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Bio-MUST-Core
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lib/Bio/MUST/Core/Roles/Listable.pm  view on Meta::CPAN 

sub store_nbs {
    my $self    = shift;
    my $outfile = shift;

    # #Sequences extracted from c111_78.ali of the 5 May 2009 at 11 hours 40
    # #File c111_78.nbs created on Tuesday 5 May 2009 at 11 hours 40
    # #184 positions remain on the 184 aligned positions
    # #life.col,life.nom
    # #Here is the list of the 78 species used:
    # Aciduliprofundum_boonei_T469___________________________________________________  Aeropyrum_pernix_K1____________________________________________________________
    # Archaeoglobus_fulgidus_DSM_4304________________________________________________  Archaeoglobus_profundus_Av18__DSM_5631_________________________________________
    # ...

    my @ids = $self->all_seq_ids;

    open my $out, '>', $outfile;

    # print minimum header
    print {$out} "#File $outfile created on " . ctime(time);
    say   {$out} '#Here is the list of the ' . scalar @ids . ' species used:';

lib/Bio/MUST/Core/SeqId.pm  view on Meta::CPAN 

    RI-34
    RI-342
    RI-382
    RI-421
    RI-43
    RI-461
    RI-55
    RI-92
    RI-95
    rice-associated
    Rigidomastix-like
    RIOMV-3
    RIOMV-4
    Rm-Bat-CoV
    RML-105355
    rod-shaped
    Rodent-like
    root-associated
    Rosaceae-associated
    Roseobacter-like
    Rous-associated

lib/Bio/MUST/Core/SeqId.pm  view on Meta::CPAN 

    frederiksbergensis_A
    frederiksbergensis_B
    frederiksbergensis_D
    frederiksbergensis_F
    frederiksbergensis_G
    frederiksbergensis_H
    frederiksbergensis_I
    fredii_A
    fredii_B
    fredii_C
    frigidaeris_A
    frigidisoli_A
    frigiditerrae_A
    frigidus_A
    frigoris_A
    frigoritolerans_A
    frigoritolerans_B
    frisingense_B
    fugitiva_A
    fulva_A
    fulva_B
    fulva_C
    fulva_D
    fulvum_A

lib/Bio/MUST/Core/SeqId.pm  view on Meta::CPAN 

    Y2H-GFP_URA3
    Y4_579_1
    yabuuchiae_A
    yamanorum_A
    yanchengensis_A
    yanglingense_A
    yannicii_A
    yanoikuyae_A
    yanshanensis_A
    yeojuensis_A
    yomogidense_A
    yonginensis_A
    YS1-2_2434
    YS1-2_2437
    yuanmingense_A
    zalophi_A
    zeae_A
    zhangzhouensis_A
    zhoushanensis_A
    zoogloeoides_A
    zoogloeoides_B

test/FTSW.tpl  view on Meta::CPAN 

1
((Caldisericum_exile_511051@383788842,((Thermovibrio_ammonificans_648996@319789934,Desulfurobacterium_thermolithotrophum_868864@325294674),(Persephonella_marina_123214@225850178,(Sulfurihydrogenibium_azorense_204536@225849193,Sulfurihydrogenibium_sp....

test/FTSW.tre  view on Meta::CPAN 

((Caldisericum_exile_511051@383788842:0.933210,((Thermovibrio_ammonificans_648996@319789934:0.102480,Desulfurobacterium_thermolithotrophum_868864@325294674:0.192930)1.00:0.555440,(Persephonella_marina_123214@225850178:0.391260,(Sulfurihydrogenibium_a...

