supplementary figures and tables
Post on 09-Feb-2022
6 Views
Preview:
TRANSCRIPT
Supplementary figures and tables
Figure S1. Chronogram for Amanita. Time scale set to millions of years. Maximum clade credibility (MCC) tree with median node heights based on the nucLSU region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represent posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 129 Ma (standard deviation [sd] 17 Ma) and the split between Pluteus and Amanita an age prior with mean 89 Ma (sd 15 Ma). The cut off for OTUs were set to 0.01 expected substitutions per site.
0.025.050.075.0100.0125.0
GQ250424 Amanita velosa
AF024484 Amanita virgineoides
GQ250414 Amanita gemmata
EU522724 Amanita aff. vaginata
AF024471 Amanita pseudoporphyria
AF024475 Amanita solitaria
AF024487 Amanita aff. volvata
AY436487 Amanita altipes
AF024479 Amanita subjunquillea
AF024480 Amanita sychnopyramis
AF024462 Amanita longistriata
AF024445 Amanita chepangiana
AY436496 Amanita orientifulva
FJ011683 Amanita oberwinklerana
AF024485 Amanita volvata
FN557542 uncultured ectomycorrhiza
AF097370 Amanita farinosaAF024464 Amanita mira
AF024488 Amanita yuaniana
AF024447 Amanita citrina var. grisea
AF097389 Amanita solitariiformis
AF024486 Amanita cf. virosa
AF024442 Amanita brunneofuliginea
AY436495 Amanita griseoverrucosa
AF024482 Amanita vaginata
FJ236806 Amanita coacta
FJ890037 Amanita sp.
EU522816 Amanita flavoconia
AF024458 Amanita hemibapha var. ochracea
AF097372 Amanita ceciliae
AY194983 Amanita conicoverrucosa
AF024454 Amanita fuliginea
AF024460 Amanita japonica
GQ250423 Amanita silvicolaAF024476 Amanita strobiliformis
GQ250426 Amanita sp.
AY436493 Amanita liquii
AF097373 Amanita fulva
GQ250421 Amanita aff. pantherina
AY325879 Amanita arocheae
AF024466 Amanita nivalis
AY436500 Amanita porphyria
AF024449 Amanita excelsa
AF097369 Amanita roseo-tincta
GQ250419 Amanita ocreataGQ250420 Amanita ocreata
AF024441 Amanita avellaneosquamosa
AY436497 Amanita orientigemmata
AF261436 Amanita armillariiformis
FJ890035 Amanita xylinivolva
EU071974 Amanita muscaria
GQ925378 Amanita sp.
AF024468 Amanita pantherina var. lutea
AF024477 Amanita subfrostiana
AF024474 Amanita sinensis
AF097371 Amanita gemmata
AF024470 Amanita pilosella
FJ890041 Amanita flavoconia
AF024440 Amanita angustilamellata
AY700180 Entoloma prunuloides
DQ071721 Amanita phalloides
AF024448 Amanita clarisquamosa
GQ925372 Amanita sp.
AF097387 Amanita peckiana
FJ890045 Amanita humboldtii
AF024472 Amanita pseudovaginata
AY436492 Amanita exitialis
EF653958 Amanita ponderosa
GQ925369 Amanita sp.
AF024446 Amanita citrina
AF024451 Amanita flavipes
AF024463 Amanita manginiana
AF024443 Amanita caesarea
AY436501 Amanita sepiacea
GQ250416 Amanita aff. lanei
FJ705276 Amanita submembranacea
FJ890040 Amanita sp.
AF097384 Amanita bisporigera
AF024459 Amanita incarnatifolia
FJ890046 Amanita citrina
AF042608 Amanita peckiana
GQ250427 Amanita sp.
