SUPERFAMILY 1.75 HMM library and genome assignments server

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SUPERFAMILY Assignments for Genomes and Sequence Collections

We provide assignments for 1766 distinct organisms.

Model Eukaryotes (297) animals (105), fungi (115), plants (36) and protists (41)
Model Prokaryotes (958) model bacteria (862) and archaea (96)
Eukaryote strains (56);
Prokaryote strains (455) 		animals (5), fungi (46), plants (2) and protists (3);
bacterial (443) and archaeal (12)
Longest transcript per gene (49) eukaryote genomes with splice variants removed
Others (13);
Sequence collections (128) 		incomplete, low coverage or early release genomes;
UniProt, PDB, viral sequences etc
(show info)

Email superfamily@mrc-lmb.cam.ac.uk to have a genome added and/or analysed.

Recently added genomes
Uniprot 2012_01 2012-02-08
Strongylocentrotus purpuratus v3.1 2012-01-18
Xenopus (Silurana) tropicalis v7.1 (annotation v7.2) 2012-01-18
Protein Data Bank 2012-01-16
Ascaris suum Victoria/Ghent 2012-01-16
Eukaryotes
Category Organism
Animals Vertebrates Mammals Homo sapiens 63_37   (Man)  
Pan troglodytes 63_21   (Chimpanzee)  
Gorilla gorilla 63_3   (Gorilla)  
Pongo abelii 63_1   (Orang utan)  
Macaca mulatta 63_10   (Rhesus macaque)  
Callithrix jacchus 63_321   (Common marmoset)  
Otolemur garnettii 63_1   (Small-eared galago)  
Microcebus murinus 63_1   (Grey mouse lemur)  
Tarsius syrichta 63_1   (Philippine tarsier)  
Rattus norvegicus 63_34   (Brown rat)  
Mus musculus 63_37   (Mouse)  
Spermophilus tridecemlineatus 63_1   (Thirteen-lined ground squirrel)  
Dipodomys ordii 63_1   (Ord's kangaroo rat)  
Heterocephalus glaber v1.7-2   (Naked mole rat)  
Cavia porcellus 63_3   (Guinea pig)  
Oryctolagus cuniculus 63_3   (Domestic rabbit)  
Ochotona princeps 63_1   (Southern American pika)  
Tupaia belangeri 63_1   (Common tree shrew)  
Sus scrofa 63_9   (Pigs)  
Bos taurus 63_4   (Bovine)  
Vicugna pacos 63_1   (Alpaca)  
Tursiops truncatus 63_1   (Atlantic bottle-nosed dolphin)  
Canis familiaris 63_2   (Dogs)  
Felis catus 63_1   (Cat)  
Equus caballus 63_2   (Domestic horse)  
Myotis lucifugus 63_2   (Little brown bat)  
Pteropus vampyrus 63_1   (Large flying fox)  
Sorex araneus 63_1   (Eurasian shrew)  
Erinaceus europaeus 63_1   (Western European hedgehog)  
Procavia capensis 63_1   (Cape hyrax)  
Loxodonta africana 63_3   (African bush elephant)  
Echinops telfairi 63_1   (Lesser hedgehog tenrec)  
Dasypus novemcinctus 63_2   (Nine-banded armadillo)  
Choloepus hoffmanni 63_1   (Hoffmann's two-toed sloth)  
Macropus eugenii 63_1   (Tammar wallaby)  
Monodelphis domestica 63_5   (Gray short-tailed opossum)  
Ornithorhynchus anatinus 63_1   (Duck-billed platypus)  
Birds Taeniopygia guttata 63_1   (Zebra finch)  
Meleagris gallopavo 57_2   (Common turkey)  
Gallus gallus 63_2   (Bantam)  
Amphibians Xenopus laevis   (Clawed frog)  
Xenopus tropicalis 63_42   (Western clawed frog)  
Fishes Danio rerio 63_9   (Leopard danio)  
Gadus morhua NEAC  
Gasterosteus aculeatus 63_1   (Three spined stickleback)  
Oryzias latipes 63_1   (Japanese rice fish)  
Tetraodon nigroviridis 63_8   (Spotted green pufferfish)  
Takifugu rubripes 63_4   (Tiger puffer)  
Vertebrates/Others Anolis carolinensis 59_1c   (Green anole)  
Lancelets Branchiostoma floridae 1.0   (Florida lancelet)  
Ascidians Ciona savignyi 63_2  
Ciona intestinalis 63_2  
Echinoderms Updated Strongylocentrotus purpuratus v3.1   (Purple sea urchin)  
Annelida Helobdella robusta  
Capitella sp. I  
Arthropods Insects New genome Danaus plexippus OGS1.0   (American monarch)  
New genome Heliconius melpomene  
New genome Heliconius numata  
Bombyx mori   (Silk moth)  
Nasonia vitripennis   (Jewel wasp)  
Apis mellifera 38.2d   (Bee)  
Harpegnathos saltator v3.3  
Linepithema humile v1.1   (Argentine ant)  
Solenopsis invicta v.2.2.3   (Imported red fire ant)  
Pogonomyrmex barbatus v1.2  
Atta cephalotes v1.1  
Camponotus floridanus v3.3  
Drosophila grimshawi 1.3  
Drosophila willistoni 1.3  
Drosophila pseudoobscura 2.13  
Drosophila persimilis 1.3  
Drosophila yakuba 1.3  
Drosophila simulans 1.3  
Drosophila sechellia 1.3  
Drosophila melanogaster 63_525   (Fruit fly)  
Drosophila erecta 1.3  
Drosophila ananassae 1.3  
Drosophila virilis 1.2  
Drosophila mojavensis 1.3  
Aedes aegypti 55   (Yellow fever mosquito)  
Culex pipiens quinquefasciatus   (Southern house mosquito)  
Anopheles gambiae 49_3j   (African malaria mosquito)  
Tribolium castaneum 3.0   (Rust-red flour beetle)  
Pediculus humanus corporis   (Human body lice)  
Acyrthosiphon pisum   (Pea aphid)  
Crustaceans Daphnia pulex   (Common water flea)  
Mites and ticks New genome Tetranychus urticae   (Red spider mite)  
Ixodes scapularis   (Blacklegged tick)  
Mollusks Lottia gigantea  
Nematodes Pristionchus pacificus  
Meloidogyne incognita   (Southern root-knot nematode)  
Meloidogyne hapla  
Brugia malayi WS218   (Agent of lymphatic filariasis)  
Caenorhabditis japonica  
Caenorhabditis brenneri  
Caenorhabditis remanei  
Caenorhabditis elegans 63_220   (Nematode)  
Caenorhabditis briggsae 2  
Flatworms Schistosoma mansoni  
Cnidarians Acropora digitifera v1.0  
Nematostella vectensis 1.0   (Starlet sea anemone)  
Hydra magnipapillata  
Placozoans Trichoplax adhaerens  
Animals/Others Oikopleura dioica  
Amphimedon queenslandica  
Plants Eudicots Mustard family Arabidopsis lyrata   (Lyrate rockcress)  
Arabidopsis thaliana 10   (Mouse-ear cress)  
Papaya family Carica papaya   (Mamon)  
Mallow family Theobroma cacao Matina 1-6 v0.9   (Cocoa)  
Rue family Citrus clementina 6.0  
Citrus sinensis 6.0   (Apfelsine)  
Pea family Medicago truncatula   (Barrel medic)  
Glycine max   (Soybeans)  
Rose family Fragaria vesca   (Alpine strawberry)  
Malus x domestica   (Apple)  
Willow family Populus trichocarpa 6.0   (Black cottonwood)  
Nightshade family Solanum lycopersicum v.2.3   (Tomato)  
Solanum tuberosum   (Potatoes)  
Grape family Vitis vinifera   (Wine grape)  
Buttercup family Aquilegia coerulea 6.0  
Eudicots/Others Eucalyptus grandis 6.0   (Rose gum)  
Cucumis sativus   (Cucumbers)  
Monocots Grass family Brachypodium distachyon  
Oryza glaberrima   (African rice)  
Oryza sativa ssp. japonica 5.0   (Japanese rice)  
Zea mays subsp. mays   (Corn)  
Sorghum bicolor   (Broomcorn)  
Setaria italica 6.0   (Foxtail millet)  
Spikemosses Selaginella moellendorffii  
Mosses Physcomitrella patens subsp. patens  
Green algae Ostreococcus sp. RCC809  
Ostreococcus lucimarinus CCE9901  
Ostreococcus tauri  
New genome Bathycoccus  
Micromonas sp. RCC299  
Updated Micromonas pusilla CCMP1545 v3.0  
Coccomyxa sp. C-169  
Chlorella sp. NC64A  
Chlorella vulgaris  
Volvox carteri f. nagariensis  
Chlamydomonas reinhardtii 4.0  
Choanoflagellates Codonosigidae Monosiga brevicollis  
Choanoflagellates/Others Proterospongia sp. ATCC 50818  
Ichthyosporea Capsaspora Capsaspora owczarzaki ATCC 30864  
Amoebozoa Dictyostelium Dictyostelium discoideum  
Dictyostelium purpureum  
Entamoeba Entamoeba dispar 1.2  
Entamoeba invadens 1.2  
Entamoeba histolytica 1  
Fungi Ascomycetes Saccharomycetes Pichia stipitis CBS 6054  
Candida guilliermondii ATCC 6260  
Lodderomyces elongisporus NRRL YB-4239  
Debaromyces hansenii  
Wickerhamomyces anomalus  
Hansenula polymorpha v2.0  
Candida dubliniensis CD36  
Candida tropicalis MYA-3404  
Candida parapsilosis  
Candida albicans SC5314  
Yarrowia lipolytica CLIB122  
Candida lusitaniae ATCC 42720  
Pichia pastoris GS115  
Vanderwaltozyma polyspora DSM 70294  
Candida glabrata CBS138  
Kluyveromyces thermotolerans CBS 6340  
Lachancea kluyveri  
Kluyveromyces waltii  
Ashbya gossypii ATCC 10895  
Zygosaccharomyces rouxii  
Saccharomyces mikatae MIT  
Saccharomyces paradoxus MIT  
Saccharomyces cerevisiae 63_3   (Brewer's yeast)  
Saccharomyces bayanus MIT  
Pichia membranifaciensv1.0  
Kluyveromyces lactis  
Sordariomycetes Magnaporthe grisea 70-15  
Podospora anserina  
Sporotrichum thermophile ATCC 42464  
Thielavia terrestris NRRL 8126  
Chaetomium globosum CBS 148.51  
Neurospora tetrasperma  
Neurospora discreta FGSC 8579  
Neurospora crassa OR74A  
Cryphonectria parasitica   (Chestnut blight fungus)  
Verticillium dahliae VdLs.17  
Verticillium albo-atrum VaMs.102  
Acremonium alcalophilumv 1.0  
Fusarium oxysporum f. sp. lycopersici 4286  
Nectria haematococca mpVI  
Fusarium verticillioides 7600  
Fusarium graminearum  
Trichoderma atroviride  
Trichoderma reesei 1.2  
Trichoderma virens Gv29-8  
Leotiomycetes Botrytis cinerea B05.10  
Sclerotinia sclerotiorum  
Eurotiomycetes Ajellomyces dermatitidis SLH14081  
Histoplasma capsulatum class NAmI strain WU24  
Microsporum canis CBS 113480  
Microsporum gypseum  
Updated Arthroderma benhamiae CBS 112371  
Trichophyton equinum CBS 127.97  
Updated Trichophyton verrucosum HKI 0517  
Trichophyton tonsurans CBS 112818  
Trichophyton rubrum CBS 118892  
Paracoccidioides brasiliensis Pb18  
Coccidioides posadasii RMSCC 3488  
Coccidioides immitis RS  
Uncinocarpus reesii 1704  
Neosartorya fischeri NRRL 181  
Penicillium chrysogenum Wisconsin 54-1255  
Penicillium marneffei ATCC 18224  
Updated Aspergillus fumigatus Af293  
Aspergillus carbonarius ITEM 5010  
Aspergillus terreus NIH2624  
Aspergillus oryzae RIB40  
Aspergillus niger ATCC 1015  
Aspergillus flavus NRRL3357  
Aspergillus clavatus NRRL 1  
Aspergillus nidulans FGSC A4  
Dothideomycetes Alternaria brassicicola  
Setosphaeria turcica v1.0  
Pyrenophora tritici-repentis  
Cochliobolus heterostrophus  
Stagonospora nodorum  
Septoria musiva v1.0  