test/PBP3-collapse.txt  view on Meta::CPAN 

Melioribacter_roseus_1191523@397689322|Ignavibacterium_album_945713@385810787
Streptobacillus_moniliformis_519441@269123154|Fusobacterium_nucleatum_190304@19704490
Aquifex_aeolicus_224324@15606014|Sulfurihydrogenibium_azorense_204536@225848379
Borrelia_bissettii_521010@343127458|Leptospira_interrogans_189518@24216397
Thermovibrio_ammonificans_648996@319790148|Desulfurobacterium_thermolithotrophum_868864@325295462
uncultured_Termite_471821@189485181|Elusimicrobium_minutum_445932@187251659
Simkania_negevensis_331113@338732393|Parachlamydia_acanthamoebae_765952@338175964
Deferribacter_desulfuricans_639282@291278993|Calditerrivibrio_nitroreducens_768670@313673689
Thermotoga_neapolitana_309803@222100679|Petrotoga_mobilis_403833@160902332
Aminobacterium_colombiense_572547@294101812|Thermovirga_lienii_580340@357419810
Dictyoglomus_turgidum_515635@217967639|Dictyoglomus_thermophilum_309799@206901837
Sulfurovum_sp._387093@152991915|Helicobacter_felis_936155@315452791
Anaerolinea_thermophila_926569@320161734|Caldilinea_aerophila_926550@383764770
Chloroflexus_aggregans_326427@219849711|Roseiflexus_sp._357808@148657879
Thermomicrobium_roseum_309801@221632093|Sphaerobacter_thermophilus_479434@269838020
Clostridium_thermocellum_203119@125973494|Lactococcus_lactis_929102@385830405
Coraliomargarita_akajimensis_583355@294056590|Opitutus_terrae_452637@182414443
Chloroherpeton_thalassium_517418@193214543|Chlorobium_luteolum_319225@78187958
Alistipes_finegoldii_679935@390946707|Fluviicola_taffensis_755732@327404194
Brachyspira_murdochii_526224@296125075|Brachyspira_pilosicoli_759914@300871737
Chloracidobacterium_thermophilum_981222@347755686|Terriglobus_roseus_926566@390959243

test/PBP3-collapse.txt  view on Meta::CPAN 

Anaerobaculum_mobile_891968@392406822|Thermanaerovibrio_acidaminovorans_525903@269792817
Persephonella_marina_123214@225849618|Hydrogenobacter_thermophilus_608538@384128225
Coraliomargarita_akajimensis_583355@294055495|Opitutus_terrae_452637@182416407
Thermodesulfovibrio_yellowstonii_289376@206889394|Leptospirillum_ferriphilum_1048260@410479878
Solibacter_usitatus_234267@116623273|Granulicella_tundricola_1198114@322434527
Kangiella_koreensis_523791@256821555|Laribacter_hongkongensis_557598@226941986
Solitalea_canadensis_929556@387789604|Cytophaga_hutchinsonii_269798@110639677
Chloroherpeton_thalassium_517418@193216121|Chlorobium_luteolum_319225@78186454
Ignavibacterium_album_945713@385810427|Melioribacter_roseus_1191523@397691806
Turneriella_parva_869212@392403595|Borrelia_hermsii_314723@187918573
Dictyoglomus_turgidum_515635@217967783|Dictyoglomus_thermophilum_309799@206900908
Thermotoga_neapolitana_309803@222099046|Fervidobacterium_pennivorans_771875@383787051
Thermosediminibacter_oceani_555079@302389311|Lactococcus_lactis_929102@385829910
Acidobacterium_capsulatum_240015@225872727|Solibacter_usitatus_234267@116623922
Sebaldella_termitidis_526218@269118817|Fusobacterium_nucleatum_190304@19704546
Planctomyces_brasiliensis_756272@325111010|Planctomyces_limnophilus_521674@296124296
Thermobispora_bispora_469371@296269659|Kribbella_flavida_479435@284030246
Sphaerobacter_thermophilus_479434@269838230|Thermomicrobium_roseum_309801@221633354
Deinococcus_maricopensis_709986@320334966|Thermus_thermophilus_798128@386360308
Acaryochloris_marina_329726@158336573|Trichodesmium_erythraeum_203124@113475742