AF024473 Amanita rubrovolvata
FJ011682 Amanita kotohiraensis
FJ890043 Amanita rubescens
AY194984 Amanita nauseosa
AY436489 Amanita aff. citrina
AF097381 Amanita franchetii
FJ755189 Amanita virosa
AF024444 Amanita ceciliae
AF097374 Amanita vaginata
AF097379 Amanita brunnescensAF097378 Amanita citrina
AF024452 Amanita fritillaria
EF653960 Amanita curtipes
AF024461 Amanita lignitincta
AY228351 Amanita constricta
AF097386 Amanita virosa
AF024455 Amanita fulva
AF024453 Amanita frostiana
FJ011681 Amanita kotohiraensis
GQ925376 Amanita sp.
AY634279 Pluteus romellii
1
0.8853
0.3145
0.1855
0.9234
0.8953
1
0.6044
1
0.5004
1
1
0.4124
0.6766
0.4427
0.0948
0.1836
0.1701
0.4076
0.3082
0.6944
1
0.8415
0.9999
0.1078
0.2804
0.9555
0.8484
0.8823
0.7163
0.701
0.7196
0.5629
0.2195
0.6872
0.4897
0.3096
0.9928
0.9685
0.9983
0.854
1
0.4882
1
0.7853
0.2011
0.5585
0.2875
0.9932
0.6827
1
0.382
0.2577
0.8315
1
0.9465
1
0.8239
1
1
0.9883
1
0.0817
0.5333
0.34
0.9975
0.8647
1
0.6627
0.6091
0.9569
0.4928
0.7026
0.9987
0.9379
0.2258
1
0.8013
0.5427
0.6734
1
0.5163
0.93390.9993
0.9021
0.8079
0.7978
0.1795
0.6329
0.7897
0.552
1
0.34720.048
1
0.4365
0.6641
0.3788
0.8289
0.1839
1
Figure S2. Chronogram for Catathelasma. Time scale set to millions of years. MCC tree with median node heights based on the nucLSU region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represent posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 129 Ma (sd 17 Ma) and the split between Tricholoma and Lyophyllum an age prior with mean 103 Ma (sd 15 Ma). The cut off for OTUs was set to 0.05 expected substitutions per site.
0.025.050.075.0100.0125.0150.0
DQ470813 Mycena plumbea
AY207228 Lyophyllum decastes
DQ071710 Agaricus bisporus
AF261401 Catathelasma ventricosum
DQ071743 Catathelasma imperiale
AY647208 Clitocybe subvelosa
U76459 Tricholoma myomyces
0.99
1
0.51
0.62
0.98
A. 0.010.020.030.040.050.060.070.0
GQ159823 Cortinarius leucopus
GQ166894 Cortinarius torvus
GQ159881 Cortinarius acutus
AY656956 uncultured mycorrhiza
AY083177 Cortinarius alnetorum
EU266662 Cortinarius cicindela
FJ039674 Cortinarius paragaudis
FJ039571 Cortinarius calopus
EU266706 Cortinarius pseudorubricosus
EU597033 uncultured ectomycorrhiza
EU525988 Cortinarius sp.
FN393170 Cortinarius sp.
AY656930 uncultured mycorrhiza
EU326170 uncultured ectomycorrhiza
AF481375 ectomycorrhiza
AF389155 Cortinarius pulchellus
GQ159884 Cortinarius velenovskyi
DQ054565 uncultured fungus
GQ166908 Cortinarius sp.
GQ159869 Cortinarius limonius
AY669682 Cortinarius bivelus
EU266656 Cortinarius sp.
DQ102658 Cortinarius sp.
FJ039676 Cortinarius niveoglobosus
FJ039707 Cortinarius cf. gentilis
AY656969 uncultured mycorrhiza
DQ117929 Cortinarius anisatus
DQ822800 Cortinarius sp.
AY040712 Cortinarius betuletorum
FJ717574 Cortinarius traganus
AJ534712 Cortinarius sp.