Mycosphaerella fijiensis CIRAD86  
Dothistroma septosporum  
Mycosphaerella graminicola IPO323  
Pezizomycetes Tuber melanosporum Vittad   (Black truffle)  
Schizosaccharomycetes Schizosaccharomyces octosporus yFS286  
Schizosaccharomyces japonicus yFS275  
Schizosaccharomyces pombe   (Fission yeast)  
Basidiomycetes Malassezia globosa CBS 7966  
Ustilago maydis  
Wallemia sebi v1.0  
Puccinia graminis f. sp. tritici CRL 75-36-700-3  
Melampsora laricis-populina  
Rhodotorula graminis WP1 v1.0  
Sporobolomyces roseus IAM 13481  
Serpula lacrymans var. lacrymans S7.9  
Coniophora puteana  
Coprinopsis cinerea okayama7 130 v3  
Pleurotus ostreatus   (Oyster mushroom)  
Laccaria bicolor S238N-H82  
Agaricus bisporus var. bisporus  
Schizophyllum commune  
Stereum hirsutum FP-91666 SS1 v1.0  
Heterobasidion annosum  
Gloeophyllum trabeumv1.0  
Punctularia strigosozonata v1.0  
Phanerochaete chrysosporium RP-78 2.1  
Fomitiporia mediterranea v1.0  
Postia placenta  
Wolfiporia cocos MD-104 SS10 v1.0  
Fomitopsis pinicolav1.0  
Trametes versicolor v1.0  
Dichomitus squalens  
Tremella mesenterica  
Chytridiomycetes Spizellomyces punctatus DAOM BR117  
Fungi/Others Allomyces macrogynus ATCC 38327  
Rhizopus oryzae RA 99-880  
Phycomyces blakesleeanus  
Mucor circinelloides  
Protists Red algae Cyanidioschyzon merolae  
Alveolates Apicomplexans Babesia bovis T2Bo  
Theileria parva  
Theileria annulata  
Plasmodium falciparum 3D7  
Plasmodium vivax SaI-1 7.0  
Plasmodium knowlesi strain H  
Plasmodium yoelii ssp. yoelii 1  
Plasmodium chabaudi  
Plasmodium berghei ANKA  
Cryptosporidium hominis  
Cryptosporidium muris  
Cryptosporidium parvum Iowa II  
Neospora caninum  
Toxoplasma gondii ME49  
Toxoplasma gondii GT1  
Toxoplasma gondii VEG  
Ciliates Paramecium tetraurelia  
Tetrahymena thermophila SB210 1  
Euglenozoa Kinetoplasts Trypanosoma vivax  
Trypanosoma cruzi strain CL Brener  
Trypanosoma congolense 2.4  
Trypanosoma brucei  
Leishmania mexicana 2.4  
Leishmania major strain Friedlin  
Leishmania infantum JPCM5 2.4  
Leishmania braziliensis MHOM/BR/75/M2904 2.4  
Diplomonads Giardia lamblia 2.3  
Heterolobosea Naegleria gruberi  
Haptophyceae Emiliania huxleyi CCMP1516  
Parabasalids Trichomonas vaginalis  
stramenopiles Ectocarpus siliculosus  
Aureococcus anophagefferens  
Pythium ultimum v1.7-2  
Phytophthora ramorum 1.1   (Sudden oak death agent)  
Phytophthora sojae 1.1  
Phytophthora infestans T30-4  
Phytophthora capsici  
Phaeodactylum tricornutumCCAP 1055/1  
Fragilariopsis cylindrus  
Thalassiosira pseudonana CCMP1335  

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Prokaryotes
Category Organism
Bacteria Gammaproteobacteria Escherichia Escherichia fergusonii ATCC 35469  
Escherichia coli K-12 subMG1655  
Yersinia Yersinia pseudotuberculosis IP 32953  
Yersinia pestis CO92  
Yersinia enterocolitica ssp. enterocolitica 8081  
Shigella Shigella sonnei Ss046  
Shigella flexneri 2a 2457T  
Shigella dysenteriae Sd197  
Shigella boydii Sb227  
Pectobacterium Pectobacterium wasabiae WPP163  
Pectobacterium atrosepticum SCRI1043  
Pectobacterium carotovorum ssp. carotovorum PC1  
Erwinia Erwinia tasmaniensis Et1/99  
Erwinia billingiae Eb661  
Erwinia pyrifoliae Ep1/96  
Erwinia amylovora ATCC 49946  
Photorhabdus Photorhabdus asymbiotica  
Photorhabdus luminescens ssp. laumondii TTO1  
Wigglesworthia Wigglesworthia glossinidia  
Sodalis Sodalis glossinidius morsitans  
Enterobacter Enterobacter sp. 638  
Enterobacter cloacae ssp. cloacae ATCC 13047  
Cronobacter Cronobacter turicensis z3032  
Klebsiella Klebsiella variicola At-22  
Klebsiella pneumoniae ssp. pneumoniae MGH 78578  
Citrobacter Citrobacter rodentium ICC168  
Citrobacter koseri ATCC BAA-895  
Serratia Serratia sp. AS9  
Serratia sp. AS12  
Serratia proteamaculans 568  
Proteus Proteus mirabilis HI4320  
Edwardsiella Edwardsiella ictaluri 93-146  
Edwardsiella tarda EIB202  
Blochmannia Candidatus Blochmannia floridanus  
Hamiltonella Candidatus Hamiltonella defensa 5AT  
Dickeya Dickeya zeae Ech1591  
Dickeya dadantii Ech703  
Xenorhabdus Xenorhabdus bovienii SS-2004  
Xenorhabdus nematophila ATCC 19061  
Pantoea Pantoea sp. At-9b  
Pantoea vagans C9-1  
Pantoea ananatis LMG 20103  
Riesia Candidatus Riesia pediculicola USDA  
Rahnella Rahnella sp. Y9602  
Haemophilus Haemophilus parasuis SH0165  
Haemophilus ducreyi 35000HP  
Haemophilus influenzae Rd KW20  
Histophilus Haemophilus somnus 129PT  
Pasteurella Pasteurella multocida ssp. multocida Pm70  
Actinobacillus Actinobacillus succinogenes 130Z  
Actinobacillus pleuropneumoniae L20  
Aggregatibacter Aggregatibacter aphrophilus NJ8700  
Aggregatibacter actinomycetemcomitans D11S-1  
Gallibacterium Gallibacterium anatis UMN179  
Xylella Xylella fastidiosa 9a5c  
Xanthomonas Xanthomonas axonopodis pv. citri 306  
Xanthomonas albilineans  
Xanthomonas oryzae pv. oryzae KACC10331  
Xanthomonas campestris pv. campestris ATCC 33913  
Stenotrophomonas Stenotrophomonas maltophilia R551-3  
Pseudoxanthomonas Pseudoxanthomonas suwonensis 11-1  
Vibrio Vibrio parahaemolyticus RIMD 2210633  
Vibrio harveyi ATCC BAA-1116  
Vibrio sp. Ex25  
Vibrio splendidus LGP32  
Vibrio vulnificus YJ016  
Vibrio cholerae O1 biov. El Tor N16961  
Aliivibrio Aliivibrio salmonicida LFI1238  
Vibrio fischeri ES114  
Photobacterium Photobacterium profundum SS9  
Pseudomonas Pseudomonas brassicacearum ssp. brassicacearum NFM421  
Pseudomonas entomophila L48  
Pseudomonas syringae pv. tomato DC3000  
Pseudomonas stutzeri A1501  
Pseudomonas fulva 12-X  
Pseudomonas putida KT2440  
Pseudomonas fluorescens Pf-5  
Pseudomonas mendocina ymp  
Pseudomonas aeruginosa PAO1  
Cellvibrio Cellvibrio japonicus Ueda107  
Azotobacter Azotobacter vinelandii DJ  
Psychrobacter Psychrobacter sp. PRwf-1  
Psychrobacter arcticus 273-4  
Psychrobacter cryohalolentis K5  
Acinetobacter Acinetobacter baumannii ATCC 17978  
Acinetobacter sp. DR1  
Acinetobacter sp. ADP1  
Moraxella Moraxella catarrhalis RH4  
Shewanella Shewanella piezotolerans WP3  
Shewanella loihica PV-4  
Shewanella halifaxensis HAW-EB4  
Shewanella sediminis HAW-EB3  
Shewanella denitrificans OS217  
Shewanella pealeana ATCC 700345  
Shewanella oneidensis MR-1  
Shewanella baltica OS155  
Shewanella woodyi ATCC 51908  
Shewanella sp. MR-7  
Shewanella amazonensis SB2B  
Shewanella violacea DSS12  
Shewanella frigidimarina NCIMB 400  
Shewanella putrefaciens CN-32  
Idiomarina Idiomarina loihiensis L2TR  
Colwellia Colwellia psychrerythraea 34H  
Pseudoalteromonas Pseudoalteromonas sp. SM9913  
Pseudoalteromonas atlantica T6c  
Pseudoalteromonas haloplanktis TAC125  
Saccharophagus Saccharophagus degradans 2-40  
Marinobacter Marinobacter aquaeolei VT8  
Alteromonas Alteromonas sp. SN2  
Alteromonas macleodii Deep ecotype  
Glaciecola Glaciecola sp. 4H-3-7+YE-5  
Psychromonas Psychromonas ingrahamii 37  
Teredinibacter Teredinibacter turnerae T7901  
Ferrimonas Ferrimonas balearica DSM 9799  
Coxiella Coxiella burnetii RSA 493  
Legionella Legionella longbeachae NSW150  
Legionella pneumophila ssp. pneumophila Philadelphia 1  
Legionella pneumophila 2300/99 Alcoy  
Methylococcus Methylococcus capsulatus Bath  
Methylomonas Methylomonas methanica MC09  
Francisella Francisella philomiragia ssp. philomiragia ATCC 25017  
Thiomicrospira Thiomicrospira crunogena XCL-2  
Thioalkalimicrobium Thioalkalimicrobium cyclicum ALM1  
Nitrosococcus Nitrosococcus watsoni C-113  
Nitrosococcus halophilus Nc4  
Nitrosococcus oceani ATCC 19707  
Allochromatium Allochromatium vinosum DSM 180  
Alkalilimnicola Alkalilimnicola ehrlichii MLHE-1  
Halorhodospira Halorhodospira halophila SL1  
Thioalkalivibrio Thioalkalivibrio sp. HL-EbGR7  
Halothiobacillus Halothiobacillus neapolitanus c2  
Hahella Hahella chejuensis KCTC 2396  
Chromohalobacter Chromohalobacter salexigens DSM 3043  
Halomonas Halomonas elongata DSM 2581  
Alcanivorax Alcanivorax borkumensis SK2  
Kangiella Kangiella koreensis DSM 16069  
Marinomonas Marinomonas posidonica IVIA-Po-181  
Marinomonas sp. MWYL1  
Marinomonas mediterranea MMB-1  
Aeromonas Aeromonas veronii B565  
Aeromonas salmonicida ssp. salmonicida A449  
Aeromonas hydrophila ssp. hydrophila ATCC 7966  
Tolumonas Tolumonas auensis DSM 9187  
Dichelobacter Dichelobacter nodosus VCS1703A  
Acidithiobacillus Acidithiobacillus ferrooxidans ATCC 23270  
Unclassified Gammaproteobacter Baumannia cicadellinicola Hc  
Candidatus Carsonella ruddii PV  
gamma proteobacterium HdN1  
Candidatus Vesicomyosocius okutanii HA  
Candidatus Ruthia magnifica Cm  
Gammaproteobacteria/Others Mannheimia succiniciproducens MBEL55E  
Betaproteobacteria Neisseria Neisseria meningitidis Z2491  
Neisseria lactamica 020-06  
Neisseria gonorrhoeae FA 1090  
Chromobacterium Chromobacterium violaceum ATCC 12472  
Laribacter Laribacter hongkongensis HLHK9  
Ralstonia Ralstonia pickettii 12J  
Ralstonia solanacearum PSI07  
Ralstonia solanacearum CFBP2957  
Ralstonia solanacearum GMI1000  
Cupriavidus Ralstonia eutropha JMP134  
Cupriavidus taiwanensis  
Cupriavidus metallidurans CH34  
Burkholderia Burkholderia rhizoxinica HKI 454  
Burkholderia phytofirmans PsJN  
Burkholderia phymatum STM815  
Burkholderia thailandensis E264  
Burkholderia pseudomallei K96243  
Burkholderia mallei ATCC 23344  
Burkholderia sp. 383  
Burkholderia ambifaria AMMD  
Burkholderia cenocepacia AU 1054  
Burkholderia multivorans ATCC 17616  
Burkholderia vietnamiensis G4  
Burkholderia xenovorans LB400  
Burkholderia gladioli BSR3  
Burkholderia glumae BGR1  
Polynucleobacter Polynucleobacter necessarius ssp. asymbioticus QLW-P1DMWA-1  