test/PBP3-label.txt  view on Meta::CPAN 

Fervidobacterium_pennivorans_771875@383787655|Fervidobacterium_nodosum_381764@154250450,Thermotogota
Thermosipho_africanus_484019@217076155|Thermosipho_melanesiensis_391009@150021596,Thermotogota
Thermotoga_thermarum_688269@338729925|Thermotoga_lettingae_416591@157364287,Thermotogota
Kosmotoga_olearia_521045@239618272|Petrotoga_mobilis_403833@160902332,Thermotogota
Kosmotoga_olearia_521045@239618272|Mesotoga_prima_660470@389843550,Thermotogota
Marinitoga_piezophila_443254@374340945|Petrotoga_mobilis_403833@160902332,Thermotogota
Aminobacterium_colombiense_572547@294101812|Helicobacter_felis_936155@315452791,Bacteria
Aminobacterium_colombiense_572547@294101812|Thermovirga_lienii_580340@357419810,Synergistota
Thermanaerovibrio_acidaminovorans_525903@269792477|Thermovirga_lienii_580340@357419810,Synergistota
Anaerobaculum_mobile_891968@392407240|Thermovirga_lienii_580340@357419810,Synergistota
Dictyoglomus_turgidum_515635@217967639|Helicobacter_felis_936155@315452791,Pseudomonadati
Dictyoglomus_turgidum_515635@217967639|Dictyoglomus_thermophilum_309799@206901837,Dictyoglomota
Sulfurovum_sp._387093@152991915|Helicobacter_felis_936155@315452791,Campylobacterota
Caldisericum_exile_511051@383788847|Cloacamonas_acidaminovorans_456827@218961100,Pseudomonadati
Anaerolinea_thermophila_926569@320161734|Lactococcus_lactis_929102@385830405,Bacteria
Anaerolinea_thermophila_926569@320161734|Roseiflexus_sp._357808@148657879,Bacteria
Anaerolinea_thermophila_926569@320161734|Caldilinea_aerophila_926550@383764770,Chloroflexota
Chloroflexus_aggregans_326427@219849711|Sphaerobacter_thermophilus_479434@269838020,Bacteria
Chloroflexus_aggregans_326427@219849711|Roseiflexus_sp._357808@148657879,Chloroflexota
Chloroflexus_aggregans_326427@219849711|Chloroflexus_aurantiacus_324602@163846344,Chloroflexota
Chloroflexus_sp._480224@222524109|Chloroflexus_aurantiacus_324602@163846344,Chloroflexota
Herpetosiphon_aurantiacus_316274@159900034|Roseiflexus_sp._357808@148657879,Chloroflexota

