Statistics on protein trees

The protein tree pipeline is described at the following page.

• Overview
• Gene tree coverage and Gene QC for each species
• Size of gene trees (split by their root taxon)
• Gene tree nodes, and the inference of speciation / duplication events

Overall Summary

Legend
Internal nodes (ancestral taxa)	Node types	Speciations	Duplications	Dubious nodes
Leaves (extant species)	Gene tree coverage	Genes in multi-species trees	Genes in single-species trees	Orphaned genes
	Gene QC	Validated genes	Short genes	Long genes	Split genes

Arthrobotrys oligospora ATCC 24927

Drechslerella stenobrocha 248

Dactylellina haptotyla CBS 200.50

Tuber melanosporum Mel28

Tuber magnatum

Tuber borchii

Talaromyces islandicus

Talaromyces atroroseus

Talaromyces marneffei ATCC 18224

Talaromyces stipitatus ATCC 10500

Talaromyces cellulolyticus

Rasamsonia emersonii CBS 393.64

Penicillium antarcticum

Penicillium brasilianum Pbras_Allpaths-LG

Penicillium camemberti FM 013

Aspergillus nidulans FGSC A4 ASM1142v1

Aspergillus fumigatus

Aspergillus fischeri NRRL 181

Aspergillus flavus NRRL3357

Aspergillus terreus NIH2624

Aspergillus oryzae RIB40

Aspergillus niger ASM285v2

Aspergillus clavatus NRRL 1

Penicilliopsis zonata CBS 506.65

Byssochlamys spectabilis No. 5

Elaphomyces granulatus

Coccidioides posadasii str. Silveira

Coccidioides immitis H538.4

Paracoccidioides lutzii Pb01

Paracoccidioides brasiliensis Pb18

Trichophyton violaceum

Trichophyton benhamiae CBS 112371

Trichophyton mentagrophytes

Trichophyton tonsurans CBS 112818

Trichophyton equinum CBS 127.97

Trichophyton interdigitale MR816

Trichophyton rubrum CBS 118892

Trichophyton verrucosum HKI 0517

Trichophyton soudanense CBS 452.61

Microsporum canis CBS 113480

Nannizzia gypsea CBS 118893

Emmonsia sp. CAC-2015a

Blastomyces silveriae

Emmonsia crescens UAMH 3008

Blastomyces dermatitidis ER-3

Blastomyces gilchristii SLH14081

Blastomyces percursus

Histoplasma capsulatum NAm1

Emergomyces pasteurianus Ep9510

Helicocarpus griseus UAMH5409

Polytolypa hystricis UAMH7299

Uncinocarpus reesii 1704

Ascosphaera apis ARSEF 7405

Capronia epimyces CBS 606.96

Capronia coronata CBS 617.96

Phialophora americana

Phialophora attae

Cladophialophora bantiana CBS 173.52

Cladophialophora psammophila CBS 110553

Cladophialophora yegresii CBS 114405

Cladophialophora carrionii

Cladophialophora immunda

Fonsecaea monophora

Fonsecaea nubica

Fonsecaea pedrosoi CBS 271.37

Fonsecaea multimorphosa CBS 102226

Fonsecaea erecta

Exophiala xenobiotica

Exophiala oligosperma

Exophiala aquamarina CBS 119918

Exophiala mesophila

Exophiala sideris

Exophiala dermatitidis NIH/UT8656

Exophiala spinifera

Rhinocladiella mackenziei CBS 650.93

Cyphellophora europaea CBS 101466

Phaeomoniella chlamydospora

Endocarpon pusillum Z07020

Amorphotheca resinae ATCC 22711

Oidiodendron maius Zn

Erysiphe necator

Erysiphe pulchra

Blumeria graminis f. sp. hordei DH14

Sclerotinia borealis F-4128

Sclerotinia sclerotiorum 1980 UF-70 ASM14694v1

Botrytis cinerea B05.10

Diplocarpon rosae

