
        
        Fusarium graminearum - generic, haploid homothallic ascomycete
        Fusarium - generic, Fusarium graminearum+ fujikuroi+ oxysporum+ solani+ verticillioides
        
        Gibberella - generic, Gibberella circinata+fujikuroi
      - Ophiocordycipitaceae
        
        Hirsutella
        
        Hirsutella minnesotensis - pathogen of the soybean cyst nematode
        
        Ophiocordyceps
        
        Ophiocordyceps sinensis - Cordyceps sinensis
      - Stachybotryaceae
        
        Stachybotrys - generic, Stachybotrys chartarum+chlorohalonata
    - Magnaporthales
      - Magnaporthaceae
        
        Gaeumannomyces
        
        Gaeumannomyces graminis - plant pathogen
        
        Harpophora - Falciphora oryzae
        Magnaporthe - generic, fungi
    - Microascales
      - Ceratocystidaceae
        
        Ceratocystis
        
        Ceratocystis platani - plant pathogen
        
        Huntiella - generic, Huntiella omanensis+ savannae
      - Microascaceae
        
        Pseudallescheria
        
        Pseudallescheria apiosperma - Scedosporium apiospermum
        Pseudallescheria boydii - Pseudallescheria apiosperma, causes of resistant life-threatening infections in immunocompromised patients
    - Ophiostomatales
      - Ophiostomataceae
        
        Graphilbum
        
        Graphilbum fragrans - Pesotum fragrans
        
        Grosmannia
        
        Grosmannia clavigera - blue stain fungus
        
        Pesotum
        
        Pesotum piceae - pine saprophyte
        
        Knoxdaviesia - generic, Knoxdaviesia capensis+proteae
        Leptographium - generic, Leptographium lundbergii+ procerum
        Sporothrix - generic, Sporothrix brasiliensis+schenckii
    - Xylariales
      - Diatrypaceae
        
        Eutypa
        
        Eutypa lata - causal agent of Eutypa dieback
    - Sordariales
      - Chaetomiaceae
        
        Thermothelomyces
        
        Thermothelomyces thermophilus - Sporotrichum thermophilum, Chrysosporium thermophilum
        
        Chaetomium - Chaetomium_globosum+thermophilum
      - Lasiosphaeriaceae
        
        Triangularia
        
        Triangularia anserina
      - Sordariaceae
        
        Neurospora
        
        Neurospora crassa - red bread mold
        
        Sordaria
        
        Sordaria macrospora - microscopic fungus
      - Sordariales - Streptotrix mycetomatis
  - Taphrinomycetes
    - Taphrinales
      - Taphrinaceae
        
        Taphrina - generic, Taphrina deformans+ flavorubra+ populina+ wiesneri
  - Dothideomycetes
    - Botryosphaeriales
      - Botryosphaeriaceae
        
        Diplodia
        
        Diplodia seriata - cause of bot canker of grapevine
        
        Macrophomina
        
        Macrophomina phaseolina - plant pathogen
        
        Neofusicoccum
        
        Neofusicoccum parvum - Fusicoccum parvum
      - Phyllostictaceae
        
        Phyllosticta
        
        Phyllosticta citricarpa - Phyllosticta citricarpa, causes Citrus Black Spot
    - Capnodiales
      - Cladosporiaceae
        
        Cladosporium
        
        Cladosporium sphaerospermum - mold
      - Mycosphaerellaceae
        
        Cercospora
        
        Cercospora canescens - causes olive leaf spot
        
        Fulvia
        
        Fulvia fulva - Cladosporium fulvum, Fulvia fulva
        
        Pseudocercospora
        
        Pseudocercospora fijiensis - black leaf streak, Mycosphaerella fijiensis , Cercospora fijiensis, Paracercospora fijiensis
        
        Ramularia
        
        Ramularia collo-cygni - pathogen of barley
        
        Sphaerulina
        
        Sphaerulina musiva - pathogen of poplar trees
        
        Zymoseptoria
        
        Zymoseptoria passerinii - Zymoseptoria passerinii, plant pathogen infecting barley
        
        Mycosphaerella - generic, Mycosphaerella arachidis+ dearnessii+ fijiensis+ graminicola+ laricina+ pini+ populicola+populorum
      - Teratosphaeriaceae
        
        Baudoinia
        
        Baudoinia compniacensis - Angels' Share fungus
        
        Hortaea
        
        Hortaea werneckii - 268 genes, halotolerant black yeast
    - Dothideales
      - Saccotheciaceae
        
        Aureobasidium - generic, black, yeast-like fungus
    - Hysteriales
      - Hysteriaceae
        
        Hysterium
        
        Hysterium pulicare - occurs on living tree bark or dead wood
    - Patellariales
      - Patellariaceae
        
        Rhytidhysteron
        
        Rhytidhysteron rufulum - Rhytidhysterium rufulum, fungal plant pathogen infecting citruses
    - Venturiales
      - Sympoventuriaceae
        
        Scolecobasidium
        
        Scolecobasidium constrictum - Dactylaria gallopava
    - Pleosporales
      - Biatriosporaceae
        
        Nigrograna
        
        Nigrograna mackinnonii - ascomycetes
      - Corynesporascaceae
        
        Corynespora
        
        Corynespora cassiicola - plant pathogen
      - Cucurbitariaceae
        
        Pyrenochaeta - cause a eumycetoma
      - Didymellaceae
        
        Peyronellaea
        
        Peyronellaea obtusa - plant pathogen that causes Frogeye leaf spot, Black rot and cankers
        
        Stagonosporopsis
        
        Stagonosporopsis tanaceti - cause of ray blight of pyrethrum
      - Leptosphaeriaceae
        