Bordetella Bordetella petrii DSM 12804  
Bordetella avium 197N  
Bordetella pertussis Tohama I  
Bordetella parapertussis 12822  
Bordetella bronchiseptica RB50  
Achromobacter Achromobacter xylosoxidans A8  
Taylorella Taylorella equigenitalis MCE9  
Pusillimonas Pusillimonas sp. T7-7  
Polaromonas Polaromonas sp. JS666  
Polaromonas naphthalenivorans CJ2  
Acidovorax Acidovorax ebreus TPSY  
Acidovorax sp. JS42  
Acidovorax citrulli AAC00-1  
Acidovorax avenae ssp. avenae ATCC 19860  
Verminephrobacter Verminephrobacter eiseniae EF01-2  
Delftia Delftia sp. Cs1-4  
Delftia acidovorans SPH-1  
Variovorax Variovorax paradoxus S110  
Alicycliphilus Alicycliphilus denitrificans K601  
Alicycliphilus denitrificans BC  
Methylibium Methylibium petroleiphilum PM1  
Herminiimonas Herminiimonas arsenicoxydans  
Herbaspirillum Herbaspirillum seropedicae SmR1  
Zinderia Candidatus Zinderia insecticola CARI  
Leptothrix Leptothrix cholodnii SP-6  
Thiomonas Thiomonas intermedia K12  
Nitrosomonas Nitrosomonas sp. AL212  
Nitrosomonas eutropha C91  
Nitrosomonas europaea ATCC 19718  
Nitrosospira Nitrosospira multiformis ATCC 25196  
Aromatoleum Aromatoleum aromaticum EbN1  
Dechloromonas Dechloromonas aromatica RCB  
Thauera Thauera sp. MZ1T  
Thiobacillus Thiobacillus denitrificans ATCC 25259  
Methylobacillus Methylobacillus flagellatus KT  
Methylotenera Methylotenera sp. 301  
Methylotenera mobilis JLW8  
Methylovorus Methylovorus sp. SIP3-4  
Accumulibacter Candidatus Accumulibacter phosphatis clade IIA UW-1  
Sideroxydans Sideroxydans lithotrophicus ES-1  
Gallionella Gallionella capsiferriformans ES-2  
Betaproteobacteria/Others Rhodoferax ferrireducens T118  
Janthinobacterium sp. Marseille  
Epsilonproteobacteria Helicobacter Helicobacter hepaticus ATCC 51449  
Helicobacter mustelae 12198  
Helicobacter felis ATCC 49179  
Helicobacter acinonychis Sheeba  
Helicobacter pylori B8  
Helicobacter pylori 26695  
Wolinella Wolinella succinogenes DSM 1740  
Sulfurimonas Sulfurimonas autotrophica DSM 16294  
Sulfurimonas denitrificans DSM 1251  
Sulfuricurvum Sulfuricurvum kujiense DSM 16994  
Campylobacter Campylobacter hominis ATCC BAA-381  
Campylobacter lari RM2100  
Campylobacter curvus 525.92  
Campylobacter concisus 13826  
Campylobacter jejuni ssp. jejuni NCTC 11168  
Campylobacter fetus ssp. fetus 82-40  
Arcobacter Arcobacter nitrofigilis DSM 7299  
Arcobacter butzleri RM4018  
Sulfurospirillum Sulfurospirillum deleyianum DSM 6946  
Nitratiruptor Nitratiruptor sp. SB155-2  
Sulfurovum Sulfurovum sp. NBC37-1  
Nitratifractor Nitratifractor salsuginis DSM 16511  
Nautilia Nautilia profundicola AmH  
Deltaproteobacteria Geobacter Geobacter uraniireducens Rf4  
Geobacter sp. FRC-32  
Geobacter lovleyi SZ  
Geobacter bemidjiensis Bem  
Geobacter sulfurreducens PCA  
Geobacter metallireducens GS-15  
Pelobacter Pelobacter propionicus DSM 2379  
Pelobacter carbinolicus DSM 2380  
Desulfovibrio Desulfovibrio magneticus RS-1  
Desulfovibrio aespoeensis Aspo-2  
Desulfovibrio desulfuricans ssp. desulfuricans G20  
Desulfovibrio vulgaris Hildenborough  
Desulfovibrio salexigens DSM 2638  
Lawsonia Lawsonia intracellularis PHE/MN1-00  
Desulfomicrobium Desulfomicrobium baculatum DSM 4028  
Desulfohalobium Desulfohalobium retbaense DSM 5692  
Bdellovibrio Bdellovibrio bacteriovorus HD100  
Desulfotalea Desulfotalea psychrophila LSv54  
Desulfurivibrio Desulfurivibrio alkaliphilus AHT2  
Desulfobulbus Desulfobulbus propionicus DSM 2032  
Desulfatibacillum Desulfatibacillum alkenivorans AK-01  
Desulfobacterium Desulfobacterium autotrophicum HRM2  
Anaeromyxobacter Anaeromyxobacter sp. Fw109-5  
Anaeromyxobacter dehalogenans 2CP-C  
Myxococcus Myxococcus xanthus DK 1622  
Stigmatella Stigmatella aurantiaca DW4/3-1  
Sorangium Sorangium cellulosum So ce 56  
Haliangium Haliangium ochraceum DSM 14365  
Syntrophus Syntrophus aciditrophicus SB  
Desulfobacca Desulfobacca acetoxidans DSM 11109  
Syntrophobacter Syntrophobacter fumaroxidans MPOB  
Desulfarculus Desulfarculus baarsii DSM 2075  
Hippea Hippea maritima DSM 10411  
Alphaproteobacteria Rickettsia Rickettsia bellii RML369-C  
Rickettsia canadensis McKiel  
Rickettsia typhi Wilmington  
Rickettsia prowazekii Madrid E  
Rickettsia peacockii Rustic  
Rickettsia felis URRWXCal2  
Rickettsia massiliae MTU5  
Rickettsia africae ESF-5  
Rickettsia akari Hartford  
Rickettsia rickettsii Sheila Smith  
Rickettsia conorii Malish 7  
Orientia Orientia tsutsugamushi Boryong  
Wolbachia Wolbachia endosymbiont of Culex_quinquefasciatus Pel  
Wolbachia endosymbiont of Drosophila melanogaster  
Wolbachia endosymbiont TRS of Brugia malayi  
Wolbachia sp. wRi  
Anaplasma Anaplasma phagocytophilum HZ  
Anaplasma marginale St. Maries  
Anaplasma centrale Israel  
Ehrlichia Ehrlichia chaffeensis Arkansas  
Ehrlichia canis Jake  
Neorickettsia Neorickettsia sennetsu Miyayama  
Neorickettsia risticii Illinois  
Pelagibacter Candidatus Pelagibacter sp. IMCC9063  
Candidatus Pelagibacter ubique HTCC1062  
Mesorhizobium Mesorhizobium ciceri biov. biserrulae WSM1271  
Mesorhizobium loti MAFF303099  
Chelativorans Chelativorans sp. BNC1  
Parvibaculum Parvibaculum lavamentivorans DS-1  
Sinorhizobium Rhizobium sp. NGR234  
Sinorhizobium medicae WSM419  
Sinorhizobium meliloti 1021  
Agrobacterium Agrobacterium sp. H13-3  
Agrobacterium vitis S4  
Agrobacterium radiobacter K84  
Agrobacterium tumefaciens C58  
Rhizobium Rhizobium etli CFN 42  
Rhizobium leguminosarum bv. viciae 3841  
Liberibacter Candidatus Liberibacter asiaticus psy62  
Brucella Brucella microti CCM 4915  
Brucella canis ATCC 23365  
Brucella suis 1330  
Brucella melitensis bv. 1 16M  
Brucella ovis ATCC 25840  
Brucella abortus bv. 1 9-941  
Ochrobactrum Ochrobactrum anthropi ATCC 49188  
Bradyrhizobium Bradyrhizobium sp. ORS278  
Bradyrhizobium japonicum USDA 110  
Rhodopseudomonas Rhodopseudomonas palustris CGA009  
Nitrobacter Nitrobacter winogradskyi Nb-255  
Nitrobacter hamburgensis X14  
Oligotropha Oligotropha carboxidovorans OM5  
Bartonella Bartonella tribocorum CIP 105476  
Bartonella clarridgeiae 73  
Bartonella henselae Houston-1  
Bartonella grahamii as4aup  
Bartonella quintana Toulouse  
Bartonella bacilliformis KC583  
Xanthobacter Xanthobacter autotrophicus Py2  
Azorhizobium Azorhizobium caulinodans ORS 571  
Starkeya Starkeya novella DSM 506  
Methylobacterium Methylobacterium chloromethanicum CM4  
Methylobacterium extorquens PA1  
Methylobacterium sp. 4-46  
Methylobacterium populi BJ001  
Methylobacterium nodulans ORS 2060  
Methylobacterium radiotolerans JCM 2831  
Beijerinckia Beijerinckia indica ssp. indica ATCC 9039  
Methylocella Methylocella silvestris BL2  
Hyphomicrobium Hyphomicrobium denitrificans ATCC 51888  
Rhodomicrobium Rhodomicrobium vannielii ATCC 17100  
Hodgkinia Candidatus Hodgkinia cicadicola Dsem  
Caulobacter Caulobacter sp. K31  
Caulobacter segnis ATCC 21756  
Phenylobacterium Phenylobacterium zucineum HLK1  
Brevundimonas Brevundimonas subvibrioides ATCC 15264  
Asticcacaulis Asticcacaulis excentricus CB 48  
Ruegeria Ruegeria sp. TM1040  
Ruegeria pomeroyi DSS-3  
Rhodobacter Rhodobacter sphaeroides 2.4.1  
Rhodobacter capsulatus SB 1003  
Jannaschia Jannaschia sp. CCS1  
Roseobacter Roseobacter denitrificans OCh 114  
Paracoccus Paracoccus denitrificans PD1222  
Dinoroseobacter Dinoroseobacter shibae DFL 12  
Ketogulonicigenium Ketogulonicigenium vulgare Y25  
Maricaulis Maricaulis maris MCS10  
Hyphomonas Hyphomonas neptunium ATCC 15444  
Hirschia Hirschia baltica ATCC 49814  
Zymomonas Zymomonas mobilis ssp. mobilis ZM4  
Novosphingobium Novosphingobium sp. PP1Y  
Novosphingobium aromaticivorans DSM 12444  
Sphingopyxis Sphingopyxis alaskensis RB2256  
Sphingomonas Sphingomonas wittichii RW1  
Sphingobium Sphingobium japonicum UT26S  
Sphingobium chlorophenolicum L-1  
Erythrobacter Erythrobacter litoralis HTCC2594  
Gluconobacter Gluconobacter oxydans 621H  
Granulobacter Granulibacter bethesdensis CGDNIH1  
Acidiphilium Acidiphilium multivorum AIU301  
Acidiphilium cryptum JF-5  
Gluconacetobacter Gluconacetobacter diazotrophicus PAl 5  
Acetobacter Acetobacter pasteurianus IFO 3283-01  
Rhodospirillum Rhodospirillum centenum SW  
Rhodospirillum rubrum ATCC 11170  
Magnetospirillum Magnetospirillum magneticum AMB-1  
Azospirillum Azospirillum sp. B510  
Parvularcula Parvularcula bermudensis HTCC2503  
Unclassified Alphaproteobacter Polymorphum gilvum SL003B-26A1  
Candidatus Puniceispirillum marinum IMCC1322  
Chrysiogenetes Desulfurispirillum Desulfurispirillum indicum S5  
Firmicutes Bacillus Bacillus atrophaeus 1942  
Bacillus subtilis ssp. subtilis 168  
Bacillus licheniformis ATCC 14580  
Bacillus amyloliquefaciens FZB42  
Bacillus halodurans C-125  
Bacillus weihenstephanensis KBAB4  
Bacillus thuringiensis ser. konkukian 97-27  
Bacillus thuringiensis BMB171  
Bacillus cereus biov. anthracis CI  
Bacillus cereus ATCC 14579  
Bacillus selenitireducens MLS10  
Bacillus pseudofirmus OF4  
Bacillus clausii KSM-K16  
Bacillus cellulosilyticus DSM 2522  
Bacillus pumilus SAFR-032  
Bacillus megaterium QM B1551  
Oceanobacillus Oceanobacillus iheyensis HTE831  
Geobacillus Geobacillus sp. C56-T3  
Geobacillus sp. WCH70  
Geobacillus thermodenitrificans NG80-2  
Geobacillus kaustophilus HTA426  
Anoxybacillus Anoxybacillus flavithermus WK1  
Staphylococcus Staphylococcus pseudintermedius HKU10-03  
Staphylococcus saprophyticus ssp. saprophyticus ATCC 15305  
Staphylococcus lugdunensis HKU09-01  
Staphylococcus haemolyticus JCSC1435  
Staphylococcus epidermidis RP62A  