Marssonina brunnea f. sp. 'multigermtubi' MB_m1

Hyaloscypha variabilis F

Meliniomyces bicolor E

Glarea lozoyensis ATCC 20868

Phialocephala scopiformis

Phialocephala subalpina

Rhynchosporium secalis

Rhynchosporium agropyri

Rhynchosporium commune

Cadophora sp. DSE1049

Rutstroemia sp. NJR-2017a BVV2

Rutstroemia sp. NJR-2017a WRK4

Rutstroemia sp. NJR-2017a BBW

Pezoloma ericae

Verticillium dahliae VdLs.17

Verticillium longisporum vl2.denovo.v1

Colletotrichum orbiculare MAFF 240422

Colletotrichum higginsianum

Colletotrichum fructicola Nara gc5

Colletotrichum graminicola M1.001

Scedosporium apiospermum

Lomentospora prolificans

Ceratocystis platani

Thielaviopsis punctulata

Cordyceps militaris CM01

Beauveria brongniartii RCEF 3172

Cordyceps confragosa RCEF 1005

Cordyceps fumosorosea ARSEF 2679

Cordyceps sp. RAO-2017

Beauveria bassiana ASM168263v1

Trichoderma atroviride IMI 206040

Trichoderma citrinoviride

Trichoderma gamsii

Trichoderma asperellum CBS 433.97

Trichoderma harzianum ASM98886v1

Trichoderma reesei QM6a

Trichoderma longibrachiatum ATCC 18648

Trichoderma guizhouense

Trichoderma parareesei

Trichoderma virens Gv29-8

Escovopsis weberi

Fusarium verticillioides 7600

Fusarium fujikuroi EF1

Fusarium culmorum CS7071

Fusarium graminearum CS3005v1

Fusarium pseudograminearum CS3096

[Nectria] haematococca mpVI 77-13-4

Fusarium oxysporum f. sp. lycopersici 4287 FO2

Neonectria ditissima

Acremonium chrysogenum ATCC 11550

Ustilaginoidea virens Assembly_for_version_1_of_the_Villosiclava_virens_genome

Stachybotrys chlorohalonata IBT 40285

Stachybotrys chartarum IBT 40288

Ophiocordyceps australis OphauG2

Ophiocordyceps camponoti-rufipedis

Tolypocladium capitatum

Tolypocladium ophioglossoides CBS 100239

Tolypocladium paradoxum

Purpureocillium lilacinum ASM165320v1

Drechmeria coniospora

Hirsutella minnesotensis 3608

Metarhizium acridum CQMa 102

Metarhizium rileyi RCEF 4871

Metarhizium robertsii ARSEF 23

Metarhizium album ARSEF 1941

Metarhizium majus ARSEF 297

Moelleriella libera RCEF 2490

Torrubiella hemipterigena

Pochonia chlamydosporia 170

Claviceps purpurea 20.1

Gaeumannomyces tritici R3-111a-1

Magnaporthiopsis poae ATCC 64411

Pyricularia oryzae 70-15

Diaporthe helianthi

Diaporthe ampelina

Coniella lustricola

Valsa mali var. pyri

Sporothrix brasiliensis 5110

Sporothrix insectorum RCEF 264

Sporothrix schenckii ATCC 58251

Grosmannia clavigera kw1407

Ophiostoma piceae UAMH 11346

Neurospora crassa OR74A

Neurospora tetrasperma FGSC 2509

Sordaria macrospora k-hell

Chaetomium thermophilum var. thermophilum DSM 1495

Chaetomium globosum CBS 148.51

Thermothelomyces thermophilus ATCC 42464

Thielavia terrestris NRRL 8126

Madurella mycetomatis

Phaeoacremonium minimum UCRPA7

Coniochaeta ligniaria NRRL 30616

Hypoxylon sp. CI-4A

Daldinia sp. EC12

Microdochium bolleyi

Pseudomassariella vexata

Eutypa lata UCREL1

Rosellinia necatrix

Pestalotiopsis fici W106-1

Rachicladosporium sp. CCFEE 5018

Rachicladosporium antarcticum

Baudoinia panamericana UAMH 10762

Hortaea werneckii EXF-2000

Pseudocercospora musae

Pseudocercospora fijiensis CIRAD86