        Leptosphaeria
        
        Leptosphaeria maculans - blackleg of rapeseed fungus
        Leptosphaeria - generic, fungi
      - Massarinaceae
        
        Helminthosporium
        
        Helminthosporium solani - infecting potato tubers
      - Phaeosphaeriaceae
        
        Parastagonospora
        
        Parastagonospora nodorum - pathogen of wheat
        
        Phaeosphaeria
        
        Phaeosphaeria nodorum - Leptosphaeria nodorum
      - Pleosporaceae
        
        Alternaria
        
        Alternaria brassicicola - plant pathogen
        
        Exserohilum
        
        Exserohilum turcicum - northern corn leaf blight
        
        Stemphylium
        
        Stemphylium lycopersici - pathogen of tomatoes, Capsicum and papayas
        
        Bipolaris - generic
        Cochliobolus - generic, Cochliobolus carbonum+heterostrophus+ miyabeanus+ sativus+ victoriae
        Curvularia - generic, Curvularia lunata+ papendorfii
        Pyrenophora - generic, plant pathogen
      - Shiraiaceae
        
        Shiraia - a parasitic fungus on twigs of several genera of bamboos
      - Sporormiaceae
        
        Preussia - generic
      - Pleosporales - generic
    - Dothideomycetes - ascomycetes
- Basidiomycota
  - Agaricomycetes
    - Agaricales
      - Agaricaceae
        
        Agaricus - generic, champignons
        Coprinus - generic
      - Amanitaceae
        
        Amanita
        
        Amanita muscaria - fly agaric, fly amanita
      - Fistulinaceae
        
        Fistulina
        
        Fistulina hepatica - beefsteak polypore or ox tongue
      - Hydnangiaceae
        
        Laccaria - generic
      - Hymenogastraceae
        
        Galerina
        
        Galerina marginata - poisonous fungus
        
        Hebeloma
        
        Hebeloma cylindrosporum - mushroom-forming fungus
      - Marasmiaceae
        
        Moniliophthora - generic, Moniliophthora perniciosa+roreri
      - Omphalotaceae
        
        Gymnopus
        
        Gymnopus luxurians - fungus
      - Physalacriaceae
        
        Cylindrobasidium
        
        Cylindrobasidium torrendii - corticioid fungi
      - Pleurotaceae
        
        Pleurotus
        
        Pleurotus ostreatus - oyster mushroom
      - Psathyrellaceae
        
        Coprinopsis
        
        Coprinopsis cinerea - Coprinus macrorhizus
      - Schizophyllaceae
        
        Schizophyllum
        
        Schizophyllum commune - common in rotting wood, but can also cause disease in humans
      - Strophariaceae
        
        Hypholoma
        
        Hypholoma lateritium - brick cap
    - Amylocorticiales
      - Amylocorticiaceae
        
        Plicaturopsis
        
        Plicaturopsis crispa
    - Atheliales
      - Atheliaceae
        
        Piloderma
        
        Piloderma bicolor - Piloderma fallax
    - Boletales
      - Coniophoraceae
        
        Coniophora
        
        Coniophora puteana - cellar fungus, which causes a rot in wood
      - Hygrophoropsidaceae
        
        Leucogyrophana
        
        Leucogyrophana pinastri - spiny dry rot fungus
      - Sclerodermataceae
        
        Scleroderma
        
        Scleroderma citrinum - common earthball, pigskin poison puffball
        
        Pisolithus - generic, Pisolithus_microcarpus+tinctorius
      - Serpulaceae
        
        Serpula
        
        Serpula lacrymans - dry rot fungus
      - Suillaceae
        
        Suillus
        
        Suillus luteus - slippery jack, sticky bun
    - Cantharellales
      - Botryobasidiaceae
        
        Botryobasidium
        
        Botryobasidium vagum - botryosum
      - Ceratobasidiaceae
        
        Rhizoctonia
        
        Rhizoctonia solani - Rhizoctonia praticola, plant pathogen
    - Corticiales
      - Corticiaceae
        
        Punctularia
        
        Punctularia strigosozonata
    - Geastrales
      - Geastraceae
        
        Sphaerobolus
        
        Sphaerobolus stellatus - cannonball fungi
    - Gloeophyllales
      - Gloeophyllaceae
        
        Gloeophyllum
        
        Gloeophyllum trabeum - plant fungal pathogen
    - Hymenochaetales
      - Hymenochaetaceae
        
        Fomitiporia
        
        Fomitiporia mediterranea - plant pathogen
        
        Pyrrhoderma
        
        Pyrrhoderma noxium - plant pathogen, Phellinidium noxium
        
        Sanghuangporus
        
        Sanghuangporus baumii - Phellinus baumii, Inonotus baumii
      - Schizoporaceae
        
        Schizopora
        
        Schizopora paradoxa - Hyphodontia paradoxa
    - Jaapiales
      - Jaapiaceae
        
        Jaapia
        
        Jaapia argillacea - fungus
    - Polyporales
      - Fomitopsidaceae
        
        Fomitopsis
        
        Fomitopsis pinicola - pine bolete, pinewood king bolete
        
        Taiwanofungus
        
        Taiwanofungus camphoratus - stout camphor fungus
      - Phanerochaetaceae
        
        Phanerochaete
        
        Phanerochaete carnosa - plant pathogen infecting plane trees
        
        Phanerodontia
        
        Phanerodontia chrysosporium - New version USTILAGO+WREST
        
        Phlebiopsis
        
        Phlebiopsis gigantea - Thelephora gigantea, Peniophora gigantea
        
        Ceriporiopsis
        
        Ceriporiopsis subvermispora - Poria subvermispora
        Ceriporiopsis - basidiomycetes
      - Polyporaceae
        