Staphylococcus carnosus ssp. carnosus TM300  
Staphylococcus aureus ssp. aureus NCTC 8325  
Listeria Listeria welshimeri ser. 6b SLCC5334  
Listeria innocua Clip11262  
Listeria seeligeri ser. 1/2b SLCC3954  
Listeria monocytogenes EGD-e  
Lysinibacillus Lysinibacillus sphaericus C3-41  
Exiguobacterium Exiguobacterium sp. AT1b  
Exiguobacterium sibiricum 255-15  
Macrococcus Macrococcus caseolyticus JCSC5402  
Brevibacillus Brevibacillus brevis NBRC 100599  
Paenibacillus Paenibacillus sp. JDR-2  
Paenibacillus polymyxa SC2  
Paenibacillus polymyxa E681  
Alicyclobacillus Alicyclobacillus acidocaldarius ssp. acidocaldarius DSM 446  
Unclassified Alicyclobacillace Bacillus tusciae DSM 2912  
Lactococcus Lactococcus lactis ssp. lactis Il1403  
Streptococcus Streptococcus gallolyticus UCN34  
Streptococcus pasteurianus ATCC 43144  
Streptococcus dysgalactiae ssp. equisimilis GGS_124  
Streptococcus mitis B6  
Streptococcus uberis 0140J  
Streptococcus parauberis KCTC 11537  
Streptococcus pyogenes M1 GAS  
Streptococcus pneumoniae TCH8431/19A  
Streptococcus pneumoniae TIGR4  
Streptococcus agalactiae NEM316  
Streptococcus mutans UA159  
Streptococcus thermophilus LMG 18311  
Streptococcus suis 05ZYH33  
Streptococcus sanguinis SK36  
Streptococcus oralis Uo5  
Streptococcus gordonii Challis subCH1  
Lactobacillus Lactobacillus casei Zhang  
Lactobacillus casei ATCC 334  
Lactobacillus kefiranofaciens ZW3  
Lactobacillus crispatus ST1  
Lactobacillus rhamnosus GG  
Lactobacillus johnsonii NCC 533  
Lactobacillus salivarius UCC118  
Lactobacillus fermentum IFO 3956  
Lactobacillus amylovorus GRL 1112  
Lactobacillus sakei ssp. sakei 23K  
Lactobacillus reuteri DSM 20016  
Lactobacillus gasseri ATCC 33323  
Lactobacillus plantarum WCFS1  
Lactobacillus helveticus DPC 4571  
Lactobacillus delbrueckii ssp. bulgaricus ATCC 11842  
Lactobacillus buchneri NRRL B-30929  
Lactobacillus brevis ATCC 367  
Lactobacillus acidophilus NCFM  
Pediococcus Pediococcus pentosaceus ATCC 25745  
Enterococcus Enterococcus faecalis V583  
Melissococcus Melissococcus plutonius ATCC 35311  
Oenococcus Oenococcus oeni PSU-1  
Leuconostoc Leuconostoc kimchii IMSNU 11154  
Leuconostoc gasicomitatum LMG 18811  
Leuconostoc citreum KM20  
Leuconostoc mesenteroides ssp. mesenteroides ATCC 8293  
Aerococcus Aerococcus urinae ACS-120-V-Col10a  
Carnobacterium Carnobacterium sp. 17-4  
Clostridium Clostridium saccharolyticum WM1  
Clostridium phytofermentans ISDg  
Clostridium novyi NT  
Clostridium ljungdahlii  
Clostridium kluyveri DSM 555  
Clostridium cellulolyticum H10  
Clostridium beijerinckii NCIMB 8052  
Clostridium thermocellum ATCC 27405  
Clostridium tetani E88  
Clostridium sticklandii DSM 519  
Clostridium perfringens 13  
Clostridium difficile 630  
Clostridium cellulovorans 743B  
Clostridium botulinum A ATCC 3502  
Clostridium acetobutylicum ATCC 824  
Alkaliphilus Alkaliphilus oremlandii OhILAs  
Alkaliphilus metalliredigens QYMF  
Symbiobacterium Symbiobacterium thermophilum IAM 14863  
Syntrophomonas Syntrophomonas wolfei ssp. wolfei Goettingen  
Syntrophothermus Syntrophothermus lipocalidus DSM 12680  
Veillonella Veillonella parvula DSM 2008  
Selenomonas Selenomonas sputigena ATCC 35185  
Acidaminococcus Acidaminococcus fermentans DSM 20731  
Desulfitobacterium Desulfitobacterium hafniense Y51  
Desulfotomaculum Desulfotomaculum carboxydivorans CO-1-SRB  
Desulfotomaculum reducens MI-1  
Desulfotomaculum acetoxidans DSM 771  
Desulfotomaculum kuznetsovii DSM 6115  
Desulfotomaculum ruminis DSM 2154  
Pelotomaculum Pelotomaculum thermopropionicum SI  
Desulforudis Candidatus Desulforudis audaxviator MP104C  
Thermincola Thermincola potens JR  
Syntrophobotulus Syntrophobotulus glycolicus DSM 8271  
Heliobacterium Heliobacterium modesticaldum Ice1  
Finegoldia Finegoldia magna ATCC 29328  
Anaerococcus Anaerococcus prevotii DSM 20548  
Eubacterium Eubacterium rectale ATCC 33656  
Eubacterium eligens ATCC 27750  
Eubacterium limosum KIST612  
Butyrivibrio Butyrivibrio proteoclasticus B316  
Cellulosilyticum Clostridium lentocellum DSM 5427  
Ethanoligenens Ethanoligenens harbinense YUAN-3  
Ruminococcus Ruminococcus albus 7  
Thermaerobacter Thermaerobacter marianensis DSM 12885  
Unclassified Clostridiales Clostridiales genomosp. BVAB3 UPII9-5  
Thermoanaerobacter Thermoanaerobacter mathranii ssp. mathranii A3  
Thermoanaerobacter pseudethanolicus ATCC 33223  
Thermoanaerobacter sp. X514  
Thermoanaerobacter italicus Ab9  
Thermoanaerobacter brockii ssp. finnii Ako-1  
Carboxydothermus Carboxydothermus hydrogenoformans Z-2901  
Tepidanaerobacter Tepidanaerobacter sp. Re1  
Moorella Moorella thermoacetica ATCC 39073  
Ammonifex Ammonifex degensii KC4  
Caldicellulosiruptor Caldicellulosiruptor obsidiansis OB47  
Caldicellulosiruptor kronotskyensis 2002  
Caldicellulosiruptor hydrothermalis 108  
Caldicellulosiruptor owensensis OL  
Caldicellulosiruptor kristjanssonii 177R1B  
Caldicellulosiruptor saccharolyticus DSM 8903  
Anaerocellum thermophilum DSM 6725  
Thermosediminibacter Thermosediminibacter oceani DSM 16646  
Thermoanaerobacterium Thermoanaerobacterium xylanolyticum LX-11  
Thermoanaerobacterium thermosaccharolyticum DSM 571  
Coprothermobacter Coprothermobacter proteolyticus DSM 5265  
Thermodesulfobium Thermodesulfobium narugense DSM 14796  
Mahella Mahella australiensis 50-1 BON  
Natranaerobius Natranaerobius thermophilus JW/NM-WN-LF  
Halothermothrix Halothermothrix orenii H 168  
Halanaerobium Halanaerobium sp. sapolanicus  
Acetohalobium Acetohalobium arabaticum DSM 5501  
Firmicutes/Others Erysipelothrix rhusiopathiae Fujisawa  
Thermoanaerobacter tengcongensis MB4  
Tenericutes Mycoplasma Mycoplasma leachii PG50  
Mycoplasma mycoides ssp. mycoides SC PG1  
Mycoplasma capricolum ssp. capricolum ATCC 27343  
Mycoplasma suis Illinois  
Mycoplasma suis KI3806  
Mycoplasma crocodyli MP145  
Mycoplasma conjunctivae HRC/581  
Mycoplasma haemofelis Langford 1  
Mycoplasma bovis PG45  
Mycoplasma penetrans HF-2  
Mycoplasma mobile 163K  
Mycoplasma fermentans M64  
Mycoplasma fermentans JER  
Mycoplasma arthritidis 158L3-1  
Mycoplasma agalactiae PG2  
Mycoplasma agalactiae  
Mycoplasma synoviae 53  
Mycoplasma pulmonis UAB CTIP  
Mycoplasma pneumoniae M129  
Mycoplasma hyorhinis str. HUB-1  
Mycoplasma hyopneumoniae 232  
Mycoplasma hominis  
Mycoplasma genitalium G37  
Mycoplasma gallisepticum R(low)  
Ureaplasma Ureaplasma parvum ser. 3 ATCC 700970  
Ureaplasma urealyticum ser. 10 ATCC 33699  
Phytoplasma Candidatus Phytoplasma mali  
Aster yellows witches-broom phytoplasma AYWB  
Onion yellows phytoplasma OY-M  
Acholeplasma Acholeplasma laidlawii PG-8A  
Mesoplasma Mesoplasma florum L1  
Actinobacteria Mycobacterium Mycobacterium abscessus ATCC 19977  
Mycobacterium sp. MCS  
Mycobacterium avium ssp. paratuberculosis K-10  
Mycobacterium vanbaalenii PYR-1  
Mycobacterium tuberculosis H37Rv  
Mycobacterium bovis AF2122/97  
Mycobacterium ulcerans Agy99  
Mycobacterium gilvum PYR-GCK  
Mycobacterium marinum M  
Mycobacterium smegmatis MC2 155  
Mycobacterium leprae TN  
Amycolicicoccus Amycolicicoccus subflavus DQS3-9A1  
Corynebacterium Corynebacterium aurimucosum ATCC 700975  
Corynebacterium kroppenstedtii DSM 44385  
Corynebacterium efficiens YS-314  
Corynebacterium urealyticum DSM 7109  
Corynebacterium jeikeium K411  
Corynebacterium pseudotuberculosis FRC41  
Corynebacterium diphtheriae NCTC 13129  
Nocardia Nocardia farcinica IFM 10152  
Rhodococcus Rhodococcus jostii RHA1  
Rhodococcus equi 103S  
Rhodococcus opacus B4  
Rhodococcus erythropolis PR4  
Gordonia Gordonia bronchialis DSM 43247  
Tsukamurella Tsukamurella paurometabola DSM 20162  
Segniliparus Segniliparus rotundus DSM 44985  
Streptomyces Streptomyces griseus ssp. griseus NBRC 13350  
Streptomyces avermitilis MA-4680  
Streptomyces scabiei 87.22  
Streptomyces coelicolor  
Tropheryma Tropheryma whipplei Twist  
Leifsonia Leifsonia xyli ssp. xyli CTCB07  
Clavibacter Clavibacter michiganensis ssp. michiganensis NCPPB 382  
Microbacterium Microbacterium testaceum StLB037  
Arthrobacter Arthrobacter phenanthrenivorans Sphe3  
Arthrobacter sp. FB24  
Arthrobacter arilaitensis Re117  
Arthrobacter chlorophenolicus A6  
Arthrobacter aurescens TC1  
Renibacterium Renibacterium salmoninarum ATCC 33209  
Kocuria Kocuria rhizophila DC2201  
Micrococcus Micrococcus luteus NCTC 2665  
Rothia Rothia mucilaginosa DY-18  
Rothia dentocariosa ATCC 17931  
Beutenbergia Beutenbergia cavernae DSM 12333  
Brachybacterium Brachybacterium faecium DSM 4810  
Jonesia Jonesia denitrificans DSM 20603  
Kytococcus Kytococcus sedentarius DSM 20547  
Xylanimonas Xylanimonas cellulosilytica DSM 15894  
Isoptericola Isoptericola variabilis 225  
Sanguibacter Sanguibacter keddieii DSM 10542  
Cellulomonas Cellulomonas flavigena DSM 20109  
Cellulomonas fimi ATCC 484  
Intrasporangium Intrasporangium calvum DSM 43043  
Propionibacterium Propionibacterium acnes KPA171202  
Propionibacterium freudenreichii ssp. shermanii CIRM-BIA1  
Nocardioides Nocardioides sp. JS614  
Kribbella Kribbella flavida DSM 17836  
Thermobifida Thermobifida fusca YX  
Nocardiopsis Nocardiopsis dassonvillei ssp. dassonvillei DSM 43111  
Thermomonospora Thermomonospora curvata DSM 43183  
Streptosporangium Streptosporangium roseum DSM 43021  
Frankia Frankia sp. CcI3  
Frankia alni ACN14a  
Acidothermus Acidothermus cellulolyticus 11B  
Nakamurella Nakamurella multipartita DSM 44233  
Geodermatophilus Geodermatophilus obscurus DSM 43160  
Kineococcus Kineococcus radiotolerans SRS30216  