Zymoseptoria brevis

Zymoseptoria tritici IPO323

Cercospora berteroae

Cercospora beticola

Cercospora zeina

Pseudocercospora eumusae

Sphaerulina musiva SO2202

Ramularia collo-cygni

Dothistroma septosporum NZE10

Aureobasidium pullulans EXF-150

Aureobasidium subglaciale EXF-2481

Aureobasidium melanogenum CBS 110374

Aureobasidium namibiae CBS 147.97

Elsinoe australis

Diplodia corticola

Diplodia seriata UCDDS831v0.1

Neofusicoccum parvum UCRNP2

Macrophomina phaseolina MS6

Acidomyces richmondensis BFW

Coniosporium apollinis CBS 100218

Stagonospora sp. SRC1lsM3a

Paraphaeosphaeria sporulosa

Periconia macrospinosa

Ascochyta rabiei

Epicoccum nigrum

Pyrenophora tritici-repentis Pt-1C-BFP

Pyrenophora teres f. teres 0-1

Bipolaris sorokiniana ND90Pr

Bipolaris zeicola 26-R-13

Bipolaris oryzae ATCC 44560

Bipolaris maydis C5

Bipolaris victoriae FI3

Stemphylium lycopersici

Alternaria alternata

Exserohilum turcica Et28A

Pyrenochaeta sp. DS3sAY3a

Parastagonospora nodorum SN15

Leptosphaeria maculans JN3

Clohesyomyces aquaticus

Corynespora cassiicola Philippines

Xylona heveae TC161

Clavispora lusitaniae ATCC 42720

[Candida] auris ASM118947v1

Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993

Nadsonia fulvescens var. elongata DSM 6958

Kuraishia capsulata CBS 1993

Wickerhamiella sorbophila

Sugiyamaella lignohabitans

Cyberlindnera fabianii ASM320585v1

Cyberlindnera jadinii

Wickerhamomyces ciferrii

Wickerhamomyces anomalus NRRL Y-366-8

Komagataella phaffii GS115 GCA_000027005.1

Komagataella phaffii GS115 ASM174695v1

Ogataea polymorpha

Ogataea parapolymorpha DL-1

Pichia kudriavzevii ASM76445v1

Pichia membranifaciens NRRL Y-2026

Brettanomyces bruxellensis AWRI1499

Hanseniaspora guilliermondii

Hanseniaspora osmophila

Hanseniaspora opuntiae

Hanseniaspora valbyensis NRRL Y-1626

Hanseniaspora uvarum DSM 2768

Candida parapsilosis

Candida tropicalis MYA-3404

Candida albicans SC5314 Cand_albi_SC5314_V4

Lodderomyces elongisporus NRRL YB-4239

Debaryomyces fabryi

Debaryomyces hansenii CBS767

Babjeviella inositovora NRRL Y-12698

Spathaspora passalidarum NRRL Y-27907

Scheffersomyces stipitis CBS 6054

Meyerozyma guilliermondii ATCC 6260

Millerozyma farinosa CBS 7064

Suhomyces tanzawaensis NRRL Y-17324

Hyphopichia burtonii NRRL Y-1933

Tetrapisispora blattae CBS 6284

Tetrapisispora phaffii CBS 4417

Kazachstania naganishii CBS 8797

Kazachstania africana CBS 2517

Lachancea lanzarotensis

Lachancea dasiensis CBS 10888

Eremothecium gossypii FDAG1

Eremothecium gossypii ATCC 10895

Eremothecium cymbalariae DBVPG#7215

Naumovozyma castellii CBS 4309

Naumovozyma dairenensis CBS 421

Kluyveromyces marxianus DMKU3-1042

Kluyveromyces dobzhanskii CBS 2104

Kluyveromyces lactis

Zygosaccharomyces parabailii

Zygosaccharomyces rouxii ASM2636v1

Zygosaccharomyces bailii CLIB 213

Saccharomyces cerevisiae S288C

Saccharomyces eubayanus

Saccharomyces kudriavzevii IFO 1802

Saccharomyces sp. 'boulardii' ASM129837v2

Saccharomyces arboricola H-6

Vanderwaltozyma polyspora DSM 70294

Saccharomycetaceae sp. 'Ashbya aceri'