GQ159762 Cortinarius velenovskyi
EU554858 uncultured fungus
FJ717538 Cortinarius casimiri
EU292325 uncultured fungus
FJ197010 uncultured ectomycorrhiza
AY969578 uncultured basidiomycete
FJ196918 uncultured ectomycorrhiza
DQ102656 Cortinarius sp.
FJ039543 Cortinarius hemitrichus
DQ822801 uncultured ectomycorrhiza
FJ157004 Cortinarius alboviolaceus
GQ159796 Cortinarius alnetorum
GQ159883 Cortinarius candelaris
GQ159815 Cortinarius fulvescens
EF077502 uncultured ectomycorrhiza
AF481377 ectomycorrhizal root
AY669683 Cortinarius flexipes
AJ889975 Cortinarius praestigiosus
AY299227 uncultured ectomycorrhizaAJ937990 uncultured ectomycorrhiza
DQ273376 uncultured Cortinariaceae
AY083179 Cortinarius cedriolens
EF420149 Cortinarius carranzae
AY669657 Cortinarius alboviolaceus
AF268894 Cortinarius heterosporus
DQ102686 Cortinarius helobius
GQ159855 Cortinarius leucopus
EU819499 Cortinarius subsertipes
FJ554172 uncultured Cortinarius
FJ717530 Cortinarius cf. subpurpureus
AY083189 Cortinarius saturninus
EU266695 Cortinarius glandicolor
AF325593 Cortinarius leucopus
AJ889970 Cortinarius diasemospermus
EU516955 uncultured Cortinarius
EU668286 uncultured Cortinarius
GQ159893 Cortinarius casimiri
EU525964 Cortinarius sp.
FJ039562 Cortinarius canabarba
DQ233767 uncultured ectomycorrhiza
DQ273374 uncultured Cortinariaceae
AY656961 uncultured mycorrhiza
AY669677 Cortinarius fulvoconicus
EF420141 Cortinarius quercoamillatus
GQ159826 Cortinarius vernus
FN393171 Cortinarius sp.
FJ039561 Cortinarius Telamonia sp.
FJ039678 Cortinarius californicus
DQ102685 Cortinarius cf. saniosus
AY669658 Cortinarius umbrinolens
EU819466 Cortinarius sp.
DQ102672 Cortinarius saniosus
EU266643 Cortinarius caesiobrunneus
EU668226 uncultured Cortinarius
EU597034 uncultured ectomycorrhiza
AF430265 Cortinarius sp.
DQ365638 Cortinarius sp.
FJ196916 uncultured ectomycorrhiza
EU821680 Cortinarius cf. subferrugineus
FJ553970 uncultured Cortinarius
AB218130 uncultured ectomycorrhiza
EF619679 uncultured Cortinarius
GQ159878 Cortinarius sp.
AY656929 uncultured mycorrhiza
DQ102655 Cortinarius sp.
FJ039683 Cortinarius viridipes
AY669670 Cortinarius anthracinus
FJ039684 Cortinarius everniusEU821665 Cortinarius obtusus
EF218746 uncultured ectomycorrhiza
FJ553976 uncultured Cortinarius
FJ946918 uncultured ectomycorrhiza
AY669689 Cortinarius turgidus
EF077496 uncultured ectomycorrhizaGQ159846 Cortinarius biformis
FJ717499 Cortinarius sp.
FN393112 Cortinarius tortuosus
AY822739 uncultured ectomycorrhiza
EF434051 uncultured fungus
DQ481860 uncultured ectomycorrhiza
AF325594 Cortinarius humidicola
AY669667 Cortinarius helvolus
EU554732 uncultured fungus
GQ159774 Cortinarius turibulosus
FJ039565 Cortinarius alboviolaceus
AJ534713 Cortinarius sp.