Saccharopolyspora Saccharopolyspora erythraea NRRL 2338  
Saccharomonospora Saccharomonospora viridis DSM 43017  
Thermobispora Thermobispora bispora DSM 43833  
Amycolatopsis Amycolatopsis mediterranei U32  
Pseudonocardia Pseudonocardia dioxanivorans CB1190  
Actinosynnema Actinosynnema mirum DSM 43827  
Salinispora Salinispora arenicola CNS-205  
Salinispora tropica CNB-440  
Micromonospora Micromonospora sp. L5  
Micromonospora aurantiaca ATCC 27029  
Verrucosispora Verrucosispora maris AB-18-032  
Catenulispora Catenulispora acidiphila DSM 44928  
Stackebrandtia Stackebrandtia nassauensis DSM 44728  
Arcanobacterium Arcanobacterium haemolyticum DSM 20595  
Mobiluncus Mobiluncus curtisii ATCC 43063  
Bifidobacterium Bifidobacterium longum NCC2705  
Bifidobacterium animalis ssp. lactis AD011  
Bifidobacterium dentium Bd1  
Bifidobacterium bifidum S17  
Bifidobacterium bifidum PRL2010  
Bifidobacterium adolescentis ATCC 15703  
Gardnerella Gardnerella vaginalis 409-05  
Rubrobacter Rubrobacter xylanophilus DSM 9941  
Conexibacter Conexibacter woesei DSM 14684  
Acidimicrobium Acidimicrobium ferrooxidans DSM 10331  
Cryptobacterium Cryptobacterium curtum DSM 15641  
Slackia Slackia heliotrinireducens DSM 20476  
Atopobium Atopobium parvulum DSM 20469  
Eggerthella Eggerthella lenta DSM 2243  
Olsenella Olsenella uli DSM 7084  
Coriobacterium Coriobacterium glomerans PW2  
Actinobacteria/Others Actinomyces sp. F0330  
Chlamydiae Chlamydia Chlamydophila pecorum E58  
Chlamydia muridarum Nigg  
Chlamydophila pneumoniae TW-183  
Chlamydophila psittaci 6BC  
Chlamydia trachomatis D/UW-3/CX  
Chlamydophila Chlamydophila caviae GPIC  
Chlamydophila felis Fe/C-56  
Chlamydophila abortus S26/3  
Protochlamydia Candidatus Protochlamydia amoebophila UWE25  
Waddlia Waddlia chondrophila WSU 86-1044  
Spirochaetes Borrelia Borrelia garinii PBi  
Borrelia afzelii PKo  
Borrelia burgdorferi B31  
Borrelia recurrentis A1  
Borrelia duttonii Ly  
Borrelia turicatae 91E135  
Borrelia hermsii DAH  
Treponema Treponema azotonutricium ZAS-9  
Treponema primitia ZAS-2  
Treponema brennaborense DSM 12168  
Treponema succinifaciens DSM 2489  
Treponema pallidum ssp. pallidum Nichols  
Treponema denticola ATCC 35405  
Spirochaeta Spirochaeta coccoides DSM 17374  
Spirochaeta sp. Buddy  
Spirochaeta smaragdinae DSM 11293  
Spirochaeta thermophila DSM 6192  
Leptospira Leptospira borgpetersenii ser. Hardjo-bovis L550  
Leptospira interrogans ser. Lai 56601  
Leptospira biflexa ser. Patoc Patoc 1 (Paris)  
Brachyspira Brachyspira murdochii DSM 12563  
Brachyspira pilosicoli 95/1000  
Brachyspira hyodysenteriae WA1  
Acidobacteria Koribacter Candidatus Koribacter versatilis Ellin345  
Acidobacterium Acidobacterium sp. MP5ACTX9  
Acidobacterium capsulatum ATCC 51196  
Terriglobus Terriglobus saanensis SP1PR4  
Solibacter Candidatus Solibacter usitatus Ellin6076  
Bacteroidetes Bacteroides Bacteroides salanitronis DSM 18170  
Bacteroides helcogenes P 36-108  
Bacteroides vulgatus ATCC 8482  
Bacteroides thetaiotaomicron VPI-5482  
Bacteroides fragilis NCTC 9343  
Porphyromonas Porphyromonas asaccharolytica DSM 20707  
Porphyromonas gingivalis W83  
Parabacteroides Parabacteroides distasonis ATCC 8503  
Paludibacter Paludibacter propionicigenes WB4  
Odoribacter Odoribacter splanchnicus DSM 20712  
Prevotella Prevotella melaninogenica ATCC 25845  
Prevotella denticola F0289  
Prevotella ruminicola 23  
Salinibacter Salinibacter ruber  
Rhodothermus Rhodothermus marinus DSM 4252  
Chitinophaga Chitinophaga pinensis DSM 2588  
Pedobacter Pedobacter saltans DSM 12145  
Pedobacter heparinus DSM 2366  
Sphingobacterium Sphingobacterium sp. 21  
Haliscomenobacter Haliscomenobacter hydrossis DSM 1100  
Cytophaga Cytophaga hutchinsonii ATCC 33406  
Dyadobacter Dyadobacter fermentans DSM 18053  
Spirosoma Spirosoma linguale DSM 74  
Leadbetterella Leadbetterella byssophila DSM 17132  
Marivirga Marivirga tractuosa DSM 4126  
Gramella Gramella forsetii KT0803  
Flavobacterium Flavobacterium psychrophilum JIP02/86  
Flavobacterium johnsoniae UW101  
Capnocytophaga Capnocytophaga ochracea DSM 7271  
Robiginitalea Robiginitalea biformata HTCC2501  
Zunongwangia Zunongwangia profunda SM-A87  
Croceibacter Croceibacter atlanticus HTCC2559  
Riemerella Riemerella anatipestifer DSM 15868  
Maribacter Maribacter sp. HTCC2170  
Cellulophaga Cellulophaga algicola DSM 14237  
Cellulophaga lytica DSM 7489  
Weeksella Weeksella virosa DSM 16922  
Krokinobacter Krokinobacter sp. 4H-3-7-5  
Unclassified Flavobacteriaceae Flavobacteriaceae bacterium 3519-10  
Sulcia Candidatus Sulcia muelleri GWSS  
Blattabacterium Blattabacterium sp. Bge  
Fluviicola Fluviicola taffensis DSM 16823  
Amoebophilus Candidatus Amoebophilus asiaticus 5a2  
Bacteroidetes/Others Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2  
Fibrobacteres Fibrobacter Fibrobacter succinogenes ssp. succinogenes S85  
Fusobacteria Fusobacterium Fusobacterium nucleatum ssp. nucleatum ATCC 25586  
Leptotrichia Leptotrichia buccalis C-1013-b  
Sebaldella Sebaldella termitidis ATCC 33386  
Streptobacillus Streptobacillus moniliformis DSM 12112  
Ilyobacter Ilyobacter polytropus DSM 2926  
Verrucomicrobia Opitutus Opitutus terrae PB90-1  
Coraliomargarita Coraliomargarita akajimensis DSM 45221  
Methylacidiphilum Methylacidiphilum infernorum V4  
Akkermansia Akkermansia muciniphila ATCC BAA-835  
Gemmatimonadetes Gemmatimonas Gemmatimonas aurantiaca T-27  
Planctomycetes Rhodopirellula Rhodopirellula baltica SH 1  
Pirellula Pirellula staleyi DSM 6068  
Planctomyces Planctomyces limnophilus DSM 3776  
Planctomyces brasiliensis DSM 5305  
Isosphaera Isosphaera pallida ATCC 43644  
Elusimicrobia Elusimicrobium Elusimicrobium minutum Pei191  
Termite group 1 uncultured Termite group 1 bacterium phylotype Rs-D17  
Synergistetes Thermanaerovibrio Thermanaerovibrio acidaminovorans DSM 6589  
Aminobacterium Aminobacterium colombiense DSM 12261  
Cyanobacteria Synechocystis Synechocystis sp. PCC 6803  
Synechococcus Synechococcus elongatus PCC 6301  
Thermosynechococcus Thermosynechococcus elongatus BP-1  
Microcystis Microcystis aeruginosa NIES-843  
Cyanothece Cyanothece sp. ATCC 51142  
Unclassified Chroococcales cyanobacterium UCYN-A  
Gloeobacter Gloeobacter violaceus PCC 7421  
Nostoc Nostoc punctiforme PCC 73102  
Nostoc sp. PCC 7120  
Prochlorococcus Prochlorococcus marinus MIT 9313  
Trichodesmium Trichodesmium erythraeum IMS101  
Acaryochloris Acaryochloris marina MBIC11017  
Cyanobacteria/Others Nostoc azollae 0708  
Anabaena variabilis ATCC 29413  
Green sulfur bacteria Chlorobaculum Chlorobaculum parvum NCIB 8327  
Chlorobium tepidum TLS  
Chlorobium Chlorobium chlorochromatii CaD3  
Chlorobium phaeobacteroides DSM 266  
Chlorobium phaeovibrioides DSM 265  
Chlorobium limicola DSM 245  
Pelodictyon Pelodictyon phaeoclathratiforme BU-1  
Chlorobium luteolum DSM 273  
Prosthecochloris Prosthecochloris aestuarii DSM 271  
Chloroherpeton Chloroherpeton thalassium ATCC 35110  
Green nonsulfur bacteria Dehalococcoides Dehalococcoides sp. CBDB1  
Dehalococcoides ethenogenes 195  
Dehalogenimonas Dehalogenimonas lykanthroporepellens BL-DC-9  
Roseiflexus Roseiflexus sp. RS-1  
Roseiflexus castenholzii DSM 13941  
Chloroflexus Chloroflexus sp. Y-400-fl  
Chloroflexus aggregans DSM 9485  
Chloroflexus aurantiacus J-10-fl  
Herpetosiphon Herpetosiphon aurantiacus ATCC 23779  
Thermomicrobium Thermomicrobium roseum DSM 5159  
Sphaerobacterineae Sphaerobacter thermophilus DSM 20745  
Anaerolinea Anaerolinea thermophila UNI-1  
Deinococcus-Thermus Deinococcus Deinococcus deserti VCD115  
Deinococcus maricopensis DSM 21211  
Deinococcus geothermalis DSM 11300  
Deinococcus proteolyticus MRP  
Deinococcus radiodurans R1  
Truepera Truepera radiovictrix DSM 17093  
Thermus Thermus scotoductus SA-01  
Thermus thermophilus HB27  
Meiothermus Meiothermus silvanus DSM 9946  
Meiothermus ruber DSM 1279  
Oceanithermus Oceanithermus profundus DSM 14977  
Marinithermus Marinithermus hydrothermalis DSM 14884  
Hyperthermophilic bacteria Aquifex Aquifex aeolicus VF5  
Hydrogenobaculum Hydrogenobaculum sp. Y04AAS1  
Hydrogenobacter Hydrogenobacter thermophilus TK-6  
Thermocrinis Thermocrinis albus DSM 14484  
Sulfurihydrogenibium Sulfurihydrogenibium sp. YO3AOP1  
Sulfurihydrogenibium azorense Az-Fu1  
Persephonella Persephonella marina EX-H1  
Thermovibrio Thermovibrio ammonificans HB-1  
Desulfurobacterium Desulfurobacterium thermolithotrophum DSM 11699  
Thermotoga Thermotoga lettingae TMO  
Thermotoga sp. RQ2  
Thermotoga naphthophila RKU-10  
Thermotoga petrophila RKU-1  
Thermotoga neapolitana DSM 4359  
Thermotoga maritima MSB8  
Thermosipho Thermosipho melanesiensis BI429  
Thermosipho africanus TCF52B  
Fervidobacterium Fervidobacterium nodosum Rt17-B1  
Petrotoga Petrotoga mobilis SJ95  
Kosmotoga Kosmotoga olearia TBF 19.5.1  
Dictyoglomus Dictyoglomus turgidum DSM 6724  
Dictyoglomus thermophilum H-6-12  
Thermodesulfovibrio Thermodesulfovibrio yellowstonii DSM 11347  
Nitrospira Candidatus Nitrospira defluvii  
Thermobaculum Thermobaculum terrenum ATCC BAA-798  
Deferribacter Deferribacter desulfuricans SSM1  
Denitrovibrio Denitrovibrio acetiphilus DSM 12809  
Calditerrivibrio Calditerrivibrio nitroreducens DSM 19672  
Bacteria/Others Candidatus Cloacamonas acidaminovorans  
Magnetococcus sp. MC-1  
Archaea Euryarchaeota Methanocaldococcus Methanocaldococcus sp. FS406-22  
Methanocaldococcus fervens AG86  
Methanocaldococcus vulcanius M7  
Methanocaldococcus infernus ME  
Methanocaldococcus jannaschii DSM 2661  
Methanotorris Methanotorris igneus Kol 5  
