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

Drechslerella stenobrocha 248

Arthrobotrys oligospora ATCC 24927

Dactylellina haptotyla CBS 200.50

Tuber melanosporum Mel28

Tuber borchii

Tuber magnatum

Talaromyces atroroseus

Talaromyces islandicus

Talaromyces cellulolyticus

Talaromyces marneffei ATCC 18224

Talaromyces stipitatus ATCC 10500

Rasamsonia emersonii CBS 393.64

Penicillium antarcticum

Penicillium camemberti FM 013

Penicillium brasilianum Pbras_Allpaths-LG

Aspergillus niger ASM285v2

Aspergillus clavatus NRRL 1

Aspergillus flavus NRRL3357

Aspergillus terreus NIH2624

Aspergillus fumigatus

Aspergillus oryzae RIB40

Aspergillus fischeri NRRL 181

Aspergillus nidulans FGSC A4 ASM1142v1

Penicilliopsis zonata CBS 506.65

Elaphomyces granulatus

Byssochlamys spectabilis No. 5

Coccidioides posadasii str. Silveira

Coccidioides immitis H538.4

Paracoccidioides lutzii Pb01

Paracoccidioides brasiliensis Pb18

Trichophyton benhamiae CBS 112371

Trichophyton violaceum

Trichophyton soudanense CBS 452.61

Trichophyton tonsurans CBS 112818

Trichophyton rubrum CBS 118892

Trichophyton mentagrophytes

Trichophyton equinum CBS 127.97

Trichophyton interdigitale MR816

Trichophyton verrucosum HKI 0517

Microsporum canis CBS 113480

Nannizzia gypsea CBS 118893

Emmonsia crescens UAMH 3008

Emmonsia sp. CAC-2015a

Blastomyces silveriae

Blastomyces gilchristii SLH14081

Blastomyces percursus

Blastomyces dermatitidis ER-3

Helicocarpus griseus UAMH5409

Histoplasma capsulatum NAm1

Polytolypa hystricis UAMH7299

Emergomyces pasteurianus Ep9510

Ascosphaera apis ARSEF 7405

Uncinocarpus reesii 1704

Capronia coronata CBS 617.96

Capronia epimyces CBS 606.96

Phialophora americana

Phialophora attae

Cladophialophora yegresii CBS 114405

Cladophialophora bantiana CBS 173.52

Cladophialophora immunda

Cladophialophora psammophila CBS 110553

Cladophialophora carrionii

Fonsecaea multimorphosa CBS 102226

Fonsecaea monophora

Fonsecaea erecta

Fonsecaea nubica

Fonsecaea pedrosoi CBS 271.37

Exophiala xenobiotica

Exophiala mesophila

Exophiala aquamarina CBS 119918

Exophiala sideris

Exophiala spinifera

Exophiala dermatitidis NIH/UT8656

Exophiala oligosperma

Rhinocladiella mackenziei CBS 650.93

Cyphellophora europaea CBS 101466

Phaeomoniella chlamydospora

Endocarpon pusillum Z07020

Oidiodendron maius Zn

Amorphotheca resinae ATCC 22711

Erysiphe pulchra

Erysiphe necator

Blumeria graminis f. sp. hordei DH14

Diplocarpon rosae

Marssonina brunnea f. sp. 'multigermtubi' MB_m1

Hyaloscypha variabilis F

Meliniomyces bicolor E

Glarea lozoyensis ATCC 20868

Sclerotinia borealis F-4128

Sclerotinia sclerotiorum 1980 UF-70 ASM14694v1

Botrytis cinerea B05.10

Phialocephala scopiformis

Phialocephala subalpina

Rhynchosporium agropyri

Rhynchosporium secalis

Rhynchosporium commune

Cadophora sp. DSE1049