DQ481825 uncultured ectomycorrhiza
FJ717541 Cortinarius saniosus
AY669672 Cortinarius psammocephalus
FJ717497 Cortinarius vernus
GQ159889 Cortinarius aff. multicolor
AM902028 uncultured basidiomycete
FJ196911 uncultured ectomycorrhiza
EU266659 Cortinarius carabus
AY083190 Cortinarius urbicus
AY669676 Cortinarius cagei
FJ039537 Cortinarius pulchripes
FJ039540 Cortinarius sertipes
FJ039671 Cortinarius cf. duracinusAY669691 Cortinarius bovinus
EU526857 uncultured ectomycorrhiza
EU057110 uncultured ectomycorrhiza
AY669693 Cortinarius balaustinus
AJ879675 uncultured ectomycorrhiza
EU563509 uncultured ectomycorrhiza
AJ889942 Cortinarius aprinus
EU266633 Cortinarius albogaudis
EU222995 fungal sp.
DQ481858 uncultured ectomycorrhiza
FJ039566 Cortinarius duracinus
DQ149869 Laccaria bicolor
GQ159914 Cortinarius fulvescens
AY669662 Cortinarius cinnabarinus
FJ196915 uncultured ectomycorrhiza
DQ139986 Cortinarius furvolaesus
DQ139983 Cortinarius cf. bovinus
FJ717539 Cortinarius sp.
FJ475610 uncultured ectomycorrhiza
EU259284 Cortinarius brunneifolius
AY669681 Cortinarius malachius
EU554963 uncultured fungus
AY228359 Cortinarius cf. bovinus
DQ481804 uncultured ectomycorrhiza
AJ889977 Cortinarius torvus
FJ717583 Cortinarius badiovinaceus
AY669659 Cortinarius bulliardii
FJ717563 Cortinarius boulderensis
DQ377378 uncultured ectomycorrhiza
EF420145 Cortinarius savegrensis
AB251825 uncultured ectomycorrhiza
EU266676 Cortinarius clarobrunneus
DQ481748 uncultured ectomycorrhiza
DQ974715 Cortinarius cf. flexipes
EU668915 uncultured ectomycorrhiza
DQ990866 uncultured ectomycorrhiza
AY669665 Cortinarius hinnuleus
AY656931 uncultured mycorrhiza
AY083182 Cortinarius helvelloides
DQ499465 Cortinarius pseudobovinus
FJ039681 Cortinarius brunneus var. brunneus
EU292337 uncultured fungus
FJ717527 Cortinarius sp.
FJ039672 Cortinarius brunneus
FJ039541 Cortinarius vernusEU292302 uncultured fungus
AY299220 uncultured ectomycorrhiza
FJ039563 Cortinarius evernius
FM993205 uncultured ectomycorrhiza
GQ159913 Cortinarius fasciatus
EU821669 Cortinarius scandens
FJ196912 uncultured ectomycorrhiza
FJ039542 Cortinarius sertipes
DQ097874 Cortinarius junghuhnii
AY669694 Cortinarius pholideus
EU554798 uncultured fungus
U56032 Cortinarius umbilicatus
EU554827 uncultured fungus
EU821657 Cortinarius acutus
AM087248 Cortinarius flexipes
DQ367897 Cortinarius laniger
EU259288 Cortinarius leiocastaneus
DQ974714 Cortinarius cf. flexipes
FJ157109 Cortinarius angelesianus
FN393142 Cortinarius sp.
EU266682 Cortinarius coleoptera
FJ039708 Cortinarius flexipes
EU516924 uncultured Cortinariaceae
DQ140000 Cortinarius neofurvolaesus
DQ499460 Cortinarius hinnuleoarmillatus
FJ553806 uncultured Cortinarius
EU821662 Cortinarius fulvescens
GQ159818 Cortinarius sp.
FJ553158 uncultured Cortinarius
AB218204 uncultured ectomycorrhiza
DQ102682 Cortinarius cf. saniosus
GQ159898 Cortinarius laetissimus
DQ102665 Cortinarius saniosus
AY669673 Cortinarius rubricosus
U56023 Cortinarius californicus
AY669688 Cortinarius biformis
FJ157145 Cortinarius brunneus
FJ553489 uncultured Cortinarius
DQ974716 Cortinarius cf. flexipes
AF389154 Cortinarius bulliardii
AY669685 Cortinarius belleri
FJ196913 uncultured ectomycorrhiza
AY288094 uncultured fungus
EU693241 Cortinarius ionosmus
FJ717584 Cortinarius sp.