Methanococcus Methanococcus aeolicus Nankai-3  
Methanococcus maripaludis S2  
Methanococcus voltae A3  
Methanococcus vannielii SB  
Methanosarcina Methanosarcina acetivorans C2A  
Methanosarcina mazei Go1  
Methanosarcina barkeri Fusaro  
Methanococcoides Methanococcoides burtonii DSM 6242  
Methanohalophilus Methanohalophilus mahii DSM 5219  
Methanohalobium Methanohalobium evestigatum Z-7303  
Methanosaeta Methanosaeta thermophila PT  
Methanosaeta concilii GP-6  
Methanospirillum Methanospirillum hungatei JF-1  
Methanocorpusculum Methanocorpusculum labreanum Z  
Methanoculleus Methanoculleus marisnigri JR1  
Methanoplanus Methanoplanus petrolearius DSM 11571  
Methanoregula Candidatus Methanoregula boonei 6A8  
Methanosphaerula Methanosphaerula palustris E1-9c  
Methanocella Methanocella paludicola SANAE  
Methanothermobacter Methanothermobacter marburgensis Marburg  
Methanothermobacter thermautotrophicus Delta H  
Methanosphaera Methanosphaera stadtmanae DSM 3091  
Methanobrevibacter Methanobrevibacter ruminantium M1  
Methanobrevibacter smithii ATCC 35061  
Methanobacterium Methanobacterium sp. AL-21  
Methanobacterium sp. SWAN-1  
Methanothermus Methanothermus fervidus DSM 2088  
Methanopyrus Methanopyrus kandleri AV19  
Archaeoglobus Archaeoglobus profundus DSM 5631  
Archaeoglobus veneficus SNP6  
Archaeoglobus fulgidus DSM 4304  
Ferroglobus Ferroglobus placidus DSM 10642  
Halobacterium Halobacterium salinarum R1  
Halobacterium sp. NRC-1  
Haloarcula Haloarcula marismortui ATCC 43049  
Haloquadratum Haloquadratum walsbyi DSM 16790  
Natronomonas Natronomonas pharaonis DSM 2160  
Halorubrum Halorubrum lacusprofundi ATCC 49239  
Halorhabdus Halorhabdus utahensis DSM 12940  
Halomicrobium Halomicrobium mukohataei DSM 12286  
Haloterrigena Haloterrigena turkmenica DSM 5511  
Natrialba Natrialba magadii ATCC 43099  
Haloferax Haloferax volcanii DS2  
Halalkalicoccus Halalkalicoccus jeotgali B3  
Halogeometricum Halogeometricum borinquense DSM 11551  
Thermoplasma Thermoplasma volcanium GSS1  
Thermoplasma acidophilum DSM 1728  
Picrophilus Picrophilus torridus DSM 9790  
Pyrococcus Pyrococcus sp. NA2  
Pyrococcus horikoshii OT3  
Pyrococcus abyssi GE5  
Pyrococcus furiosus DSM 3638  
Thermococcus Thermococcus onnurineus NA1  
Thermococcus kodakarensis KOD1  
Thermococcus gammatolerans EJ3  
Thermococcus sibiricus MM 739  
Thermococcus barophilus MP  
Aciduliprofundum Aciduliprofundum boonei T469  
Euryarchaeota/Others uncultured methanogenic archaeon RC-I  
Crenarchaeota Aeropyrum Aeropyrum pernix K1  
Staphylothermus Staphylothermus hellenicus DSM 12710  
Staphylothermus marinus F1  
Ignicoccus Ignicoccus hospitalis KIN4/I  
Desulfurococcus Desulfurococcus kamchatkensis 1221n  
Desulfurococcus mucosus DSM 2162  
Thermosphaera Thermosphaera aggregans DSM 11486  
Ignisphaera Ignisphaera aggregans DSM 17230  
Hyperthermus Hyperthermus butylicus DSM 5456  
Sulfolobus Sulfolobus tokodaii 7  
Sulfolobus islandicus Y.N.15.51  
Sulfolobus solfataricus P2  
Sulfolobus acidocaldarius DSM 639  
Metallosphaera Metallosphaera cuprina Ar-4  
Metallosphaera sedula DSM 5348  
Acidianus Acidianus hospitalis W1  
Pyrobaculum Pyrobaculum calidifontis JCM 11548  
Pyrobaculum arsenaticum DSM 13514  
Pyrobaculum aerophilum IM2  
Pyrobaculum islandicum DSM 4184  
Caldivirga Caldivirga maquilingensis IC-167  
Thermoproteus Thermoproteus uzoniensis 768-20  
Thermoproteus neutrophilus V24Sta  
Vulcanisaeta Vulcanisaeta moutnovskia 768-28  
Vulcanisaeta distributa DSM 14429  
Thermofilum Thermofilum pendens Hrk 5  
Acidilobus Acidilobus saccharovorans 345-15  
Thaumarchaeota Nitrosopumilus Nitrosopumilus maritimus SCM1  
Cenarchaeum Cenarchaeum symbiosum A  
Nanoarchaeota Nanoarchaeum Nanoarchaeum equitans Kin4-M  
Korarchaeota Korarchaeum Candidatus Korarchaeum cryptofilum OPF8  

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Eukaryote strains/versions
Category Organism
Animals Vertebrates Amphibians Updated Xenopus (Silurana) tropicalis v7.1 (annotation v7.2)   (Western clawed frog)  
Arthropods Insects Drosophila melanogaster FlyBase 5.12   (Fruit fly)  
Anopheles gambiae VectorBase AgamP3.6   (African malaria mosquito)  
Nematodes New genome Ascaris suum Victoria/Ghent   (Pig roundworm)  
Caenorhabditis elegans WormBase WS218   (Nematode)  
Plants Eudicots Mallow family Theobroma cacao B97-61/B2   (Cocoa)  
Monocots Grass family Oryza sativa ssp. Indica   (Indian rice)  
Fungi Ascomycetes Saccharomycetes Candida albicans WO-1  
Saccharomyces cerevisiae UC5  
Saccharomyces cerevisiae PW5  
Saccharomyces cerevisiae FL100  
Saccharomyces cerevisiae CLIB382  
Saccharomyces cerevisiae CLIB324  
Saccharomyces cerevisiae CBS7960  
Saccharomyces cerevisiae YJM269  
Saccharomyces cerevisiae T7  
Saccharomyces cerevisiae FostersB  
Saccharomyces cerevisiae FostersO  
Saccharomyces cerevisiae VL3  
Saccharomyces cerevisiae Vin13  
Saccharomyces cerevisiae LalvinQA23  
Saccharomyces cerevisiae AWRI796  
Saccharomyces cerevisiae Sigma1278b  
Saccharomyces cerevisiae W303  
Saccharomyces cerevisiae JAY291  
Saccharomyces cerevisiae AWRI1631  
Saccharomyces cerevisiae YPS163  
Saccharomyces cerevisiae M22  
Saccharomyces cerevisiae T73  
Saccharomyces cerevisiae CLIB215  
Saccharomyces cerevisiae Y10  
Saccharomyces cerevisiae YJM789  
Saccharomyces cerevisiae YJM789  
Saccharomyces cerevisiae RM11-1a  
Saccharomyces cerevisiae RM11-1a  
Saccharomyces cerevisiae SGD   (Brewer's yeast)  
Eurotiomycetes Ajellomyces dermatitidis ER-3  
Histoplasma capsulatum H143  
Histoplasma capsulatum H88  
Histoplasma capsulatum G186AR  
Paracoccidioides brasiliensis Pb01  
Paracoccidioides brasiliensis Pb03  
Coccidioides posadasii str. Silveira  
Coccidioides immitis RMSCC 3703  
Coccidioides immitis RMSCC 2394  
Coccidioides immitis H538.4  
Aspergillus fumigatus A1163  
Schizosaccharomycetes Schizosaccharomyces pombe 972h-  
Basidiomycetes Cryptococcus neoformans var. grubii H99  
Cryptococcus neoformans B-3501A  
Cryptococcus neoformans JEC21  
Chytridiomycetes Batrachochytrium dendrobatidis JEL423  
Batrachochytrium dendrobatidis JAM81  
Protists Alveolates Apicomplexans Plasmodium falciparum HB3  
Plasmodium falciparum Dd2  
Neospora caninum Nc-Liverpool 6.2  

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Prokaryote strains
Category Organism
Bacteria Gammaproteobacteria Escherichia Escherichia coli BL21-Gold(DE3)pLysS AG  
Escherichia coli ED1a  
Escherichia coli IAI39  
Escherichia coli UMN026  
Escherichia coli 55989  
Escherichia coli S88  
Escherichia coli IAI1  
Escherichia coli ATCC 8739  
Escherichia coli SMS-3-5  
Escherichia coli SE11  
Escherichia coli APEC O1  
Escherichia coli O103:H2 12009  
Escherichia coli UTI89  
Escherichia coli 536  
Escherichia coli HS  
Escherichia coli E24377A  
Escherichia coli O55:H7 CB9615  
Escherichia coli O26:H11 11368  
Escherichia coli CFT073  
Escherichia coli O111:H- 11128  
Escherichia coli O127:H6 E2348/69  
Escherichia coli O157:H7 TW14359  
Escherichia coli O157:H7 EC4115  
Escherichia coli O157:H7 Sakai  
Escherichia coli O157:H7 EDL933  
Escherichia coli BW2952  
Escherichia coli K-12 subW3110  
Escherichia coli K-12 subDH10B  
Escherichia coli B REL606  
Salmonella Salmonella enterica ssp. arizonae ser. 62:z4,z23:--  
Salmonella enterica ssp. enterica ser. Schwarzengrund CVM19633  
Salmonella enterica ssp. enterica ser. Enteritidis P125109  
Salmonella enterica ssp. enterica ser. Choleraesuis str. SC-B67  
Salmonella enterica ssp. enterica ser. Newport SL254  
Salmonella enterica ssp. enterica ser. Dublin CT_02021853  
Salmonella enterica ssp. enterica ser. Typhimurium LT2  
Salmonella enterica ssp. enterica ser. Typhi CT18  
Salmonella enterica ssp. enterica ser. Typhi Ty2  
Salmonella enterica ssp. enterica ser. Agona SL483  
Salmonella enterica ssp. enterica ser. Paratyphi C RKS4594  
Salmonella enterica ssp. enterica ser. Paratyphi B SPB7  
Salmonella enterica ssp. enterica ser. Paratyphi A AKU_12601  
Salmonella enterica ssp. enterica ser. Paratyphi A ATCC 9150  
Salmonella enterica ssp. enterica ser. Heidelberg SL476  
Salmonella enterica ssp. enterica ser. Gallinarum 287/91  
Yersinia Yersinia pseudotuberculosis PB1/+  
Yersinia pseudotuberculosis YPIII  
Yersinia pseudotuberculosis IP 31758  
Yersinia pestis Z176003  
Yersinia pestis Pestoides F  
Yersinia pestis Nepal516  
Yersinia pestis Antiqua  
Yersinia pestis Angola  
Yersinia pestis biov. Microtus 91001  
Yersinia pestis KIM 10  
Yersinia enterocolitica ssp. palearctica 105.5R(r)  
Shigella Shigella flexneri 5 8401  
Shigella flexneri 2a 301  
Shigella boydii CDC 3083-94  
Erwinia Erwinia amylovora CFBP1430  
Buchnera Buchnera aphidicola Cc  
Buchnera aphidicola Bp  
Buchnera aphidicola Tuc7  
Buchnera aphidicola 5A  
Buchnera aphidicola APS  
Buchnera aphidicola Sg  
Enterobacter Enterobacter cloacae SCF1  
Cronobacter Cronobacter sakazakii ATCC BAA-894  
Klebsiella Klebsiella pneumoniae 342  
Klebsiella pneumoniae NTUH-K2044  
Blochmannia Candidatus Blochmannia vafer BVAF  
Candidatus Blochmannia pennsylvanicus BPEN  
Dickeya Dickeya dadantii Ech586  
Dickeya dadantii 3937  
Haemophilus Haemophilus influenzae F3047  
Haemophilus influenzae F3031  
Haemophilus influenzae PittGG  
Haemophilus influenzae PittEE  
Haemophilus influenzae 86-028NP  
Histophilus Haemophilus somnus 2336  
Actinobacillus Actinobacillus pleuropneumoniae ser. 3 JL03  
Actinobacillus pleuropneumoniae ser. 7 AP76  
Xylella Xylella fastidiosa M23  
Xylella fastidiosa M12  
Xylella fastidiosa Temecula1  
Xanthomonas Xanthomonas campestris pv. vesicatoria 85-10  