test/PBP3-label.txt  view on Meta::CPAN 

Brachyspira_pilosicoli_1133568@404476917|Borrelia_hermsii_314723@187918573,Spirochaetota
Brachyspira_pilosicoli_1133568@404476917|Brachyspira_hyodysenteriae_565034@225619715,Spirochaetota
Brachyspira_pilosicoli_1133568@404476917|Brachyspira_pilosicoli_759914@300871356,Spirochaetota
Brachyspira_murdochii_526224@296127520|Brachyspira_hyodysenteriae_565034@225619715,Spirochaetota
Brachyspira_intermedia_1045858@384209325|Brachyspira_hyodysenteriae_565034@225619715,Spirochaetota
Spirochaeta_smaragdinae_573413@302338582|Borrelia_hermsii_314723@187918573,Spirochaetota
Spirochaeta_smaragdinae_573413@302338582|Treponema_pallidum_491081@378975134,Spirochaetota
Treponema_primitia_545694@333998132|Borrelia_hermsii_314723@187918573,Spirochaetota
Spirochaeta_thermophila_869211@386346856|Borrelia_hermsii_314723@187918573,Spirochaetota
Borrelia_bissettii_521010@343128015|Borrelia_hermsii_314723@187918573,Spirochaetota
Dictyoglomus_turgidum_515635@217967783|Lactococcus_lactis_929102@385829910,Bacteria
Dictyoglomus_turgidum_515635@217967783|Fervidobacterium_pennivorans_771875@383787051,Bacteria
Dictyoglomus_turgidum_515635@217967783|Dictyoglomus_thermophilum_309799@206900908,Dictyoglomota
Thermotoga_neapolitana_309803@222099046|Fervidobacterium_pennivorans_771875@383787051,Thermotogota
Thermotoga_neapolitana_309803@222099046|Thermotoga_petrophila_390874@148269472,Thermotogota
Thermotoga_maritima_243274@15643356|Thermotoga_petrophila_390874@148269472,Thermotogota
Thermotoga_maritima_243274@15643356|Thermotoga_sp._126740@170288146,Thermotogota
Thermotoga_naphthophila_590168@281411810|Thermotoga_petrophila_390874@148269472,Thermotogota
Thermotoga_thermarum_688269@338731719|Petrotoga_mobilis_403833@160902867,Thermotogota
Thermosipho_africanus_484019@217077623|Thermotoga_lettingae_416591@157364850,Thermotogota
Thermosipho_africanus_484019@217077623|Fervidobacterium_pennivorans_771875@383787051,Thermotogota
Thermosipho_africanus_484019@217077623|Thermosipho_melanesiensis_391009@150021060,Thermotogota
Fervidobacterium_nodosum_381764@154249574|Fervidobacterium_pennivorans_771875@383787051,Thermotogota

test/PBP3.arb  view on Meta::CPAN 

#
#
((((Anabaena_sp._46234@414079558:0.203860,(Synechococcus_sp._32049@170076967:0.684130,(Nostoc_punctiforme_63737@186683468:0.074200,(Anabaena_variabilis_240292@75908573:0.000000,Nostoc_sp._103690@17232593:0.021260):0.037750):0.179680):0.101490):0.4076...

test/PBP3.idl  view on Meta::CPAN 

Thermotoga thermarum_688269@338729925
Thermotoga lettingae_416591@157364287
Kosmotoga olearia_521045@239618272
Mesotoga prima_660470@389843550
Marinitoga piezophila_443254@374340945
Petrotoga mobilis_403833@160902332
Aminobacterium colombiense_572547@294101812
Thermanaerovibrio acidaminovorans_525903@269792477
Anaerobaculum mobile_891968@392407240
Thermovirga lienii_580340@357419810
Dictyoglomus turgidum_515635@217967639
Dictyoglomus thermophilum_309799@206901837
Sulfurovum sp._387093@152991915
Helicobacter felis_936155@315452791
Caldisericum exile_511051@383788847
Cloacamonas acidaminovorans_456827@218961100
Anaerolinea thermophila_926569@320161734
Caldilinea aerophila_926550@383764770
Chloroflexus aggregans_326427@219849711
Chloroflexus sp._480224@222524109
Chloroflexus aurantiacus_324602@163846344

test/PBP3.idl  view on Meta::CPAN 

Brachyspira pilosicoli_759914@300871356
Brachyspira murdochii_526224@296127520
Brachyspira intermedia_1045858@384209325
Brachyspira hyodysenteriae_565034@225619715
Spirochaeta smaragdinae_573413@302338582
Treponema pallidum_491081@378975134
Treponema primitia_545694@333998132
Spirochaeta thermophila_869211@386346856
Borrelia bissettii_521010@343128015
Borrelia hermsii_314723@187918573
Dictyoglomus turgidum_515635@217967783
Dictyoglomus thermophilum_309799@206900908
Thermotoga neapolitana_309803@222099046
Thermotoga maritima_243274@15643356
Thermotoga sp._126740@170288146
Thermotoga naphthophila_590168@281411810
Thermotoga petrophila_390874@148269472
Thermosipho africanus_484019@217077623
Thermosipho melanesiensis_391009@150021060
Fervidobacterium nodosum_381764@154249574
Fervidobacterium pennivorans_771875@383787051

