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

Tuber borchii

Tuber melanosporum Mel28

Tuber magnatum

Drechslerella stenobrocha 248

Arthrobotrys oligospora ATCC 24927

Dactylellina haptotyla CBS 200.50

Amorphotheca resinae ATCC 22711

Oidiodendron maius Zn

Erysiphe necator

Erysiphe pulchra

Blumeria graminis f. sp. hordei DH14

Sclerotinia sclerotiorum 1980 UF-70 ASM14694v1

Sclerotinia borealis F-4128

Botrytis cinerea B05.10

Marssonina brunnea f. sp. 'multigermtubi' MB_m1

Diplocarpon rosae

Meliniomyces bicolor E

Hyaloscypha variabilis F

Glarea lozoyensis ATCC 20868

Phialocephala scopiformis

Phialocephala subalpina

Rhynchosporium agropyri

Rhynchosporium commune

Rhynchosporium secalis

Cadophora sp. DSE1049

Rutstroemia sp. NJR-2017a BBW

Rutstroemia sp. NJR-2017a BVV2

Rutstroemia sp. NJR-2017a WRK4

Pezoloma ericae

Verticillium dahliae VdLs.17

Verticillium longisporum vl2.denovo.v1

Colletotrichum higginsianum

Colletotrichum graminicola M1.001

Colletotrichum orbiculare MAFF 240422

Colletotrichum fructicola Nara gc5

Scedosporium apiospermum

Lomentospora prolificans

Ceratocystis platani

Thielaviopsis punctulata

Stachybotrys chlorohalonata IBT 40285

Stachybotrys chartarum IBT 40288

Fusarium verticillioides 7600

Fusarium fujikuroi EF1

Fusarium graminearum CS3005v1

Fusarium pseudograminearum CS3096

Fusarium culmorum CS7071

[Nectria] haematococca mpVI 77-13-4

Fusarium oxysporum f. sp. lycopersici 4287 FO2

Neonectria ditissima

Trichoderma longibrachiatum ATCC 18648

Trichoderma parareesei

Trichoderma reesei QM6a

Trichoderma harzianum ASM98886v1

Trichoderma virens Gv29-8

Trichoderma guizhouense

Trichoderma gamsii

Trichoderma atroviride IMI 206040

Trichoderma citrinoviride

Trichoderma asperellum CBS 433.97

Escovopsis weberi

Ustilaginoidea virens Assembly_for_version_1_of_the_Villosiclava_virens_genome

Acremonium chrysogenum ATCC 11550

Cordyceps sp. RAO-2017

Cordyceps fumosorosea ARSEF 2679

Cordyceps militaris CM01

Beauveria brongniartii RCEF 3172

Cordyceps confragosa RCEF 1005

Beauveria bassiana ASM168263v1

Ophiocordyceps camponoti-rufipedis

Ophiocordyceps australis OphauG2

Tolypocladium paradoxum

Tolypocladium ophioglossoides CBS 100239

Tolypocladium capitatum

Drechmeria coniospora

Purpureocillium lilacinum ASM165320v1

Hirsutella minnesotensis 3608

Metarhizium acridum CQMa 102

Metarhizium album ARSEF 1941

Metarhizium robertsii ARSEF 23

Metarhizium majus ARSEF 297

Metarhizium rileyi RCEF 4871

Torrubiella hemipterigena

Claviceps purpurea 20.1

Moelleriella libera RCEF 2490

Pochonia chlamydosporia 170

Daldinia sp. EC12

Hypoxylon sp. CI-4A

Rosellinia necatrix

Pestalotiopsis fici W106-1

Pseudomassariella vexata

Eutypa lata UCREL1

Microdochium bolleyi

Neurospora tetrasperma FGSC 2509

Neurospora crassa OR74A

Sordaria macrospora k-hell

Chaetomium globosum CBS 148.51