Xanthomonas oryzae pv. oryzae PXO99A  
Xanthomonas oryzae pv. oryzae MAFF 311018  
Xanthomonas campestris pv. campestris B100  
Xanthomonas campestris pv. campestris 8004  
Stenotrophomonas Stenotrophomonas maltophilia K279a  
Vibrio Vibrio vulnificus MO6-24/O  
Vibrio vulnificus CMCP6  
Vibrio cholerae M66-2  
Vibrio cholerae O395  
Vibrio cholerae MJ-1236  
Aliivibrio Vibrio fischeri MJ11  
Pseudomonas Pseudomonas syringae pv. phaseolicola 1448A  
Pseudomonas syringae pv. syringae B728a  
Pseudomonas putida W619  
Pseudomonas putida F1  
Pseudomonas putida GB-1  
Pseudomonas fluorescens SBW25  
Pseudomonas fluorescens Pf0-1  
Pseudomonas mendocina NK-01  
Pseudomonas aeruginosa LESB58  
Pseudomonas aeruginosa PA7  
Pseudomonas aeruginosa UCBPP-PA14  
Acinetobacter Acinetobacter genomosp. 13TU RUH2624  
Acinetobacter sp. SH024  
Acinetobacter calcoaceticus ruh2202  
Acinetobacter baumannii ATCC 19606  
Acinetobacter baumannii AB307-0294  
Acinetobacter baumannii AYE  
Acinetobacter baumannii SDF  
Acinetobacter baumannii AB0057  
Acinetobacter baumannii ACICU  
Acinetobacter radioresistens SH164  
Acinetobacter junii SH205  
Acinetobacter johnsonii SH046  
Acinetobacter lwoffii SH145  
Shewanella Shewanella sp. W3-18-1  
Shewanella sp. ANA-3  
Shewanella baltica OS223  
Shewanella baltica OS185  
Shewanella baltica OS195  
Shewanella sp. MR-4  
Coxiella Coxiella burnetii CbuK_Q154  
Coxiella burnetii CbuG_Q212  
Coxiella burnetii Dugway 5J108-111  
Coxiella burnetii RSA 331  
Legionella Legionella pneumophila Corby  
Legionella pneumophila Paris  
Legionella pneumophila Lens  
Francisella Francisella novicida U112  
Francisella tularensis ssp. mediasiatica FSC147  
Francisella tularensis ssp. holarctica FTNF002-00  
Francisella tularensis ssp. holarctica OSU18  
Francisella tularensis ssp. holarctica LVS  
Francisella tularensis ssp. holarctica  
Francisella tularensis ssp. tularensis WY96-3418  
Francisella tularensis ssp. tularensis FSC198  
Francisella tularensis ssp. tularensis SCHU S4  
Thioalkalivibrio Thioalkalivibrio sp. K90mix  
Acidithiobacillus Acidithiobacillus ferrooxidans ATCC 53993  
Betaproteobacteria Neisseria Neisseria meningitidis alpha14  
Neisseria meningitidis 053442  
Neisseria meningitidis FAM18  
Neisseria meningitidis MC58  
Neisseria gonorrhoeae NCCP11945  
Ralstonia Ralstonia pickettii 12D  
Ralstonia solanacearum MolK2  
Cupriavidus Ralstonia eutropha H16  
Burkholderia Burkholderia sp. CCGE1003  
Burkholderia sp. CCGE1002  
Burkholderia sp. CCGE1001  
Burkholderia pseudomallei MSHR346  
Burkholderia pseudomallei 1106a  
Burkholderia pseudomallei 668  
Burkholderia pseudomallei 1710b  
Burkholderia mallei NCTC 10229  
Burkholderia mallei NCTC 10247  
Burkholderia mallei SAVP1  
Burkholderia ambifaria MC40-6  
Burkholderia cenocepacia MC0-3  
Burkholderia cenocepacia HI2424  
Burkholderia cenocepacia J2315  
Burkholderia multivorans ATCC 17616  
Polynucleobacter Polynucleobacter necessarius ssp. necessarius STIR1  
Variovorax Variovorax paradoxus EPS  
Comamonas Comamonas testosteroni CNB-1  
Azoarcus Azoarcus sp. BH72  
Methylovorus Methylovorus sp. MP688  
Epsilonproteobacteria Helicobacter Helicobacter pylori PeCan4  
Helicobacter pylori SJM180  
Helicobacter pylori B38  
Helicobacter pylori P12  
Helicobacter pylori G27  
Helicobacter pylori Shi470  
Helicobacter pylori HPAG1  
Helicobacter pylori J99  
Sulfurimonas Sulfurimonas denitrificans DSM 1251  
Campylobacter Campylobacter jejuni RM1221  
Campylobacter jejuni ssp. jejuni ICDCCJ07001  
Campylobacter jejuni ssp. jejuni 81116  
Campylobacter jejuni ssp. jejuni 81-176  
Campylobacter jejuni ssp. doylei 269.97  
Deltaproteobacteria Geobacter Geobacter sp. M21  
Geobacter sp. M18  
Desulfovibrio Desulfovibrio vulgaris DP4  
Desulfovibrio vulgaris Miyazaki F  
Desulfovibrio desulfuricans ssp. desulfuricans ATCC 27774  
Desulfococcus Desulfococcus oleovorans Hxd3  
Anaeromyxobacter Anaeromyxobacter sp. K  
Anaeromyxobacter dehalogenans 2CP-1  
Alphaproteobacteria Rickettsia Rickettsia bellii OSU 85-389  
Rickettsia rickettsii Iowa  
Orientia Orientia tsutsugamushi Ikeda  
Anaplasma Anaplasma marginale Florida  
Ehrlichia Ehrlichia ruminantium Gardel  
Ehrlichia ruminantium Welgevonden  
Sinorhizobium Sinorhizobium meliloti AK83  
Rhizobium Rhizobium etli CIAT 652  
Rhizobium leguminosarum bv. trifolii WSM2304  
Rhizobium leguminosarum bv. trifolii WSM1325  
Liberibacter Candidatus Liberibacter solanacearum CLso-ZC1  
Brucella Brucella suis ATCC 23445  
Brucella melitensis ATCC 23457  
Brucella abortus S19  
Brucella melitensis biov. Abortus 2308  
Bradyrhizobium Bradyrhizobium sp. BTAi1  
Rhodopseudomonas Rhodopseudomonas palustris DX-1  
Rhodopseudomonas palustris TIE-1  
Rhodopseudomonas palustris HaA2  
Rhodopseudomonas palustris BisB5  
Rhodopseudomonas palustris BisB18  
Rhodopseudomonas palustris BisA53  
Methylobacterium Methylobacterium extorquens DM4  
Methylobacterium extorquens AM1  
Caulobacter Caulobacter crescentus NA1000  
Caulobacter crescentus CB15  
Rhodobacter Rhodobacter sphaeroides KD131  
Rhodobacter sphaeroides ATCC 17025  
Rhodobacter sphaeroides ATCC 17029  
Zymomonas Zymomonas mobilis ssp. mobilis NCIMB 11163  
Gluconacetobacter Gluconacetobacter diazotrophicus PAl 5  
Firmicutes Bacillus Bacillus subtilis BSn5  
Bacillus subtilis ssp. spizizenii W23  
Bacillus licheniformis ATCC 14580  
Bacillus amyloliquefaciens DSM 7  
Bacillus cytotoxicus NVH 391-98  
Bacillus thuringiensis Al Hakam  
Bacillus cereus 03BB102  
Bacillus cereus AH820  
Bacillus cereus AH187  
Bacillus cereus B4264  
Bacillus cereus G9842  
Bacillus cereus Q1  
Bacillus cereus E33L  
Bacillus cereus ATCC 10987  
Bacillus anthracis A0248  
Bacillus anthracis CDC 684  
Bacillus anthracis Ames Ancestor  
Bacillus anthracis Sterne  
Bacillus anthracis Ames  
Bacillus megaterium DSM319  
Geobacillus Geobacillus sp. Y4.1MC1  
Geobacillus sp. Y412MC52  
Geobacillus sp. Y412MC61  
Staphylococcus Staphylococcus epidermidis ATCC 12228  
Staphylococcus aureus RF122  
Staphylococcus aureus ssp. aureus ED98  
Staphylococcus aureus ssp. aureus Newman  
Staphylococcus aureus ssp. aureus Mu3  
Staphylococcus aureus ssp. aureus USA300_TCH1516  
Staphylococcus aureus ssp. aureus USA300_FPR3757  
Staphylococcus aureus ssp. aureus JH1  
Staphylococcus aureus ssp. aureus JH9  
Staphylococcus aureus ssp. aureus MSSA476  
Staphylococcus aureus ssp. aureus MRSA252  
Staphylococcus aureus ssp. aureus MW2  
Staphylococcus aureus ssp. aureus N315  
Staphylococcus aureus ssp. aureus Mu50  
Staphylococcus aureus ssp. aureus COL  
Listeria Listeria monocytogenes 08-5578  
Listeria monocytogenes 08-5923  
Listeria monocytogenes serotype 4b CLIP 80459  
Listeria monocytogenes HCC23  
Listeria monocytogenes serotype 4b F2365  
Listeria monocytogenes EGD-e  
Paenibacillus Geobacillus sp. Y412MC10  
Lactococcus Lactococcus lactis ssp. lactis KF147  
Lactococcus lactis ssp. cremoris MG1363  
Lactococcus lactis ssp. cremoris SK11  
Streptococcus Streptococcus gallolyticus ssp. gallolyticus ATCC BAA-2069  
Streptococcus equi ssp. equi 4047  
Streptococcus equi ssp. zooepidemicus MGCS10565  
Streptococcus equi ssp. zooepidemicus  
Streptococcus pyogenes MGAS10750  
Streptococcus pyogenes MGAS10270  
Streptococcus pyogenes MGAS2096  
Streptococcus pyogenes MGAS9429  
Streptococcus pyogenes MGAS6180  
Streptococcus pyogenes NZ131  
Streptococcus pyogenes MGAS8232  
Streptococcus pyogenes MGAS10394  
Streptococcus pyogenes Manfredo  
Streptococcus pyogenes MGAS315  
Streptococcus pyogenes SSI-1  
Streptococcus pyogenes MGAS5005  
Streptococcus pneumoniae AP200  
Streptococcus pneumoniae ATCC 700669  
Streptococcus pneumoniae CGSP14  
Streptococcus pneumoniae G54  
Streptococcus pneumoniae P1031  
Streptococcus pneumoniae JJA  
Streptococcus pneumoniae 70585  
Streptococcus pneumoniae Hungary19A-6  
Streptococcus pneumoniae Taiwan19F-14  
Streptococcus pneumoniae D39  
Streptococcus pneumoniae 670-6B  
Streptococcus pneumoniae R6  
Streptococcus agalactiae A909  
Streptococcus agalactiae 2603V/R  
Streptococcus mutans NN2025  
Streptococcus thermophilus LMD-9  
Streptococcus thermophilus CNRZ1066  
Streptococcus suis ST3  
Streptococcus suis BM407  
Streptococcus suis SC84  
Streptococcus suis 98HAH33  
Streptococcus suis P1/7  
Lactobacillus Lactobacillus casei BL23  
Lactobacillus rhamnosus Lc 705  
Lactobacillus johnsonii FI9785  
Lactobacillus reuteri JCM 1112  
Lactobacillus plantarum JDM1  
Lactobacillus plantarum ssp. plantarum ST-III  
Lactobacillus delbrueckii ssp. bulgaricus ND02  
Lactobacillus delbrueckii ssp. bulgaricus ATCC BAA-365  
Lactobacillus acidophilus 30SC  
Clostridium Clostridium ljungdahlii DSM 13528  
Clostridium kluyveri NBRC 12016  
Clostridium perfringens SM101  
Clostridium perfringens ATCC 13124  
Clostridium difficile R20291  
Clostridium difficile CD196  
Clostridium botulinum BKT015925  
Clostridium botulinum F Langeland  
Clostridium botulinum E3 Alaska E43  
Clostridium botulinum B1 Okra  
Clostridium botulinum Ba4 657  
Clostridium botulinum B Eklund 17B  
Clostridium botulinum A2 Kyoto  
Clostridium botulinum A3 Loch Maree  
Clostridium botulinum A Hall  
Clostridium botulinum A ATCC 19397  
Desulfitobacterium Desulfitobacterium hafniense DCB-2  
Thermoanaerobacter Thermoanaerobacter sp. X513  
Tenericutes Mycoplasma Mycoplasma mycoides ssp. capri LC 95010  
Mycoplasma hyopneumoniae 7448  
Mycoplasma hyopneumoniae J  
Ureaplasma Ureaplasma parvum ser. 3 ATCC 27815  
Ureaplasma parvum ser. 3 ATCC 700970  
Phytoplasma Candidatus Phytoplasma australiense  