FJ266726 uncultured Cortinarius
EU516671 uncultured Cortinarius
GQ159820 Cortinarius sp.
FJ196917 uncultured ectomycorrhiza
EU529976 uncultured ectomycorrhiza
AY669692 Cortinarius subbalaustinus
FJ039572 Cortinarius calopus
EU266640 Cortinarius brunneus
AY669666 Cortinarius laniger
AJ889947 Cortinarius cf. decipiens
FJ717582 Cortinarius sp.
EU525984 Cortinarius sp.
AJ236075 Cortinarius armillatus
GQ159843 Cortinarius leucopus
EU693242 Cortinarius testaceofolius
FJ157129 Cortinarius colus
FN393130 Cortinarius sp.
0.52
0.44
0.1
0.05
1
0.55
0.1
0.380
1
1
0.91
0.57
0.99
0.63
0.17
0
0.62
1
0.52
1
0.01
0.86
0
0.74
0.8
0.08
1
0.70.78
1
0.87
0.74
0.97
0.16
0.4
0.42
0.54
0.7
0.25
0.19
0.56
1
1
1
0.18
0.99
1
1
0.01
1
0.26
0.21
0.81
0.971
1
0.36
0.94
1
0.12
0.09
1
0.47
1
0.62
0.51
0.57
0
1
1
0.41
0.61
0.95
0.11
0.07
0.110.35
0.46
1
0.25
0.28
1
0.02
0.33
1
0.83
0.03
1
0.07
0.67
0.21
0.93
1
0.11
0.96
0.69
0.86
0.21
0.79
0.26
0.48
0.99
0.92
1
0.73
0.96
0.11
0.07
1
0.93
1
0.84
0.9
0.58
1
1
1
1
0.5
0.99
0.61
1
0.97
1
0.27
0.39
0.76
1
0.87
0.06
1
0.85
1
1
0.92
1
0.13
0.74
1
1
0
0
1
1
0.93
0.66
1
1
1
0.01
0.86
0.04
0.08
0.37
1
1
0.13
1
1
0.9
1
0.19
0.01
0.19
0.920.89
0.24
0.32
1
0.96
0.26
1
0.15
0.47
1
0
1
0.28
1
0.96
1
0.05
0.12
0
0.7
1
1
1
0.93
1
1
0.15
0
0.03
0
0.22
0.02
1
0.15
0.81
0
0.79
1
0.6
0.02
1
0.02
1
0.89
0.03
0.31
1
0.88
1
0.31
0.29
1
1
1
0.17
1
1
0
0
0.52
1
0.17
0.74
0.67
0.99
0.02
0.88
1
1
0.95
0.74
B, C, D
B. 0.010.020.030.040.050.060.070.0
EU057007 Cortinarius viridirubescens
DQ083776 Cortinarius cf. calochrous
FJ717510 Cortinarius olympianus
EU655675 Cortinarius sp.
AY033118 Cortinarius mariae
DQ663325 Cortinarius langeorum
EF458010 Cortinariaceae sp.
EU057042 Cortinarius verrucisporus
DQ663408 Cortinarius rapaceotomentosus
EU057046 Cortinarius flavobulbus
FJ157055 Cortinarius limonius
EU057038 Cortinarius cedretorum
AY669642 Cortinarius lacteus
AY669599 Cortinarius rubicundulus
EU569248 Cortinarius sp.
AF539713 Cortinarius pugionipes
AY669519 Cortinarius caesiostramineus
AF539731 Cortinarius parahumilis
AY174785 Cortinarius glaucopus
DQ328130 Thaxterogaster sp.