Chaetomium thermophilum var. thermophilum DSM 1495

Thielavia terrestris NRRL 8126

Thermothelomyces thermophilus ATCC 42464

Madurella mycetomatis

Diaporthe helianthi

Diaporthe ampelina

Valsa mali var. pyri

Coniella lustricola

Sporothrix brasiliensis 5110

Sporothrix schenckii ATCC 58251

Sporothrix insectorum RCEF 264

Ophiostoma piceae UAMH 11346

Grosmannia clavigera kw1407

Magnaporthiopsis poae ATCC 64411

Gaeumannomyces tritici R3-111a-1

Pyricularia oryzae 70-15

Coniochaeta ligniaria NRRL 30616

Phaeoacremonium minimum UCRPA7

Talaromyces stipitatus ATCC 10500

Talaromyces cellulolyticus

Talaromyces islandicus

Talaromyces marneffei ATCC 18224

Talaromyces atroroseus

Rasamsonia emersonii CBS 393.64

Penicillium antarcticum

Penicillium camemberti FM 013

Penicillium brasilianum Pbras_Allpaths-LG

Aspergillus clavatus NRRL 1

Aspergillus nidulans FGSC A4 ASM1142v1

Aspergillus fumigatus

Aspergillus oryzae RIB40

Aspergillus niger ASM285v2

Aspergillus terreus NIH2624

Aspergillus flavus NRRL3357

Aspergillus fischeri NRRL 181

Penicilliopsis zonata CBS 506.65

Elaphomyces granulatus

Byssochlamys spectabilis No. 5

Coccidioides immitis H538.4

Coccidioides posadasii str. Silveira

Paracoccidioides lutzii Pb01

Paracoccidioides brasiliensis Pb18

Trichophyton violaceum

Trichophyton equinum CBS 127.97

Trichophyton interdigitale MR816

Trichophyton mentagrophytes

Trichophyton rubrum CBS 118892

Trichophyton verrucosum HKI 0517

Trichophyton benhamiae CBS 112371

Trichophyton soudanense CBS 452.61

Trichophyton tonsurans CBS 112818

Microsporum canis CBS 113480

Nannizzia gypsea CBS 118893

Emmonsia crescens UAMH 3008

Blastomyces silveriae

Emmonsia sp. CAC-2015a

Blastomyces percursus

Blastomyces gilchristii SLH14081

Blastomyces dermatitidis ER-3

Emergomyces pasteurianus Ep9510

Histoplasma capsulatum NAm1

Helicocarpus griseus UAMH5409

Polytolypa hystricis UAMH7299

Ascosphaera apis ARSEF 7405

Uncinocarpus reesii 1704

Capronia epimyces CBS 606.96

Capronia coronata CBS 617.96

Phialophora americana

Phialophora attae

Fonsecaea erecta

Fonsecaea pedrosoi CBS 271.37

Fonsecaea nubica

Fonsecaea monophora

Fonsecaea multimorphosa CBS 102226

Cladophialophora yegresii CBS 114405

Cladophialophora bantiana CBS 173.52

Cladophialophora psammophila CBS 110553

Cladophialophora carrionii

Cladophialophora immunda

Exophiala dermatitidis NIH/UT8656

Exophiala sideris

Exophiala aquamarina CBS 119918

Exophiala mesophila

Exophiala oligosperma

Exophiala spinifera

Exophiala xenobiotica

Rhinocladiella mackenziei CBS 650.93

Cyphellophora europaea CBS 101466

Endocarpon pusillum Z07020

Phaeomoniella chlamydospora

Diplodia corticola

Diplodia seriata UCDDS831v0.1

Macrophomina phaseolina MS6

Neofusicoccum parvum UCRNP2

Acidomyces richmondensis BFW

Coniosporium apollinis CBS 100218

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 berteroae