        Fibroporia
        
        Fibroporia radiculosa - Antrodia radiculosa
        
        Rhodonia
        
        Rhodonia placenta - Rhodonia placenta, brown rot fungus
    - Russulales
      - Bondarzewiaceae
        
        Heterobasidion
        
        Heterobasidion irregulare - tree root rotting pathogenic fungus
      - Stereaceae
        
        Stereum
        
        Stereum hirsutum - False Turkey Tail
    - Auriculariales
      - Auriculariaceae
        
        Auricularia
        
        Auricularia subglabra - basidiomycetes
      - Auriculariales - Serendipita indica, Achlamydospora indica
      - Auriculariales - Sebacina vermifera
  - Microbotryomycetes
    - Microbotryales
      - Microbotryaceae
        
        Microbotryum
        
        Microbotryum violaceum - anther smut fungus, Ustilago violacea
    - Sporidiobolales
      - Sporidiobolaceae
        
        Rhodotorula
        
        Rhodotorula glutinis - pink yeast
        Rhodotorula toruloides - oleaginous yeast
      - Sporobolomycetaceae
        
        Sporidiobolus
        
        Sporidiobolus salmonicolor - yeast-like fungus
  - Mixiomycetes
    - Mixiales
      - Mixiaceae
        
        Mixia
        
        Mixia osmundae - Taphrina osmundae
  - Pucciniomycetes
    - Pucciniales
      - Cronartiaceae
        
        Cronartium - generic, Cronartium comandrae+ quercuum+ ribicola 206 genes only
      - Melampsoraceae
        
        Melampsora
        
        Melampsora larici-populina - poplar leaf rust fungus
      - Pucciniaceae
        
        Puccinia - rusts
  - Tremellomycetes
    - Tremellales
      - Cryptococcaceae
        
        Kwoniella - generic, Kwoniella heveanensis+ mangroviensis
      - Tremellaceae
        
        Cryptococcus
        
        Cryptococcus gattii - encapsulated yeast
        Cryptococcus neoformans - encapsulated yeast
        Cryptococcus - generic, encapsulated yeast
  - Ustilaginomycetes
    - Ustilaginales
      - Ustilaginaceae
        
        Pseudozyma - generic, Pseudozyma antarctica+aphidis+brasiliensis+flocculosa+hubeiensis
        Ustilago - smuts
- Blastocladiomycota
  - Blastocladiomycetes
    - Blastocladiales
      - Blastocladiaceae
        
        Allomyces
        
        Allomyces macrogynus - blastocladiomycetes
- Chytridiomycota
  - Chytridiomycetes
    - Spizellomycetales
      - Spizellomycetaceae
        
        Spizellomyces
        
        Spizellomyces punctatus - chytrids
  - Rhizophydiomycetes
    - Rhizophydiales - amphibian chytrid fungus
    - Rhizophydiales - 103 sequences, chytrids
- Glomeromycota
  - Glomeromycetes
    - Glomerales
      - Glomeraceae
        
        Rhizophagus
        
        Rhizophagus irregularis - glomeromycetes, Glomus irregulare
- Zygomycota
  - Mortierellomycetes
    - Mortierellales
      - Mortierellaceae
        
        Mortierella
        
        Mortierella verticillata - soil fungi
  - Mucoromycetes
    - Mucorales
      - Cunninghamellaceae
        
        Absidia
        
        Absidia idahoensis - pathogenic fungus
      - Lichtheimiaceae
        
        Lichtheimia
        
        Lichtheimia corymbifera - Absidia corymbifera, pathogenic fungus
        
        Rhizomucor - generic, Rhizomucor miehei+ variabilis
      - Mucoraceae
        
        Parasitella
        
        Parasitella parasitica - Parasitella simplex
        
        Mucor - generic, Mucor ambiguus+circinelloides
      - Mycotyphaceae
        
        Cokeromyces
        
        Cokeromyces recurvatus - pathogenic fungus
      - Rhizopodaceae
        
        Rhizopus
        
        Rhizopus arrhizus - opportunistic human pathogen
      - Saksenaeaceae
        
        Saksenaea
        
        Saksenaea oblongispora
        
        Apophysomyces - generic, Apophysomyces elegans+trapeziformis
      - Syncephalastraceae
        
        Syncephalastrum - generic, Syncephalastrum monosporum+ racemosum
Animalia
- Arthropoda
  - Arachnida
    - Ixodida
      - Ixodidae
        
        Ixodes
        
        Ixodes scapularis - deer tick
  - Branchiopoda
    - Diplostraca
      - Daphniidae
        
        Daphnia
        
        Daphnia pulex - water flea
  - Chilopoda
    - Geophilomorpha
      - Linotaeniidae
        
        Strigamia
        
        Strigamia maritima - centipede
  - Insecta
    - Coleoptera
      - Passallidae
        
        Paxillus - generic, Paxillus_involutus+rubicundulus
      - Tenebrionidae
        
        Tribolium
        
        Tribolium castaneum - red flour beetle
    - Diptera
      - Culicidae
        
        Aedes
        
        Aedes aegypti - yellow fever mosquito
        
        Anopheles
        
        Anopheles gambiae - malaria mosquito
        
        Culex - generic, culex
      - Drosophilidae
        
        Drosophila
        
        Drosophila melanogaster - generic, fruit fly
      - Tephritidae
        
        Bactrocera
        
        Bactrocera cucurbitae - melon fly
        Bactrocera dorsalis - oriental fruit fly
    - Hemiptera
      - Aphididae
        