AY669548 Cortinarius maire
EU056977 Cortinarius calochrous
EU525971 Cortinarius calyptratus
FJ717592 Cortinarius montanus
EU655685 Cortinarius cedretorum var. cedretorum
DQ974717 Cortinarius cf. glaucopus
DQ663340 Cortinarius meinhardii
EU660950 Cortinarius alboaggregatus
EU057032 Cortinarius fulmineus
FJ039617 Cortinarius ochrophyllus
AY040713 Cortinarius callisteus
DQ663364 Cortinarius olearioides
AY356323 Cortinarius sp
EU655670 Cortinarius splendificus
EU057026 Cortinarius saxamontanus
DQ663374 Cortinarius parasuaveolens
FJ039667 Cortinarius limonius
AF389138 Cortinarius variipes
AF478578 Cortinarius montanus var. fuligineofolius
DQ663316 Cortinarius haasii
DQ663462 Cortinarius sp.EU056993 Cortinarius guttatus
AF539730 Cortinarius austroturmalis
EU056998 Cortinarius elegantior
DQ663343 Cortinarius natalis
FJ039644 Cortinarius aureofulvus
FM202139 Cortinarius sp.
DQ663338 Cortinarius luteolus
DQ663288 Cortinarius dibaphus
FJ039662 Cortinarius argutus
EU057030 Cortinarius rufoolivaceus
AF389135 Cortinarius multiformis
DQ083818 Cortinarius viridocoeruleus
EF218755 uncultured ectomycorrhiza
FJ039660 Cortinarius purpurascens
EU056953 Cortinarius elotus
AY669639 Cortinarius persicanus
DQ323965 Cortinarius sp.
EU057021 Cortinarius fulmineus
DQ663470 Cortinarius sp.
AY669622 Cortinarius cretax
EU057059 Cortinarius largentii
AF389133 Cortinarius iodes
DQ328060 Cortinarius sebosus
AF539711 Cortinarius cervinus
AY174809 Cortinarius caesiocortinatus
AM998783 Cortinarius sp.
AY669523 Cortinarius glaucopus var. olivaceus
AF325602 Hymenogaster remyi
FM202128 Cortinarius sp.
EU057036 Cortinarius cedretorum
AY669525 Cortinarius gracilior
DQ663299 Cortinarius elegantissimus
EU056981 Cortinarius calochrous
DQ323964 Cortinarius corrosus
AY033120 Cortinarius arcuatorum
DQ083784 Cortinarius flavovirens
EU569254 Cortinarius sp.
EU056944 Cortinarius caroviolaceusDQ663417 Cortinarius rapaceoides
AY174836 Cortinarius odoratus
AF539710 Cortinarius aurantiorufus
DQ083789 Cortinarius langei
EU660938 Cortinarius calochrousEU056982 Cortinarius roseobulbus
EU056964 Cortinarius sp.
GQ159771 Cortinarius olearioides
AY669540 Cortinarius camptoros
DQ663262 Cortinarius catharinae
DQ083810 Cortinarius rapaceus
DQ663278 Cortinarius citrinus
DQ328160 Descomyces sp.
DQ663335 Cortinarius lilacinovelatus
DQ663426 Cortinarius spectabilis
EU655656 Cortinarius glaucescens
U56022 Cortinarius allutus
DQ663448 Cortinarius xanthochlorus
AJ236067 Cortinarius napus
DQ663434 Cortinarius sublilacinopes
DQ323962 Cortinarius sp.
EU057050 Cortinarius sp.
DQ663231 Cortinarius aureopulverulentus
EU057001 Cortinarius arcuatorum
DQ083793 Cortinarius luhmannii
AY669647 Cortinarius cyanites
AY669563 Cortinarius subarquatus
EU057064 Cortinarius parasuaveolens
EU057019 Cortinarius aurora
EU655666 Cortinarius montensis
EF420152 Cortinarius ovreboii
AY822737 uncultured ectomycorrhiza
AY669545 Cortinarius polymorphus
AY669538 Cortinarius purpurascens var. largusoides
EU684534 Cortinarius praetermissus
DQ328107 Thaxterogaster sp.