Cercospora zeina

Cercospora beticola

Pseudocercospora eumusae

Sphaerulina musiva SO2202

Ramularia collo-cygni

Dothistroma septosporum NZE10

Aureobasidium pullulans EXF-150

Aureobasidium subglaciale EXF-2481

Aureobasidium namibiae CBS 147.97

Aureobasidium melanogenum CBS 110374

Elsinoe australis

Periconia macrospinosa

Stagonospora sp. SRC1lsM3a

Paraphaeosphaeria sporulosa

Ascochyta rabiei

Epicoccum nigrum

Pyrenophora tritici-repentis Pt-1C-BFP

Pyrenophora teres f. teres 0-1

Bipolaris maydis C5

Bipolaris victoriae FI3

Bipolaris oryzae ATCC 44560

Bipolaris zeicola 26-R-13

Bipolaris sorokiniana ND90Pr

Alternaria alternata

Exserohilum turcica Et28A

Stemphylium lycopersici

Leptosphaeria maculans JN3

Pyrenochaeta sp. DS3sAY3a

Parastagonospora nodorum SN15

Clohesyomyces aquaticus

Corynespora cassiicola Philippines

Xylona heveae TC161

Clavispora lusitaniae ATCC 42720

[Candida] auris ASM118947v1

Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993

Sugiyamaella lignohabitans

Wickerhamiella sorbophila

Kuraishia capsulata CBS 1993

Nadsonia fulvescens var. elongata DSM 6958

Ogataea polymorpha

Ogataea parapolymorpha DL-1

Pichia kudriavzevii ASM76445v1

Pichia membranifaciens NRRL Y-2026

Brettanomyces bruxellensis AWRI1499

Komagataella phaffii GS115 ASM174695v1

Komagataella phaffii GS115 GCA_000027005.1

Wickerhamomyces ciferrii

Wickerhamomyces anomalus NRRL Y-366-8

Cyberlindnera fabianii ASM320585v1

Cyberlindnera jadinii

Hanseniaspora valbyensis NRRL Y-1626

Hanseniaspora osmophila

Hanseniaspora opuntiae

Hanseniaspora uvarum DSM 2768

Hanseniaspora guilliermondii

Candida tropicalis MYA-3404

Candida parapsilosis

Candida albicans SC5314 Cand_albi_SC5314_V4

Lodderomyces elongisporus NRRL YB-4239

Debaryomyces hansenii CBS767

Debaryomyces fabryi

Hyphopichia burtonii NRRL Y-1933

Spathaspora passalidarum NRRL Y-27907

Millerozyma farinosa CBS 7064

Scheffersomyces stipitis CBS 6054

Babjeviella inositovora NRRL Y-12698

Suhomyces tanzawaensis NRRL Y-17324

Meyerozyma guilliermondii ATCC 6260

Naumovozyma dairenensis CBS 421

Naumovozyma castellii CBS 4309

Kazachstania africana CBS 2517

Kazachstania naganishii CBS 8797

Lachancea dasiensis CBS 10888

Lachancea lanzarotensis

Tetrapisispora blattae CBS 6284

Tetrapisispora phaffii CBS 4417

Eremothecium gossypii ATCC 10895

Eremothecium gossypii FDAG1

Eremothecium cymbalariae DBVPG#7215

Kluyveromyces marxianus DMKU3-1042

Kluyveromyces dobzhanskii CBS 2104

Kluyveromyces lactis

Zygosaccharomyces bailii CLIB 213

Zygosaccharomyces parabailii

Zygosaccharomyces rouxii ASM2636v1

Saccharomyces eubayanus

Saccharomyces sp. 'boulardii' ASM129837v2

Saccharomyces kudriavzevii IFO 1802

Saccharomyces cerevisiae S288C

Saccharomyces arboricola H-6

Vanderwaltozyma polyspora DSM 70294

[Candida] glabrata ASM254v2

Saccharomycetaceae sp. 'Ashbya aceri'