Rutstroemia sp. NJR-2017a BBW

Rutstroemia sp. NJR-2017a WRK4

Rutstroemia sp. NJR-2017a BVV2

Pezoloma ericae

Verticillium dahliae VdLs.17

Verticillium longisporum vl2.denovo.v1

Colletotrichum graminicola M1.001

Colletotrichum fructicola Nara gc5

Colletotrichum higginsianum

Colletotrichum orbiculare MAFF 240422

Lomentospora prolificans

Scedosporium apiospermum

Ceratocystis platani

Thielaviopsis punctulata

Cordyceps confragosa RCEF 1005

Beauveria brongniartii RCEF 3172

Cordyceps fumosorosea ARSEF 2679

Cordyceps militaris CM01

Cordyceps sp. RAO-2017

Beauveria bassiana ASM168263v1

Acremonium chrysogenum ATCC 11550

Ustilaginoidea virens Assembly_for_version_1_of_the_Villosiclava_virens_genome

Fusarium fujikuroi EF1

Fusarium verticillioides 7600

Fusarium graminearum CS3005v1

Fusarium pseudograminearum CS3096

Fusarium culmorum CS7071

[Nectria] haematococca mpVI 77-13-4

Fusarium oxysporum f. sp. lycopersici 4287 FO2

Neonectria ditissima

Stachybotrys chartarum IBT 40288

Stachybotrys chlorohalonata IBT 40285

Trichoderma asperellum CBS 433.97

Trichoderma parareesei

Trichoderma citrinoviride

Trichoderma guizhouense

Trichoderma harzianum ASM98886v1

Trichoderma atroviride IMI 206040

Trichoderma reesei QM6a

Trichoderma longibrachiatum ATCC 18648

Trichoderma virens Gv29-8

Trichoderma gamsii

Escovopsis weberi

Ophiocordyceps australis OphauG2

Ophiocordyceps camponoti-rufipedis

Tolypocladium capitatum

Tolypocladium paradoxum

Tolypocladium ophioglossoides CBS 100239

Drechmeria coniospora

Purpureocillium lilacinum ASM165320v1

Hirsutella minnesotensis 3608

Metarhizium acridum CQMa 102

Metarhizium robertsii ARSEF 23

Metarhizium album ARSEF 1941

Metarhizium rileyi RCEF 4871

Metarhizium majus ARSEF 297

Pochonia chlamydosporia 170

Torrubiella hemipterigena

Moelleriella libera RCEF 2490

Claviceps purpurea 20.1

Gaeumannomyces tritici R3-111a-1

Pyricularia oryzae 70-15

Magnaporthiopsis poae ATCC 64411

Sporothrix schenckii ATCC 58251

Sporothrix insectorum RCEF 264

Sporothrix brasiliensis 5110

Ophiostoma piceae UAMH 11346

Grosmannia clavigera kw1407

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

Diaporthe ampelina

Diaporthe helianthi

Coniella lustricola

Valsa mali var. pyri

Phaeoacremonium minimum UCRPA7

Coniochaeta ligniaria NRRL 30616

Hypoxylon sp. CI-4A

Daldinia sp. EC12

Eutypa lata UCREL1

Pseudomassariella vexata

Rosellinia necatrix

Pestalotiopsis fici W106-1

Microdochium bolleyi

Rachicladosporium sp. CCFEE 5018

Rachicladosporium antarcticum

Baudoinia panamericana UAMH 10762

Hortaea werneckii EXF-2000

Pseudocercospora fijiensis CIRAD86

Pseudocercospora musae

Zymoseptoria brevis

Zymoseptoria tritici IPO323

Cercospora zeina

Cercospora berteroae

Cercospora beticola

Ramularia collo-cygni

Dothistroma septosporum NZE10

Pseudocercospora eumusae

Sphaerulina musiva SO2202