        Acyrthosiphon
        
        Acyrthosiphon pisum - pea aphid
        
        Cerataphis
        
        Cerataphis brasiliensis - Palm Aphid
      - Delphacidae
        
        Nilaparvata
        
        Nilaparvata lugens - brown planthopper
    - Hymenoptera
      - Apidae
        
        Bombus
        
        Bombus impatiens - common eastern bumble bee
        Bombus terrestris - buff-tailed bumble bee
        
        Apis
        
        Apis dorsata - giant honey bee
        Apis florea - red dwarf honey bee
        Apis - generic, apis
      - Formicidae
        
        Acromyrmex
        
        Acromyrmex echinatior - Panamanian leaf-cutter ant
        
        Atta
        
        Atta cephalotes - leaf cutting ant
      - Pteromalidae
        
        Nasonia
        
        Nasonia vitripennis - parasitoid wasp
      - Tenthredinidae
        
        Athalia
        
        Athalia rosae - turnip sawfly
    - Lepidoptera
      - Bombycidae
        
        Bombyx
        
        Bombyx mori - silkworm
      - Nymphalidae
        
        Danaus
        
        Danaus plexippus - butterfly
        
        Heliconius
        
        Heliconius melpomene - postman butterfly
    - Psocodea
      - Pediculidae
        
        Pediculus
        
        Pediculus humanus - human louse
- Chordata
  - Actinopterygii
    - Acanthuriformes
      - Sciaenidae
        
        Larimichthys
        
        Larimichthys crocea - large yellow croaker
    - Anguilliformes
      - Anguillidae
        
        Anguilla
        
        Anguilla anguilla - European eel, 109 genes
    - Beloniformes
      - Adrianichthyidae
        
        Oryzias
        
        Oryzias sinensis - Japanese rice fish
    - Characiformes
      - Characidae
        
        Astyanax
        
        Astyanax mexicanus - Mexican tetra or blind cave fish
    - Cichliformes
      - Cichlidae
        
        Amphilophus
        
        Amphilophus citrinellus - Midas cichlid, red devil cichlid
        
        Astatotilapia
        
        Astatotilapia burtoni - Burton's mouthbrooder
        
        Neolamprologus
        
        Neolamprologus brichardi - Lyretail cichlid, Princess of Burundi
        
        Oreochromis
        
        Oreochromis niloticus - African cichlid
    - Clupeiformes
      - Clupeidae
        
        Clupea
        
        Clupea harengus - Atlantic herring
    - Cypriniformes
      - Cyprinidae
        
        Ctenopharyngodon
        
        Ctenopharyngodon idella - grass carp
        
        Cyprinus
        
        Cyprinus carpio - mirror carp, common carp
        
        Danio
        
        Danio rerio - Zebrafish, additional variant
        Danio rerio - Zebrafish, leopard danio
    - Cyprinodontiformes
      - Cyprinodontidae
        
        Cyprinodon - Cyprinodon_nevadensis+variega
      - Fundulidae
        
        Fundulus
        
        Fundulus heteroclitus - Mummichog , killifish
      - Rivulidae
        
        Austrofundulus
        
        Austrofundulus limnaeus - bony fishes
    - Esociformes
      - Esocidae
        
        Esox
        
        Esox lucius - northern pike
    - Gasterosteiformes
      - Gasterosteidae
        
        Gasterosteus
        
        Gasterosteus aculeatus - Three-spined stickleback
    - Gobiiformes
      - Gobiidae
        
        Boleophthalmus
        
        Boleophthalmus pectinirostris - great blue-spotted mudskipper, 122 genes
    - Lepisosteiformes
      - Lepisosteidae
        
        Lepisosteus
        
        Lepisosteus oculatus - spotted gar
    - Perciformes
      - Moronidae
        
        Dicentrarchus
        
        Dicentrarchus labrax - European seabass
      - Nototheniidae
        
        Notothenia
        
        Notothenia coriiceps - yellowbelly rockcod, black rockcod
    - Petromyzontiformes
      - Petromyzontidae
        
        Petromyzon
        
        Petromyzon marinus - Sea lamprey
    - Pleuronectiformes
      - Cynoglossidae
        
        Cynoglossus
        
        Cynoglossus semilaevis - Tonguefish
    - Salmoniformes
      - Salmonidae
        
        Oncorhynchus
        
        Oncorhynchus mykiss - rainbow trout
    - Scorpaeniformes
      - Anoplopomatidae
        
        Anoplopoma
        
        Anoplopoma fimbria - sablefish
      - Cottidae
        
        Cottus
        
        Cottus rhenanus - small benthic Rhine sculpin
    - Tetraodontiformes
      - Tetraodontidae
        
        Dichotomyctere
        
        Dichotomyctere nigroviridis - Spotted green pufferfish
        
        Takifugu
        
        Takifugu rubripes - Torafugu
  - Amphibia
    - Anura
      - Pipidae
        
        Xenopus - generic, frog
  - Aves
    - Accipitriformes
      - Accipitridae
        
        Aquila
        
        Aquila chrysaetos - Golden eagle
        
        Haliaeetus
        
        Haliaeetus leucocephalus - bald eagle
    - Anseriformes
      - Anatidae
        
        Anas
        
        Anas platyrhynchos - Mallard
        
        Anser
        
        Anser cygnoides - Swan goose, Chinese goose
    - Apodiformes
      - Apodidae
        
        Chaetura
        
        Chaetura pelagica - Chimney swift
      - Trochilidae
        
        Calypte
        
        Calypte anna - Anna's hummingbird
    - Apterygiformes
      - Apterygidae
        
        Apteryx
        
        Apteryx australis - Brown kiwi
    - Bucerotiformes
      - Bucerotidae
        
        Buceros
        
        Buceros rhinoceros - Rhinoceros hornbill
    - Caprimulgiformes
      - Caprimulgidae
        