test/PBP3.tre  view on Meta::CPAN 

((((Anabaena_sp._46234@414079558:0.20386,(Synechococcus_sp._32049@170076967:0.68413,(Nostoc_punctiforme_63737@186683468:0.07420,(Anabaena_variabilis_240292@75908573:0.00000,Nostoc_sp._103690@17232593:0.02126)0.79:0.03775)0.97:0.17968)0.34:0.10149)0.9...

test/PBP3_auto.tre  view on Meta::CPAN 

((((Anabaena_sp._46234@414079558:0.203860,(Synechococcus_sp._32049@170076967:0.684130,(Nostoc_punctiforme_63737@186683468:0.074200,(Anabaena_variabilis_240292@75908573:0.000000,Nostoc_sp._103690@17232593:0.021260)Nostocaceae:0.037750)Nostocaceae:0.17...

test/PBP3_auto_phylum.nex  view on Meta::CPAN 

#NEXUS

begin trees;
    tree tree_1 = [&R] ((((Anabaena_sp._46234@414079558:0.203860,(Synechococcus_sp._32049@170076967:0.684130,(Nostoc_punctiforme_63737@186683468:0.074200,(Anabaena_variabilis_240292@75908573:0.000000,Nostoc_sp._103690@17232593:0.021260)0.79:0.037750[...
end;

test/PBP3_family.tre  view on Meta::CPAN 

((((Anabaena_sp._46234@414079558:0.203860,(Synechococcus_sp._32049@170076967:0.684130,(Nostoc_punctiforme_63737@186683468:0.074200,(Anabaena_variabilis_240292@75908573:0.000000,Nostoc_sp._103690@17232593:0.021260)Nostocaceae:0.037750)Nostocaceae:0.17...

test/PBP3_family_phylum.nex  view on Meta::CPAN 

#NEXUS

begin trees;
    tree tree_1 = [&R] ((((Anabaena_sp._46234@414079558:0.203860,(Synechococcus_sp._32049@170076967:0.684130,(Nostoc_punctiforme_63737@186683468:0.074200,(Anabaena_variabilis_240292@75908573:0.000000,Nostoc_sp._103690@17232593:0.021260)0.79:0.037750[...
end;

test/PBP3_phylum_4color.nex  view on Meta::CPAN 

#NEXUS

begin trees;
    tree tree_1 = [&R] ((((Anabaena_sp._46234@414079558:0.203860[& !color = #5baf4c ],(Synechococcus_sp._32049@170076967:0.684130[& !color = #5baf4c ],(Nostoc_punctiforme_63737@186683468:0.074200[& !color = #5baf4c ],(Anabaena_variabilis_240292@75908...
end;

test/get_gtdb_taxonomy_from_gca.test  view on Meta::CPAN 

GCA_010692635.1	Caldora sp010692635
GCF_014698845.1	FACHB-T130 sp014698845
GCF_010672455.1	Okeania sp010672455
GCF_017591665.1	Aetokthonos hydrillicola
GCF_012863495.1	Pseudanabaena yagii
GCF_003003925.1	Cyanobium minutissimum
GCA_003017855.1	Nodosilinea sp003017855
GCA_913041805.1	AG-363-K07 sp913041805
GCF_012295525.1	Oxynema aestuarii
GCF_000284455.1	Synechocystis sp000284455
GCF_003003795.1	Stenomitos frigidus_A
GCA_007571085.1	Synechococcus_B sp007571085
GCF_024345515.1	Cyanobium sp024345515
GCF_014697475.1	Nostoc_B sp014697475
GCF_000010065.1	Synechococcus elongatus
GCA_003209565.1	Prochlorococcus_A sp003209565
GCA_025370875.1	Laspinema palackyanum
GCF_014279795.1	Synechococcus_C sp014279795
GCA_019359505.1	Drouetiella hepatica
GCA_902612005.1	Prochlorococcus_A sp902612005
GCA_003249035.1	Pseudanabaena sp003249035