Aureobasidium pullulans EXF-150

Aureobasidium subglaciale EXF-2481

Aureobasidium namibiae CBS 147.97

Aureobasidium melanogenum CBS 110374

Elsinoe australis

Diplodia seriata UCDDS831v0.1

Diplodia corticola

Neofusicoccum parvum UCRNP2

Macrophomina phaseolina MS6

Acidomyces richmondensis BFW

Coniosporium apollinis CBS 100218

Paraphaeosphaeria sporulosa

Periconia macrospinosa

Stagonospora sp. SRC1lsM3a

Epicoccum nigrum

Ascochyta rabiei

Pyrenophora teres f. teres 0-1

Pyrenophora tritici-repentis Pt-1C-BFP

Bipolaris zeicola 26-R-13

Bipolaris victoriae FI3

Bipolaris sorokiniana ND90Pr

Bipolaris oryzae ATCC 44560

Bipolaris maydis C5

Exserohilum turcica Et28A

Alternaria alternata

Stemphylium lycopersici

Pyrenochaeta sp. DS3sAY3a

Leptosphaeria maculans JN3

Parastagonospora nodorum SN15

Clohesyomyces aquaticus

Corynespora cassiicola Philippines

Xylona heveae TC161

Sugiyamaella lignohabitans

Wickerhamiella sorbophila

Clavispora lusitaniae ATCC 42720

[Candida] auris ASM118947v1

Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993

Nadsonia fulvescens var. elongata DSM 6958

Kuraishia capsulata CBS 1993

Cyberlindnera jadinii

Cyberlindnera fabianii ASM320585v1

Wickerhamomyces ciferrii

Wickerhamomyces anomalus NRRL Y-366-8

Komagataella phaffii GS115 GCA_000027005.1

Komagataella phaffii GS115 ASM174695v1

Ogataea parapolymorpha DL-1

Ogataea polymorpha

Pichia membranifaciens NRRL Y-2026

Pichia kudriavzevii ASM76445v1

Brettanomyces bruxellensis AWRI1499

Hanseniaspora osmophila

Hanseniaspora opuntiae

Hanseniaspora valbyensis NRRL Y-1626

Hanseniaspora guilliermondii

Hanseniaspora uvarum DSM 2768

Candida albicans SC5314 Cand_albi_SC5314_V4

Candida tropicalis MYA-3404

Candida parapsilosis

Lodderomyces elongisporus NRRL YB-4239

Debaryomyces fabryi

Debaryomyces hansenii CBS767

Babjeviella inositovora NRRL Y-12698

Hyphopichia burtonii NRRL Y-1933

Suhomyces tanzawaensis NRRL Y-17324

Spathaspora passalidarum NRRL Y-27907

Scheffersomyces stipitis CBS 6054

Millerozyma farinosa CBS 7064

Meyerozyma guilliermondii ATCC 6260

Kazachstania africana CBS 2517

Kazachstania naganishii CBS 8797

Eremothecium gossypii ATCC 10895

Eremothecium gossypii FDAG1

Eremothecium cymbalariae DBVPG#7215

Lachancea dasiensis CBS 10888

Lachancea lanzarotensis

Tetrapisispora blattae CBS 6284

Tetrapisispora phaffii CBS 4417

Naumovozyma dairenensis CBS 421

Naumovozyma castellii CBS 4309

Kluyveromyces lactis

Kluyveromyces marxianus DMKU3-1042

Kluyveromyces dobzhanskii CBS 2104

Zygosaccharomyces rouxii ASM2636v1

Zygosaccharomyces bailii CLIB 213

Zygosaccharomyces parabailii

Saccharomyces arboricola H-6

Saccharomyces kudriavzevii IFO 1802

Saccharomyces sp. 'boulardii' ASM129837v2

Saccharomyces eubayanus

Saccharomyces cerevisiae S288C

Torulaspora delbrueckii

Saccharomycetaceae sp. 'Ashbya aceri'