        Antrostomus
        
        Antrostomus carolinensis - Chuck-will's-widow
    - Cariamiformes
      - Cariamidae
        
        Cariama
        
        Cariama cristata - Red-legged seriema
    - Charadriiformes
      - Charadriidae
        
        Charadrius
        
        Charadrius vociferus - Killdeer
      - Scolopacidae
        
        Philomachus
        
        Philomachus pugnax - Ruff, Philomachus pugnax
    - Coliiformes
      - Coliidae
        
        Colius
        
        Colius striatus - Speckled mousebird
    - Columbiformes
      - Columbidae
        
        Columba
        
        Columba livia - Rock pigeon
    - Cuculiformes
      - Cuculidae
        
        Cuculus
        
        Cuculus canorus - Common cuckoo
    - Falconiformes
      - Falconidae
        
        Falco
        
        Falco cherrug - Saker falcon
    - Galliformes
      - Phasianidae
        
        Gallus
        
        Gallus gallus - Aves generic
        
        Meleagris
        
        Meleagris gallopavo - Wild Turkey
    - Otidiformes
      - Otididae
        
        Chlamydotis
        
        Chlamydotis macqueenii - MacQueen's bustard
    - Passeriformes
      - Acanthisittidae
        
        Acanthisitta
        
        Acanthisitta chloris - Rifleman
      - Corvidae
        
        Corvus
        
        Corvus brachyrhynchos - American crow
      - Muscicapidae
        
        Ficedula
        
        Ficedula albicollis - collared flycatcher
      - Pipridae
        
        Manacus
        
        Manacus vitellinus - golden-collared manakin
      - Thraupidae
        
        Geospiza
        
        Geospiza fortis - medium ground finch
    - Pelecaniformes
      - Ardeidae
        
        Egretta
        
        Egretta garzetta - Little egret
    - Sphenisciformes
      - Spheniscidae
        
        Aptenodytes
        
        Aptenodytes forsteri - Emperor penguin
  - Chondrichthyes
    - Chimaeriformes
      - Callorhinchidae
        
        Callorhinchus
        
        Callorhinchus milii - Elephant shark
  - Mammalia
    - Afrosoricida
      - Chrysochloridae
        
        Chrysochloris
        
        Chrysochloris asiatica - Cape golden mole
    - Artiodactyla
      - Bovidae
        
        Bison
        
        Bison bison - American bison
        
        Bos
        
        Bos grunniens - wild yak
        Bos taurus - cattle
        
        Bubalus
        
        Bubalus bubalis - Water buffalo
        
        Capra
        
        Capra hircus - Goat
      - Camelidae
        
        Camelus
        
        Camelus dromedarius - Bactrian camel
        
        Vicugna
        
        Vicugna pacos - alpaca
    - Carnivora
      - Canidae
        
        Canis
        
        Canis lupus - gray wolf
        
        Vulpes
        
        Vulpes vulpes - Fox generic
      - Felidae
        
        Acinonyx
        
        Acinonyx jubatus - Cheetah
        
        Felis
        
        Felis catus - domestic cat
        
        Lynx
        
        Lynx pardinus - Iberian lynx
      - Mustelidae
        
        Mustela
        
        Mustela putorius - European Polecat
      - Phocidae
        
        Leptonychotes
        
        Leptonychotes weddellii - Weddell seal
      - Ursidae
        
        Ailuropoda
        
        Ailuropoda melanoleuca - Giant panda
    - Cetacea
      - Balaenidae
        
        Balaena
        
        Balaena mysticetus - bowhead whale
      - Balaenopteridae
        
        Balaenoptera
        
        Balaenoptera acutorostrata - common minke whale or northern minke whale
      - Lipotidae
        
        Lipotes
        
        Lipotes vexillifer - baiji, Chinese river dolphin
    - Chiroptera
      - Pteropodidae
        
        Pteropus
        
        Pteropus vampyrus - Large flying fox
      - Vespertilionidae
        
        Eptesicus
        
        Eptesicus fuscus - Big brown bat
        
        Myotis
        
        Myotis lucifugus - Little brown bat
    - Cingulata
      - Dasypodidae
        
        Dasypus
        
        Dasypus novemcinctus - Nine-banded armadillo
    - Dasyuromorphia
      - Dasyuridae
        
        Sarcophilus
        
        Sarcophilus harrisii - Tasmanian devil
    - Dermoptera
      - Cynocephalidae
        
        Galeopterus
        
        Galeopterus variegatus - Sunda flying lemur, Malayan flying lemur, Sunda Colugo or Malayan colugo
    - Didelphimorphia
      - Didelphidae
        
        Monodelphis
        
        Monodelphis domestica - gray short-tailed opossum
    - Erinaceomorpha
      - Erinaceidae
        
        Erinaceus
        
        Erinaceus europaeus - hedgehog
    - Hyracoidea
      - Procaviidae
        
        Procavia
        
        Procavia capensis - Rock hyrax
    - Lagomorpha
      - Leporidae
        
        Oryctolagus
        
        Oryctolagus cuniculus - European rabbit
      - Ochotonidae
        
        Ochotona
        
        Ochotona princeps - American pika
    - Macroscelidea
      - Macroscelididae
        
        Elephantulus
        
        Elephantulus edwardii - Cape long-eared elephant shrew
    - Monotremata
      - Ornithorhynchidae
        