test/get_gtdb_taxonomy_from_gca.test  view on Meta::CPAN 

GCA_019359675.1	Dulcicalothrix sp019359675
GCA_000331305.1	Dulcicalothrix sp000331305
GCF_000317225.1	Fischerella thermalis
GCF_001693275.1	Limnothrix sp001693275
GCF_015207285.1	Microcoleus sp015207285
GCF_016888165.1	Halomicronema sp016888165
GCA_003214195.1	Prochlorococcus_A sp003214195
GCA_937975655.1	Vulcanococcus sp937975655
GCF_900088535.1	NIES-981 sp900088535
GCF_001456025.1	Mastigocoleus testarum
GCA_003242085.1	Pseudanabaena frigida
GCF_003113895.1	Nostoc commune
GCA_025062155.1	Gloeomargarita sp025062155
GCA_902590355.1	Prochlorococcus_A sp902590355
GCA_003210135.1	Prochlorococcus_A sp003210135
GCA_002291895.1	UBA999 sp002291895
GCA_012033355.1	JAAUTN01 sp012033355
GCF_000317555.1	Chroogloeocystis sp000317555
GCF_029891685.1	Umezakia ovalisporum
GCA_003212655.1	Prochlorococcus_A sp003212655
GCA_014380065.1	Stenomitos sp014380065
GCA_019359275.1	Myxacorys chilensis
GCF_000332035.1	Gloeocapsa sp000332035
GCF_014697575.1	Planktothrix sp014697575
GCA_012034595.1	Dulcicalothrix sp012034595
GCA_003214815.1	Prochlorococcus_A sp003214815
GCA_937911865.1	Phormidesmis sp937911865
GCA_000316115.1	Leptothoe sp000316115
GCA_025194985.1	Regnicoccus frigidus
GCF_019104765.1	Vulcanococcus sp019104765
GCF_014695955.1	FACHB-36 sp014695955
GCA_003281635.1	Prochlorococcus_A sp003281635
GCF_000332075.2	Aliterella sp000332075
GCA_002687115.1	Synechococcus_C sp002687115
GCF_000760095.1	Prochlorococcus_A marinus_I
GCA_902520485.1	Prochlorococcus_A sp902520485
GCA_902572915.1	Prochlorococcus_A sp902572915
GCF_000012645.1	Prochlorococcus_A marinus_L
GCF_017115045.1	Nostoc sp017115045