Pachysolen tannophilus NRRL Y-2460

Torulaspora delbrueckii

[Candida] glabrata ASM254v2

Ascoidea rubescens DSM 1968

Tortispora caseinolytica NRRL Y-17796

Yarrowia lipolytica YALIA101

Lipomyces starkeyi NRRL Y-11557

Pneumocystis murina B123

Pneumocystis carinii B80

Pneumocystis jirovecii RU7

Schizosaccharomyces octosporus yFS286

Schizosaccharomyces cryophilus OY26

Schizosaccharomyces japonicus yFS275

Schizosaccharomyces pombe 972h-

Protomyces lactucaedebilis

Saitoella complicata NRRL Y-17804 Scomplicata_3.0

Neolecta irregularis DAH-3

Puccinia graminis f. sp. tritici 04KEN156/4

Puccinia graminis f. sp. tritici CRL 75-36-700-3

Puccinia triticina 1-1 BBBD Race 1

Puccinia sorghi

Puccinia coronata var. avenae f. sp. avenae

Puccinia striiformis

Melampsora larici-populina 98AG31

Rhodotorula graminis WP1

Rhodotorula toruloides ATCC 204091

Microbotryum lychnidis-dioicae p1A1 Lamole

Microbotryum intermedium

Leucosporidium creatinivorum

Mixia osmundae IAM 14324 Mosmundae_2.0

Calocera cornea HHB12733

Calocera viscosa TUFC12733

Dacryopinax primogenitus

Wallemia mellicola CBS 633.66

Wallemia ichthyophaga EXF-994

Trichosporon asahii var. asahii CBS 8904

Cutaneotrichosporon oleaginosum

Kwoniella pini CBS 10737

Kwoniella dejecticola CBS 10117

Kwoniella bestiolae CBS 10118

Cryptococcus amylolentus CBS 6039

Cryptococcus depauperatus CBS 7841

Cryptococcus neoformans var. neoformans JEC21

Cryptococcus gattii WM276

Tsuchiyaea wingfieldii CBS 7118

Naematelia encephala

Tremella mesenterica DSM 1558

Kockovaella imperatae

Fibularhizoctonia sp. CBS 109695

Piloderma croceum F 1598

Rhizopogon vesiculosus

Suillus luteus UH-Slu-Lm8-n1

Paxillus involutus ATCC 200175

Paxillus rubicundulus Ve08.2h10

Hydnomerulius pinastri MD-312

Pisolithus microcarpus 441

Pisolithus tinctorius Marx 270

Scleroderma citrinum Foug A

Serpula lacrymans var. lacrymans S7.3

Coniophora puteana RWD-64-598 SS2

Amanita muscaria Koide BX008

Amanita thiersii Skay4041

Moniliophthora roreri MCA 2997

Moniliophthora perniciosa FA553

Laccaria bicolor S238N-H82

Laccaria amethystina LaAM-08-1

Termitomyces sp. J132

Hypsizygus marmoreus

Lentinula edodes

Gymnopus luxurians FD-317 M1

Hypholoma sublateritium FD-334 SS-4

Galerina marginata CBS 339.88

Leucoagaricus sp. SymC.cos

Agaricus bisporus var. burnettii JB137-S8

Armillaria ostoyae

Armillaria gallica

Armillaria solidipes

Cylindrobasidium torrendii FP15055 ss-10

Schizophyllum commune H4-8

Pleurotus ostreatus PC15

Fistulina hepatica ATCC 64428

Hebeloma cylindrosporum h7

Coprinopsis cinerea okayama7#130

Plicaturopsis crispa FD-325 SS-3

Jaapia argillacea MUCL 33604

Pyrrhoderma noxium

Fomitiporia mediterranea MF3/22

Schizopora paradoxa

Sistotremastrum niveocremeum HHB9708

Sistotremastrum suecicum HHB10207 ss-3

Neolentinus lepideus HHB14362 ss-1

Gloeophyllum trabeum ATCC 11539

Serendipita indica DSM 11827

Serendipita vermifera MAFF 305830

Rhizoctonia solani AG-1 IA

Tulasnella calospora MUT 4182

Botryobasidium botryosum FD-172 SS1

Stereum hirsutum FP-91666 SS1

Peniophora sp. CONT

Heterobasidion irregulare TC 32-1

Fomitopsis pinicola FP-58527 SS1

Daedalea quercina L-15889

Phlebiopsis gigantea 11061_1 CR5-6

Phanerochaete carnosa HHB-10118-sp

Wolfiporia cocos MD-104 SS10

Laetiporus sulphureus 93-53

Trametes versicolor FP-101664 SS1

Trametes cinnabarina

Trametes pubescens

Trametes coccinea BRFM310

Ganoderma sinense ZZ0214-1

Dichomitus squalens LYAD-421 SS1

Gelatoporia subvermispora B

Postia placenta Mad-698-R

Fibroporia radiculosa

Phlebia centrifuga

Grifola frondosa

Punctularia strigosozonata HHB-11173 SS5

Exidia glandulosa HHB12029

Sphaerobolus stellatus SS14

Moesziomyces aphidis DSM 70725

Moesziomyces antarcticus T-34

Ustilago maydis 521

Ustilago hordei

Anthracocystis flocculosa PF-1

Sporisorium reilianum SRZ2

Kalmanozyma brasiliensis GHG001

Pseudozyma hubeiensis SY62

Testicularia cyperi

Malassezia globosa CBS 7966

Malassezia sympodialis ATCC 42132 ASM34930v2

Malassezia pachydermatis

Malassezia vespertilionis

Jaminaea rosea

Pseudomicrostroma glucosiphilum

Acaromyces ingoldii

Meira miltonrushii

Tilletia controversa

Tilletia caries

Tilletia walkeri

Tilletia indica

Tilletiaria anomala UBC 951

Tilletiopsis washingtonensis

Ceraceosorus guamensis

Violaceomyces palustris

Paramicrosporidium saccamoebae

Rozella allomycis CSF55

Basidiobolus meristosporus CBS 931.73

Conidiobolus coronatus NRRL 28638

Allomyces macrogynus ATCC 38327

Catenaria anguillulae PL171

Mortierella elongata AG-77

Mortierella verticillata NRRL 6337

Lobosporangium transversale