        Ornithorhynchus
        
        Ornithorhynchus anatinus - Platypus
    - Perissodactyla
      - Rhinocerotidae
        
        Ceratotherium
        
        Ceratotherium simum - White rhinoceros
    - Pholidota
      - Manidae
        
        Manis
        
        Manis pentadactyla - Chinese pangolin
    - Pilosa
      - Megalonychidae
        
        Choloepus
        
        Choloepus hoffmanni - Hoffmann's two-fingered sloth
    - Primates
      - Aotidae
        
        Aotus
        
        Aotus nancymai - Ma's night monkey, Aotus nancymai
      - Callitrichidae
        
        Callithrix
        
        Callithrix jacchus - White-tufted-ear marmoset
      - Cercopithecidae
        
        Cercocebus
        
        Cercocebus atys - Sooty mangabey
        
        Chlorocebus
        
        Chlorocebus sabaeus - Green monkey
        
        Colobus
        
        Colobus angolensis - Angolan colobus
        
        Macaca
        
        Macaca mulatta - Rhesus monkey
        
        Mandrillus
        
        Mandrillus leucophaeus - drill
      - Galagidae
        
        Otolemur
        
        Otolemur garnettii - Northern greater galago, small-eared galago
      - Hominidae
        
        Gorilla
        
        Gorilla gorilla - Western gorilla
        
        Homo
        
        Homo sapiens - Human
        
        Pan
        
        Pan troglodytes - Common chimpanzee
      - Hylobatidae
        
        Nomascus
        
        Nomascus leucogenys - gibbon
    - Rodentia
      - Bathyergidae
        
        Fukomys
        
        Fukomys damarensis - Damaraland mole-rat, Damara mole rat, Damaraland blesmol
        
        Heterocephalus
        
        Heterocephalus glaber - naked mole-rat, sand puppy, desert mole rat
      - Chinchillidae
        
        Chinchilla
        
        Chinchilla lanigera - Long-tailed chinchilla
      - Cricetidae
        
        Cricetulus
        
        Cricetulus barabensis - Chinese hamster
      - Dipodidae
        
        Jaculus
        
        Jaculus jaculus - lesser Egyptian jerboa
      - Heteromyidae
        
        Dipodomys
        
        Dipodomys ordii - Kangaroo rat
      - Muridae
        
        Apodemus
        
        Apodemus sylvaticus - wood mouse
        
        Mus
        
        Mus musculus - generic, mouse
      - Sciuridae
        
        Ictidomys
        
        Ictidomys tridecemlineatus - thirteen-lined ground squirrel,striped gopher
        
        Marmota
        
        Marmota marmota - alpine marmot
    - Soricomorpha
      - Soricidae
        
        Sorex
        
        Sorex araneus - Common shrew
      - Talpidae
        
        Condylura
        
        Condylura cristata - Star-nosed mole
  - Reptilia
    - Crocodylia
      - Alligatoridae
        
        Alligator
        
        Alligator mississippiensis - American alligator
        Alligator sinensis - Chinese alligator
    - Squamata
      - Dactyloidae
        
        Anolis
        
        Anolis carolinensis - Green anole, Carolina anole
    - Testudines
      - Cheloniidae
        
        Chelonia
        
        Chelonia mydas - Green sea turtle
      - Emydidae
        
        Chrysemys
        
        Chrysemys picta - Painted turtle
  - Leptocardii - lancelet
- Cnidaria
  - Anthozoa
    - Actiniaria
      - Edwardsiidae
        
        Nematostella
        
        Nematostella vectensis - sea anemone
- Ctenophora
  - Tentaculata
    - Lobata
      - Bolinopsidae
        
        Mnemiopsis
        
        Mnemiopsis leidyi - warty comb jelly
- Echinodermata
  - Echinoidea
    - Camarodonta
      - Strongylocentrotidae
        
        Strongylocentrotus
        
        Strongylocentrotus purpuratus - sea urchin
        Strongylocentrotus purpuratus - additional variant; sea urchin
- Mollusca
  - Gastropoda
    - Aplysiida
      - Aplysiidae
        
        Aplysia
        
        Aplysia californica - california sea hare
- Nematoda
  - Chromadorea
    - Rhabditida
      - Diplogastridae
        
        Pristionchus
        
        Pristionchus pacificus - nematode
      - Onchocercidae
        
        Brugia
        
        Brugia malayi - parasitic nematode
      - Rhabditidae
        
        Caenorhabditis
        
        Caenorhabditis brenneri
        Caenorhabditis elegans - C.elegans
  - Enoplea
    - Trichinellida
      - Trichinellidae
        
        Trichinella
        
        Trichinella spiralis - parasitic nematode
- Platyhelminthes
  - Trematoda
    - Diplostomida
      - Schistosomatidae
        
        Schistosoma
        
        Schistosoma mansoni - parasitic trematode
- Porifera
  - Demospongiae
    - Haplosclerida
      - Niphatidae
        
        Amphimedon
        
        Amphimedon queenslandica - sponge
- Placozoa - placozoans
Plantae
- Bryophyta
  - Bryopsida
    - Funariales
      - Funariaceae
        
        Physcomitrella
        
        Physcomitrella patens - Bryophyte, mosses
- Charophyta
  - Klebsormidiophyceae
    - Klebsormidiales
      - Klebsormidiaceae
        
        Klebsormidium
        
        Klebsormidium flaccidum - filamentous terrestrial alga
- Chlorophyta
  - Chlorophyceae
    - Sphaeropleales
      - Selenastraceae
        
        Monoraphidium
    - Volvocales
      - Chlamydomonadaceae
        
        Chlamydomonas - Chlamydomonas generic
  - Mamiellophyceae
    - Mamiellales
      - Bathycoccaceae
        