test/selection.tax  view on Meta::CPAN 

Arabidopsis thaliana	Arabidopsis thaliana_3702	3702	cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Penta...
Aurantiochytrium limacinum ATCC MYA-1381	Aurantiochytrium limacinum_717989	717989	cellular organisms; Eukaryota; Stramenopiles; Labyrinthulomycetes; Thraustochytriaceae; Aurantiochytrium; Aurantiochytrium limacinum; Aurantiochytrium limacinum ATCC MY...
Aureococcus anophagefferens	Aureococcus anophagefferens_44056	44056	cellular organisms; Eukaryota; Stramenopiles; Pelagophyceae; Pelagomonadales; Aureococcus; Aureococcus anophagefferens
Bigelowiella natans CCMP2755	Bigelowiella natans_753081	753081	cellular organisms; Eukaryota; Rhizaria; Cercozoa; Chlorarachniophyceae; Bigelowiella; Bigelowiella natans; Bigelowiella natans CCMP2755
Chlamydomonas reinhardtii	Chlamydomonas reinhardtii_3055	3055	cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Chlorophyceae; Chlamydomonadales; Chlamydomonadaceae; Chlamydomonas; Chlamydomonas reinhardtii
Coccomyxa subellipsoidea C-169	Coccomyxa subellipsoidea_574566	574566	cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Trebouxiophyceae; Trebouxiophyceae incertae sedis; Coccomyxaceae; Coccomyxa; Coccomyxa subellipsoidea; Coccomyxa subellip...
Dictyostelium discoideum	Dictyostelium discoideum_44689	44689	cellular organisms; Eukaryota; Amoebozoa; Mycetozoa; Dictyosteliida; Dictyostelium; Dictyostelium discoideum
Emiliania huxleyi CCMP1516	Emiliania huxleyi_280463	280463	cellular organisms; Eukaryota; Haptophyceae; Isochrysidales; Noelaerhabdaceae; Emiliania; Emiliania huxleyi; Emiliania huxleyi CCMP1516
Guillardia theta CCMP2712	Guillardia theta_905079	905079	cellular organisms; Eukaryota; Cryptophyta; Pyrenomonadales; Geminigeraceae; Guillardia; Guillardia theta; Guillardia theta CCMP2712
Micromonas sp. RCC299	Micromonas sp._296587	296587	cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; prasinophytes; Mamiellophyceae; Mamiellales; Mamiellaceae; Micromonas; Micromonas sp. RCC299
Monosiga brevicollis	Monosiga brevicollis_81824	81824	cellular organisms; Eukaryota; Opisthokonta; Choanoflagellida; Codonosigidae; Monosiga; Monosiga brevicollis
Naegleria gruberi	Naegleria gruberi_5762	5762	cellular organisms; Eukaryota; Heterolobosea; Schizopyrenida; Vahlkampfiidae; Naegleria; Naegleria gruberi
Nematostella vectensis	Nematostella vectensis_45351	45351	cellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Cnidaria; Anthozoa; Hexacorallia; Actiniaria; Edwardsiidae; Nematostella; Nematostella vectensis
Ostreococcus 'lucimarinus'	Ostreococcus lucimarinus_242159	242159	cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; prasinophytes; Mamiellophyceae; Mamiellales; Bathycoccaceae; Ostreococcus; Ostreococcus 'lucimarinus'
Physcomitrella patens	Physcomitrella patens_3218	3218	cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella; Physcomitrella pate...
Phytophthora infestans	Phytophthora infestans_4787	4787	cellular organisms; Eukaryota; Stramenopiles; Oomycetes; Peronosporales; Phytophthora; Phytophthora infestans
Plasmodium falciparum	Plasmodium falciparum_5833	5833	cellular organisms; Eukaryota; Alveolata; Apicomplexa; Aconoidasida; Haemosporida; Plasmodiidae; Plasmodium; Plasmodium (Laverania); Plasmodium falciparum
Thalassiosira pseudonana	Thalassiosira pseudonana_35128	35128	cellular organisms; Eukaryota; Stramenopiles; Bacillariophyta; Coscinodiscophyceae; Thalassiosirophycidae; Thalassiosirales; Thalassiosiraceae; Thalassiosira; Thalassiosira pseudonana
Toxoplasma gondii	Toxoplasma gondii_5811	5811	cellular organisms; Eukaryota; Alveolata; Apicomplexa; Conoidasida; Coccidia; Eucoccidiorida; Eimeriorina; Sarcocystidae; Toxoplasma; Toxoplasma gondii
Trypanosoma brucei	Trypanosoma brucei_5691	5691	cellular organisms; Eukaryota; Euglenozoa; Kinetoplastida; Trypanosomatidae; Trypanosoma; Trypanozoon; Trypanosoma brucei
Batrachochytrium dendrobatidis JAM81	Batrachochytrium dendrobatidis_684364	684364	cellular organisms; Eukaryota; Opisthokonta; Fungi; Chytridiomycota; Chytridiomycetes; Rhizophydiales; Rhizophydiales incertae sedis; Batrachochytrium; Batrachochytrium...



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