Actinobacteria Mycobacterium Mycobacterium sp. JDM601  
Mycobacterium sp. Spyr1  
Mycobacterium sp. KMS  
Mycobacterium sp. JLS  
Mycobacterium avium 104  
Mycobacterium tuberculosis KZN 1435  
Mycobacterium tuberculosis H37Ra  
Mycobacterium tuberculosis F11  
Mycobacterium tuberculosis CDC1551  
Mycobacterium bovis BCG Tokyo 172  
Mycobacterium bovis BCG Pasteur 1173P2  
Mycobacterium leprae Br4923  
Corynebacterium Corynebacterium glutamicum R  
Corynebacterium glutamicum ATCC 13032 Kitasato  
Tropheryma Tropheryma whipplei TW08/27  
Clavibacter Clavibacter michiganensis ssp. sepedonicus  
Propionibacterium Propionibacterium acnes SK137  
Frankia Frankia sp. EuI1c  
Frankia sp. EAN1pec  
Bifidobacterium Bifidobacterium longum DJO10A  
Bifidobacterium longum ssp. infantis 157F  
Bifidobacterium longum ssp. infantis ATCC 15697  
Bifidobacterium longum ssp. longum BBMN68  
Bifidobacterium longum ssp. longum JDM301  
Bifidobacterium longum ssp. longum JCM 1217  
Bifidobacterium animalis ssp. lactis Bl-04  
Bifidobacterium animalis ssp. lactis DSM 10140  
Gardnerella Gardnerella vaginalis ATCC 14019  
Actinobacteria/Others Actinomyces graevenitzii C83  
Actinomyces odontolyticus ATCC 17982  
Actinomyces viscosus C505  
Chlamydiae Chlamydia Chlamydophila pneumoniae J138  
Chlamydophila pneumoniae CWL029  
Chlamydophila pneumoniae AR39  
Chlamydia trachomatis B/TZ1A828/OT  
Chlamydia trachomatis B/Jali20/OT  
Chlamydia trachomatis L2b/UCH-1/proctitis  
Chlamydia trachomatis 434/Bu  
Chlamydia trachomatis A/HAR-13  
Spirochaetes Borrelia Borrelia burgdorferi ZS7  
Treponema Treponema pallidum ssp. pallidum SS14  
Leptospira Leptospira borgpetersenii ser. Hardjo-bovis JB197  
Leptospira interrogans ser. Copenhageni Fiocruz L1-130  
Leptospira biflexa ser. Patoc Patoc 1 (Ames)  
Bacteroidetes Bacteroides Bacteroides fragilis YCH46  
Porphyromonas Porphyromonas gingivalis TDC60  
Porphyromonas gingivalis ATCC 33277  
Salinibacter Salinibacter ruber M8  
Salinibacter ruber DSM 13855  
Sulcia Candidatus Sulcia muelleri CARI  
Candidatus Sulcia muelleri DMIN  
Candidatus Sulcia muelleri SMDSEM  
Blattabacterium Blattabacterium sp. BPLAN  
Planctomycetes Rhodopirellula Rhodopirellula baltica SH 1  
Cyanobacteria Synechococcus Synechococcus sp. JA-2-3Ba(2-13)  
Synechococcus sp. JA-2-3Ba(2-13)  
Synechococcus sp. JA-3-3Ab  
Synechococcus sp. JA-3-3Ab  
Synechococcus sp. CC9902  
Synechococcus sp. RCC307  
Synechococcus sp. CC9605  
Synechococcus sp. WH 8102  
Synechococcus sp. CC9311  
Synechococcus sp. WH 7803  
Synechococcus sp. PCC 7002  
Synechococcus elongatus PCC 7942  
Cyanothece Cyanothece sp. PCC 7822  
Cyanothece sp. PCC 8802  
Cyanothece sp. PCC 7425  
Cyanothece sp. PCC 7424  
Cyanothece sp. PCC 8801  
Prochlorococcus Prochlorococcus marinus str. NATL1A  
Prochlorococcus marinus NATL1A  
Prochlorococcus marinus MIT 9301  
Prochlorococcus marinus str. MIT 9301  
Prochlorococcus marinus str. MIT 9515  
Prochlorococcus marinus MIT 9515  
Prochlorococcus marinus str. AS9601  
Prochlorococcus marinus AS9601  
Prochlorococcus marinus ssp. marinus CCMP1375  
Prochlorococcus marinussubsp. marinus str. CCMP1375  
Prochlorococcus marinus ssp. pastoris CCMP1986  
Prochlorococcus marinus ssp. pastoris CCMP1986  
Prochlorococcus marinus subsp. pastoris str. CCMP1986  
Prochlorococcus marinus MIT 9215  
Prochlorococcus marinus str. MIT 9215  
Prochlorococcus marinus MIT 9211  
Prochlorococcus marinus MIT 9312  
Prochlorococcus marinus str. MIT 9312  
Prochlorococcus marinus MIT 9303  
Prochlorococcus marinus str. MIT 9303  
Prochlorococcus marinus NATL2A  
Prochlorococcus marinus str. NATL2A  
Green sulfur bacteria Chlorobium Chlorobium phaeobacteroides BS1  
Green nonsulfur bacteria Dehalococcoides Dehalococcoides sp. GT  
Dehalococcoides sp. VS  
Dehalococcoides sp. BAV1  
Deinococcus-Thermus Thermus Thermus thermophilus HB8  
Archaea Euryarchaeota Methanocaldococcus Methanocaldococcus jannaschii DSM 2661  
Methanococcus Methanococcus maripaludis C6  
Methanococcus maripaludis C7  
Methanococcus maripaludis C5  
Methanosphaerula Methanosphaerula palustris E1-9c  
Methanothermobacter Methanothermobacter thermautotrophicus Delta H  
Crenarchaeota Sulfolobus Sulfolobus islandicus Y.G.57.14  
Sulfolobus islandicus L.S.2.15  
Sulfolobus islandicus M.16.27  
Sulfolobus islandicus M.14.25  
Sulfolobus islandicus M.16.4  
Sulfolobus islandicus L.D.8.5  

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Eukaryotes - longest transcript per gene
Category Organism
Animals Vertebrates Mammals Homo sapiens 63_37 (longest transcript per gene)   (Man)  
Pan troglodytes 63_21 (longest transcript per gene)   (Chimpanzee)  
Gorilla gorilla 63_3 (longest transcript per gene)   (Gorilla)  
Pongo abelii 63_1 (longest transcript per gene)   (Orang utan)  
Macaca mulatta 63_10 (longest transcript per gene)   (Rhesus macaque)  
Callithrix jacchus 63_321 (longest transcript per gene)   (Common marmoset)  
Otolemur garnettii 63_1 (longest transcript per gene)   (Small-eared galago)  
Microcebus murinus 63_1 (longest transcript per gene)   (Grey mouse lemur)  
Tarsius syrichta 63_1 (longest transcript per gene)   (Philippine tarsier)  
Rattus norvegicus 63_34 (longest transcript per gene)   (Brown rat)  
Mus musculus 63_37 (longest transcript per gene)   (Mouse)  
Spermophilus tridecemlineatus 63_1 (longest transcript per gene)   (Thirteen-lined ground squirrel)  
Dipodomys ordii 63_1 (longest transcript per gene)   (Ord's kangaroo rat)  
Cavia porcellus 63_3 (longest transcript per gene)   (Guinea pig)  
Oryctolagus cuniculus 63_3 (longest transcript per gene)   (Domestic rabbit)  
Ochotona princeps 63_1 (longest transcript per gene)   (Southern American pika)  
Tupaia belangeri 63_1 (longest transcript per gene)   (Common tree shrew)  
Sus scrofa 63_9 (longest transcript per gene)   (Pigs)  
Bos taurus 63_4 (longest transcript per gene)   (Bovine)  
Vicugna pacos 63_1 (longest transcript per gene)   (Alpaca)  
Tursiops truncatus 63_1 (longest transcript per gene)   (Atlantic bottle-nosed dolphin)  
Canis familiaris 63_2 (longest transcript per gene)   (Dogs)  
Felis catus 63_1 (longest transcript per gene)   (Cat)  
Equus caballus 63_2 (longest transcript per gene)   (Domestic horse)  
Myotis lucifugus 63_2 (longest transcript per gene)   (Little brown bat)  
Pteropus vampyrus 63_1 (longest transcript per gene)   (Large flying fox)  
Sorex araneus 63_1 (longest transcript per gene)   (Eurasian shrew)  
Erinaceus europaeus 63_1 (longest transcript per gene)   (Western European hedgehog)  
Procavia capensis 63_1 (longest transcript per gene)   (Cape hyrax)  
Loxodonta africana 63_3 (longest transcript per gene)   (African bush elephant)  
Echinops telfairi 63_1 (longest transcript per gene)   (Lesser hedgehog tenrec)  
Dasypus novemcinctus 63_2 (longest transcript per gene)   (Nine-banded armadillo)  
Choloepus hoffmanni 63_1 (longest transcript per gene)   (Hoffmann's two-toed sloth)  
Macropus eugenii 63_1 (longest transcript per gene)   (Tammar wallaby)  
Monodelphis domestica 63_5 (longest transcript per gene)   (Gray short-tailed opossum)  
Ornithorhynchus anatinus 63_1 (longest transcript per gene)   (Duck-billed platypus)  
Birds Taeniopygia guttata 63_1 (longest transcript per gene)   (Zebra finch)  
Gallus gallus 63_2 (longest transcript per gene)   (Bantam)  
Amphibians Xenopus tropicalis 63_42 (longest transcript per gene)   (Western clawed frog)  
Fishes Danio rerio 63_9 (longest transcript per gene)   (Leopard danio)  
Gasterosteus aculeatus 63_1 (longest transcript per gene)   (Three spined stickleback)  
Oryzias latipes 63_1 (longest transcript per gene)   (Japanese rice fish)  
Tetraodon nigroviridis 63_8 (longest transcript per gene)   (Spotted green pufferfish)  
Takifugu rubripes 63_4 (longest transcript per gene)   (Tiger puffer)  
Vertebrates/Others Anolis carolinensis 59_1c (longest transcript per gene)   (Green anole)  
Ascidians Ciona savignyi 63_2 (longest transcript per gene)  
Ciona intestinalis 63_2 (longest transcript per gene)  
Arthropods Insects Drosophila melanogaster 63_525 (longest transcript per gene)   (Fruit fly)  
Nematodes Caenorhabditis elegans 63_220 (longest transcript per gene)   (Nematode)  

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Other eukaryote and prokaryote organisms
Category Organism
Animals Vertebrates Mammals Ailuropoda melanoleuca   (Giant panda)   Draft
Flatworms Echinococcus multilocularis   version 1 of ge
Plants Eudicots Pea family Lotus japonicus   Early assembly
Rose family Prunus persica   (Peach)   Early draft
Spurge family Manihot esculenta   (Manioc)   Early draft
Ricinus communis   (Castor bean)   Early assembly
Nightshade family Solanum lycopersicum v2.3   (Tomato)   Early assembly
Eudicots/Others Mimulus guttatus   (Common monkey flower)   Early draft
Monocots Palm family Phoenix dactylifera   (Date palm)   Early draft
Fungi Basidiomycetes Moniliophthora perniciosa FA553   Genome survey
Microsporidians Encephalitozoon intestinalis   endoparasite
Encephalitozoon cuniculi   endoparasite
Protists Cryptophyta Guillardia theta   nucleomorph

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Sequence collections
Sequence collection
Protozoadb 2010_08
STRING v9.0
Updated Uniprot 2012_01
NCBI plasmid sequences
NCBI viral sequences
PDB chains (SCOP 1.75)
Updated Protein Data Bank
TargetDB
UniProt viral sequences

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Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2010 The SUPERFAMILY authors and Julian Gough.