        Ostreococcus
        
        Ostreococcus lucimarinus - green algae
  - Trebouxiophyceae
    - Chlorellales
      - Chlorellaceae
        
        Parachlorella
        
        Parachlorella kessleri - Chlorella kessleri, unicellular green alga
        
        Chlorella - green algae, generic, Chlorella variabilis+pyrenoidosa+vulgaris
    - incertae sedis
      - Coccomyxaceae
        
        Coccomyxa - green algae
- Tracheophyta
  - Liliopsida
    - Arecales
      - Arecaceae
        
        Phoenix
        
        Phoenix dactylifera - date palm
    - Dioscoreales
      - Dioscoreaceae
        
        Dioscorea
        
        Dioscorea alata - yam
    - Poales
      - Poaceae
        
        Aegilops
        
        Aegilops tauschii - Tausch's goatgrass
        
        Brachypodium
        
        Brachypodium distachyon - purple false brome
        
        Eragrostis
        
        Eragrostis tef - tef
        
        Hordeum
        
        Hordeum vulgare - barley
        
        Leersia
        
        Leersia perrieri - cutgrasses
        
        Oropetium
        
        Oropetium thomaeum - desiccation-tolerant grass
        
        Oryza
        
        Oryza sativa - long-grained rice
        
        Setaria
        
        Setaria italica
        
        Sorghum
        
        Sorghum bicolor - Sorghum
        
        Triticum
        
        Triticum aestivum - wheat
        
        Zea
        
        Zea mays - sweetcorn
    - Zingiberales
      - Musaceae
        
        Ensete
        
        Ensete ventricosum - Ethiopian banana, Abyssinian banana, false banana, or ensete
        
        Musa
        
        Musa acuminata - dwarf banana
  - Lycopodiopsida
    - Selaginellales
      - Selaginellaceae
        
        Selaginella
        
        Selaginella moellendorffii - Lycophyte, Club-mosses
  - Magnoliopsida
    - Amborellales
      - Amborellaceae
        
        Amborella
        
        Amborella trichopoda - rare understory shrub
    - Apiales
      - Apiaceae
        
        Daucus
        
        Daucus carota - carrot
    - Asterales
      - Asteraceae
        
        Cynara
        
        Cynara cardunculus - cardoon
        
        Erigeron
        
        Erigeron canadensis - horseweed
        
        Lactuca
        
        Lactuca sativa - 147 genes, cultivated lettuce, garden lettuce
        
        Silybum
        
        Silybum marianum - milk thistle, lady's thistle, holy thistle, variegated thistle, Scotch thistle
        
        Helianthus
        
        Helianthus annuus - Sunflower, generic
        Helianthus - Sonflower, generic
    - Brassicales
      - Brassicaceae
        
        Aethionema
        
        Aethionema arabicum
        
        Brassica
        
        Brassica rapa - turnip, field mustard
        
        Camelina
        
        Camelina sativa - false flax, gold-of-pleasure
        
        Capsella
        
        Capsella rubella - pink shepherd's-purse
        
        Leavenworthia
        
        Leavenworthia alabamica - gladecresses
        
        Raphanus
        
        Raphanus sativus - radish
        
        Sisymbrium
        
        Sisymbrium irio - London rocket
        
        Arabidopsis
        
        Arabidopsis thaliana - rockcress, thale cress
        Arabidopsis - generic
        
        Arabis - generic, Arabis alpina+montbretiana+nordmanniana
        Eutrema - generic, Eutrema halophilum+parvulum+salsugineum
    - Caryophyllales
      - Amaranthaceae
        
        Beta
        
        Beta vulgaris - beet
        
        Spinacia
        
        Spinacia oleracea - spinach
      - Caryophyllaceae
        
        Dianthus
        
        Dianthus caryophyllus - clove pink, carnation
        
        Silene
        
        Silene latifolia - white campion
    - Cucurbitales
      - Cucurbitaceae
        
        Citrullus
        
        Citrullus lanatus - wild melon
        
        Cucumis
        
        Cucumis melo - muskmelon
    - Ericales
      - Actinidiaceae
        
        Actinidia
        
        Actinidia chinensis - fruit tree and medicinal plant
      - Primulaceae
        
        Primula - generic, Primula veris + vulgaris
    - Fabales
      - Fabaceae
        
        Arachis
        
        Arachis duranensis - Arachis spegazzinii
        
        Cicer
        
        Cicer arietinum - chickpea
        
        Glycine
        
        Glycine max - soybean
        
        Lotus
        
        Lotus japonicus - wild legume
        
        Lupinus
        
        Lupinus angustifolius - narrow-leaved blue lupine
        
        Phaseolus
        
        Phaseolus vulgaris - common bean, French bean , string bean, kidney bean
        
        Medicago
        
        Medicago truncatula - barrel medic, leguminous
        Medicago - generic
    - Fagales
      - Betulaceae
        
        Betula
        
        Betula nana - alpine birch
      - Fagaceae
        
        Castanea
        
        Castanea mollissima - Chinese chestnut
      - Juglandaceae
        
        Juglans
        
        Juglans regia - common walnut, English walnut, Persian walnut
    - Gentianales
      - Apocynaceae
        
        Catharanthus
        
        Catharanthus roseus - Madagascar periwinkle , old-maid, chula, chatas
      - Rubiaceae
        