Pachysolen tannophilus NRRL Y-2460

Torulaspora delbrueckii

Ascoidea rubescens DSM 1968

Lipomyces starkeyi NRRL Y-11557

Yarrowia lipolytica YALIA101

Tortispora caseinolytica NRRL Y-17796

Pneumocystis murina B123

Pneumocystis jirovecii RU7

Pneumocystis carinii B80

Schizosaccharomyces octosporus yFS286

Schizosaccharomyces cryophilus OY26

Schizosaccharomyces japonicus yFS275

Schizosaccharomyces pombe 972h-

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 triticina 1-1 BBBD Race 1

Puccinia striiformis

Puccinia coronata var. avenae f. sp. avenae

Puccinia sorghi

Melampsora larici-populina 98AG31

Rhodotorula graminis WP1

Rhodotorula toruloides ATCC 204091

Microbotryum intermedium

Microbotryum lychnidis-dioicae p1A1 Lamole

Leucosporidium creatinivorum

Mixia osmundae IAM 14324 Mosmundae_2.0

Ustilago hordei

Ustilago maydis 521

Moesziomyces aphidis DSM 70725

Moesziomyces antarcticus T-34

Pseudozyma hubeiensis SY62

Anthracocystis flocculosa PF-1

Kalmanozyma brasiliensis GHG001

Sporisorium reilianum SRZ2

Testicularia cyperi

Malassezia sympodialis ATCC 42132 ASM34930v2

Malassezia pachydermatis

Malassezia vespertilionis

Malassezia globosa CBS 7966

Acaromyces ingoldii

Meira miltonrushii

Jaminaea rosea

Pseudomicrostroma glucosiphilum

Tilletia indica

Tilletia walkeri

Tilletia caries

Tilletia controversa

Tilletiopsis washingtonensis

Tilletiaria anomala UBC 951

Ceraceosorus guamensis

Violaceomyces palustris

Cutaneotrichosporon oleaginosum

Trichosporon asahii var. asahii CBS 8904

Kwoniella bestiolae CBS 10118

Kwoniella pini CBS 10737

Kwoniella dejecticola CBS 10117

Cryptococcus gattii WM276

Cryptococcus amylolentus CBS 6039

Cryptococcus depauperatus CBS 7841

Cryptococcus neoformans var. neoformans JEC21

Tsuchiyaea wingfieldii CBS 7118

Tremella mesenterica DSM 1558

Kockovaella imperatae

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 rubicundulus Ve08.2h10

Paxillus involutus ATCC 200175

Hydnomerulius pinastri MD-312

Armillaria solidipes

Armillaria gallica

Armillaria ostoyae

Cylindrobasidium torrendii FP15055 ss-10

Gymnopus luxurians FD-317 M1

Lentinula edodes

Termitomyces sp. J132

Hypsizygus marmoreus

Hypholoma sublateritium FD-334 SS-4

Galerina marginata CBS 339.88

Laccaria bicolor S238N-H82

Laccaria amethystina LaAM-08-1

Agaricus bisporus var. burnettii JB137-S8

Leucoagaricus sp. SymC.cos

Moniliophthora roreri MCA 2997

Moniliophthora perniciosa FA553

Amanita muscaria Koide BX008

Amanita thiersii Skay4041

Hebeloma cylindrosporum h7

Coprinopsis cinerea okayama7#130

Pleurotus ostreatus PC15

Schizophyllum commune H4-8

Fistulina hepatica ATCC 64428

Jaapia argillacea MUCL 33604

Plicaturopsis crispa FD-325 SS-3

Fomitiporia mediterranea MF3/22

Pyrrhoderma noxium

Schizopora paradoxa

Neolentinus lepideus HHB14362 ss-1

Gloeophyllum trabeum ATCC 11539

Sistotremastrum niveocremeum HHB9708

Sistotremastrum suecicum HHB10207 ss-3

Serendipita indica DSM 11827

Serendipita vermifera MAFF 305830

Tulasnella calospora MUT 4182

Botryobasidium botryosum FD-172 SS1

Rhizoctonia solani AG-1 IA

Heterobasidion irregulare TC 32-1

Stereum hirsutum FP-91666 SS1

Peniophora sp. CONT

Fomitopsis pinicola FP-58527 SS1

Daedalea quercina L-15889

Phanerochaete carnosa HHB-10118-sp

Phlebiopsis gigantea 11061_1 CR5-6

Laetiporus sulphureus 93-53

Wolfiporia cocos MD-104 SS10

Trametes cinnabarina

Trametes coccinea BRFM310

Trametes pubescens

Trametes versicolor FP-101664 SS1

Dichomitus squalens LYAD-421 SS1

Ganoderma sinense ZZ0214-1

Grifola frondosa

Postia placenta Mad-698-R

Gelatoporia subvermispora B

Fibroporia radiculosa

Phlebia centrifuga

Punctularia strigosozonata HHB-11173 SS5

Exidia glandulosa HHB12029

Sphaerobolus stellatus SS14

Basidiobolus meristosporus CBS 931.73

Conidiobolus coronatus NRRL 28638

Paramicrosporidium saccamoebae

Rozella allomycis CSF55

Allomyces macrogynus ATCC 38327

Catenaria anguillulae PL171

Absidia repens

Hesseltinella vesiculosa

Lichtheimia ramosa

Lichtheimia corymbifera JMRC:FSU:9682

Rhizopus microsporus Rmicro_CBS_344.29_Allpaths-LG