[Candida] glabrata ASM254v2

Pachysolen tannophilus NRRL Y-2460

Vanderwaltozyma polyspora DSM 70294

Tortispora caseinolytica NRRL Y-17796

Ascoidea rubescens DSM 1968

Yarrowia lipolytica YALIA101

Lipomyces starkeyi NRRL Y-11557

Pneumocystis jirovecii RU7

Pneumocystis carinii B80

Pneumocystis murina B123

Schizosaccharomyces japonicus yFS275

Schizosaccharomyces octosporus yFS286

Schizosaccharomyces pombe 972h-

Schizosaccharomyces cryophilus OY26

Saitoella complicata NRRL Y-17804 Scomplicata_3.0

Protomyces lactucaedebilis

Neolecta irregularis DAH-3

Puccinia graminis f. sp. tritici 04KEN156/4

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

Puccinia striiformis

Puccinia coronata var. avenae f. sp. avenae

Puccinia triticina 1-1 BBBD Race 1

Puccinia sorghi

Melampsora larici-populina 98AG31

Microbotryum intermedium

Microbotryum lychnidis-dioicae p1A1 Lamole

Rhodotorula graminis WP1

Rhodotorula toruloides ATCC 204091

Leucosporidium creatinivorum

Mixia osmundae IAM 14324 Mosmundae_2.0

Ustilago maydis 521

Ustilago hordei

Moesziomyces antarcticus T-34

Moesziomyces aphidis DSM 70725

Anthracocystis flocculosa PF-1

Pseudozyma hubeiensis SY62

Kalmanozyma brasiliensis GHG001

Sporisorium reilianum SRZ2

Testicularia cyperi

Malassezia vespertilionis

Malassezia globosa CBS 7966

Malassezia pachydermatis

Malassezia sympodialis ATCC 42132 ASM34930v2

Acaromyces ingoldii

Meira miltonrushii

Jaminaea rosea

Pseudomicrostroma glucosiphilum

Tilletia controversa

Tilletia caries

Tilletia walkeri

Tilletia indica

Tilletiopsis washingtonensis

Tilletiaria anomala UBC 951

Ceraceosorus guamensis

Violaceomyces palustris

Cutaneotrichosporon oleaginosum

Trichosporon asahii var. asahii CBS 8904

Kwoniella dejecticola CBS 10117

Kwoniella bestiolae CBS 10118

Kwoniella pini CBS 10737

Cryptococcus neoformans var. neoformans JEC21

Cryptococcus amylolentus CBS 6039

Cryptococcus depauperatus CBS 7841

Cryptococcus gattii WM276

Tsuchiyaea wingfieldii CBS 7118

Kockovaella imperatae

Tremella mesenterica DSM 1558

Naematelia encephala

Calocera cornea HHB12733

Calocera viscosa TUFC12733

Dacryopinax primogenitus

Wallemia ichthyophaga EXF-994

Wallemia mellicola CBS 633.66

Fibularhizoctonia sp. CBS 109695

Piloderma croceum F 1598

Pisolithus tinctorius Marx 270

Pisolithus microcarpus 441

Scleroderma citrinum Foug A

Suillus luteus UH-Slu-Lm8-n1

Rhizopogon vesiculosus

Coniophora puteana RWD-64-598 SS2

Serpula lacrymans var. lacrymans S7.3

Paxillus involutus ATCC 200175

Paxillus rubicundulus Ve08.2h10

Hydnomerulius pinastri MD-312

Moniliophthora roreri MCA 2997

Moniliophthora perniciosa FA553

Laccaria amethystina LaAM-08-1

Laccaria bicolor S238N-H82

Agaricus bisporus var. burnettii JB137-S8

Leucoagaricus sp. SymC.cos

Amanita thiersii Skay4041

Amanita muscaria Koide BX008

Lentinula edodes

Gymnopus luxurians FD-317 M1

Hypsizygus marmoreus

Termitomyces sp. J132

Armillaria solidipes

Armillaria gallica

Armillaria ostoyae

Cylindrobasidium torrendii FP15055 ss-10

Hypholoma sublateritium FD-334 SS-4

Galerina marginata CBS 339.88

Pleurotus ostreatus PC15

Hebeloma cylindrosporum h7

Fistulina hepatica ATCC 64428

Schizophyllum commune H4-8

Coprinopsis cinerea okayama7#130

Plicaturopsis crispa FD-325 SS-3

Jaapia argillacea MUCL 33604

Sistotremastrum suecicum HHB10207 ss-3

Sistotremastrum niveocremeum HHB9708

Fomitiporia mediterranea MF3/22

Pyrrhoderma noxium

Schizopora paradoxa

Neolentinus lepideus HHB14362 ss-1

Gloeophyllum trabeum ATCC 11539

Serendipita vermifera MAFF 305830

Serendipita indica DSM 11827

Rhizoctonia solani AG-1 IA

Botryobasidium botryosum FD-172 SS1

Tulasnella calospora MUT 4182

Stereum hirsutum FP-91666 SS1

Peniophora sp. CONT

Heterobasidion irregulare TC 32-1

Phanerochaete carnosa HHB-10118-sp

Phlebiopsis gigantea 11061_1 CR5-6

Daedalea quercina L-15889

Fomitopsis pinicola FP-58527 SS1

Laetiporus sulphureus 93-53

Wolfiporia cocos MD-104 SS10

Trametes pubescens

Trametes cinnabarina

Trametes versicolor FP-101664 SS1

Trametes coccinea BRFM310

Dichomitus squalens LYAD-421 SS1

Ganoderma sinense ZZ0214-1

Grifola frondosa

Fibroporia radiculosa

Gelatoporia subvermispora B

Phlebia centrifuga

Postia placenta Mad-698-R

Exidia glandulosa HHB12029

Punctularia strigosozonata HHB-11173 SS5

Sphaerobolus stellatus SS14

Conidiobolus coronatus NRRL 28638

Basidiobolus meristosporus CBS 931.73

Allomyces macrogynus ATCC 38327

Catenaria anguillulae PL171

Rozella allomycis CSF55

Paramicrosporidium saccamoebae

Absidia repens

Hesseltinella vesiculosa

Lichtheimia corymbifera JMRC:FSU:9682

Lichtheimia ramosa

Mucor circinelloides f. circinelloides 1006PhL