        Coffea
        
        Coffea canephora - robusta coffee
    - Lamiales
      - Lamiaceae
        
        Ocimum
        
        Ocimum tenuiflorum - Ocimum tenuiflorum
      - Lentibulariaceae
        
        Genlisea
        
        Genlisea aurea - Genlisea minor, Genlisea ornata
      - Oleaceae
        
        Fraxinus
        
        Fraxinus excelsior - European ash
      - Pedaliaceae
        
        Sesamum
        
        Sesamum indicum - sesame, benne
      - Phrymaceae
        
        Erythranthe
        
        Erythranthe guttata - spotted monkey flower
        Erythranthe - spotted monkey flower
    - Malpighiales
      - Euphorbiaceae
        
        Jatropha
        
        Jatropha curcas - Barbados nut, purging nut, physic nut, JCL
        
        Manihot
        
        Manihot esculenta - cassava, tapioca, yuca, manioc
        
        Ricinus
        
        Ricinus communis - castor bean
        
        Hevea - generic
      - Linaceae
        
        Linum
        
        Linum usitatissimum - common flax, linseed
      - Salicaceae
        
        Populus
        
        Populus trichocarpa - poplar, black cottonwood
    - Malvales
      - Malvaceae
        
        Gossypium
        
        Gossypium raimondii - diploid cotton
    - Myrtales
      - Lythraceae
        
        Punica
        
        Punica granatum - pomegranate, granado, zakuro, shi liu, grenadier
      - Myrtaceae
        
        Eucalyptus
        
        Eucalyptus grandis - rose gum
    - Proteales
      - Nelumbonaceae
        
        Nelumbo
        
        Nelumbo nucifera - sacred lotus, padma, Indian lotus
    - Rosales
      - Cannabaceae
        
        Humulus
        
        Humulus lupulus - european hop, common hop
        
        Cannabis
      - Moraceae
        
        Morus
        
        Morus notabilis - mulberries
      - Rosaceae
        
        Fragaria
        
        Fragaria vesca - wild strawberry
        
        Malus
        
        Malus domestica - apple
        
        Prunus
        
        Prunus persica - peach
        
        Pyrus
        
        Pyrus bretschneideri - Chinese white pear, bai li
    - Sapindales
      - Rutaceae
        
        Citrus
        
        Citrus aurantium - sweet orange
    - Solanales
      - Convolvulaceae
        
        Ipomoea
        
        Ipomoea batatas - sweet potato
        Ipomoea trifida - wild sweet potato
      - Solanaceae
        
        Capsicum
        
        Capsicum annuum - chilli pepper, bell pepper, paprika, cayenne, halapenos
        
        Solanum
        
        Solanum lycopersicum - tomato, Solanum lycopersicum
        Solanum lycopersicum - generic, tomato
        
        Nicotiana - generic
    - Vitales
      - Vitaceae
        
        Vitis
        
        Vitis vinifera - wine grape
  - Monocot plants - generic, Corn, Rice, Wheat, Barley
Chromista
- Apicomplexa
  - Aconoidasida
    - Piroplasmorida
      - Babesiidae
        
        Babesia - generic, piroplasms
- Cryptophyta
  - Cryptophyceae
    - Pyrenomonadales
      - Geminigeraceae
        
        Guillardia
        
        Guillardia theta - cryptomonads
- Myzozoa
  - Aconoidasida
    - Haemospororida
      - Plasmodiidae
        
        Plasmodium
        
        Plasmodium falciparum - malaria parasite
  - Conoidasida
    - Eucoccidiorida
      - Sarcocystidae
        
        Toxoplasma
        
        Toxoplasma gondii - apicomplexans
- Ochrophyta
  - Bacillariophyceae
    - Naviculales
      - Phaeodactylaceae
        
        Phaeodactylum
        
        Phaeodactylum tricornutum - Diatoms
  - Dictyochophyceae
    - Pelagomonadales
      - Pelagomonadaceae
        
        Aureococcus
        
        Aureococcus anophagefferens - heterokont alga
- Oomycota
  - Peronosporea
    - Albuginales
      - Albuginaceae
        
        Albugo
        
        Albugo laibachii - plant pathogen
    - Peronosporales
      - Peronosporaceae
        
        Hyaloperonospora
        
        Hyaloperonospora arabidopsidis - plant pathogen
        
        Phytophthora - plant pathogen
      - Pythiaceae
        
        Globisporangium
        
        Globisporangium ultimum - plant pathogen
    - Saprolegniales
      - Leptolegniaceae
        
        Aphanomyces - water moulds
- Cercozoa - cercozoans, freshwater amoeboids
Protozoa
- Amoebozoa
  - Lobosa
    - Amoebida
      - Acanthamoebidae
        
        Acanthamoeba
        
        Acanthamoeba castellanii - amoebae
      - Entamoebidae
        
        Entamoeba
        
        Entamoeba histolytica - anaerobic parasitic protozoan
- Euglenozoa
  - Kinetoplastea
    - Trypanosomatida
      - Trypanosomatidae
        
        Trypanosoma
        
        Trypanosoma brucei - kinetoplastids
        
        Leishmania - kinetoplastids
- Metamonada
  - Trepomonadea
    - Distomatida
      - Hexamitidae
        
        Giardia
        
        Giardia duodenalis - diplomonads, Giardia lamblia
- Microsporidia
  - Microsporea
    - Dissociodihaplophasida
      - Nosematidae
        
        Nosema - generic, Nosema_apis+bombycis+ceranae, microsporidians
  - incertae sedis
    - Nematocida
      - Nematocida parisii - microsporidians, generic, Nematocida_parisii+sp_1
- Mycetozoa
  - Dictyosteliomycetes
    - Dictyosteliales
      - Dictyosteliaceae
        
        Dictyostelium
        
        Dictyostelium discoideum - cellular slime molds

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