EU826089 Cortinarius pinophilus
AF389139 Cortinarius fulvoochrascens
DQ328146 Thaxterogaster sp.
AF062619 Cortinarius atrovirens
EU057017 Cortinarius flavobulbus
FJ946938 uncultured ectomycorrhiza
AY669531 Cortinarius allutus
DQ328117 Thaxterogaster sp.
FJ157035 Cortinarius croceocaeruleus
AY174807 Cortinarius anserinus
AY669566 Cortinarius nymphicolor
DQ328122 Thaxterogaster sp.
EU057077 Cortinarius ochraceopallescens
AY174860 Cortinarius boudieri
DQ663283 Cortinarius cupreorufus
EU056984 Cortinarius calochrous
FJ039634 Cortinarius allutus
AF389147 Cortinarius gymnopiloides
AY669546 Cortinarius caesiocanescens
DQ663236 Cortinarius barbarorum
FJ717511 Cortinarius sp.
DQ149869 Laccaria bicolor
FJ717559 Cortinarius sp.
DQ663324 Cortinarius insignibulbus
DQ328149 Thaxterogaster sp.
DQ083782 Cortinarius dionysae
EF218754 uncultured ectomycorrhiza
DQ663429 Cortinarius splendidior
AF325586 Cortinarius talus
AF478583 Cortinarius montanus
FJ157040 Cortinarius cyanites
AM709887 Cortinarius subgracilis
AY033119 Cortinarius talus
DQ663240 Cortinarius caesiocinctus
AY669615 Cortinarius australis
DQ663400 Cortinarius quercusilicis
FJ157118 Cortinarius cf. calochrous
DQ663223 Cortinarius atrovirens
AY174858 Cortinarius purpurascens
DQ083806 Cortinarius prasinocyaneus
DQ663466 Cortinarius sp
EU056991 Cortinarius suaveolens
AF539732 Cortinarius rubrivelatus
DQ663197 Cortinarius albertii
EU056950 Cortinarius pseudoglaucopus
AY669600 Cortinarius pseudotriumphans
AY174816 Cortinarius osmophorus
FJ039665 Cortinarius renidens
EU057023 Cortinarius xanthophyllus
EU057002 Cortinarius arcuatorum
AY669570 Cortinarius saporatus
DQ663284 Cortinarius dalecarlicus
AB218110 uncultured ectomycorrhizaFJ039661 Cortinarius mutabilis
EU655672 Cortinarius alnobetulae
DQ663380 Cortinarius calochrous var coniferarum
AF325620 Cortinarius odorifer
DQ663322 Cortinarius humolens
AF539716 Cortinarius flammuloides
FJ157015 Cortinarius callisteus
EU084982 Protoglossum viscidum
AF389141 Cortinarius fulvocitrinusAM709879 Cortinarius rickenianus
EU057004 Cortinarius arcuatorum
FJ195642 Cortinarius aquilanus
AF539722 Cortinarius permagnificus
EF600895 Cortinarius leucophanes
AF325603 Hymenogaster sublilacinus
AY669653 Cortinarius austroduracinus
EF420139 Cortinarius aurantiobrunneus
EU057070 Cortinarius frondosophilus
FJ039640 Cortinarius humolens
AY669609 Cortinarius vaginatus
AY033117 Cortinarius castoreus
FJ717594 Cortinarius sp.
DQ663390 Cortinarius prasinus
AY174853 Cortinarius lustratus
DQ663199 Cortinarius alcalinophilus
DQ974723 uncultured ectomycorrhiza
AF539717 Cortinarius viridibasalis
AY669533 Cortinarius balteatoalbus var. arenisilvis
AY174850 Cortinarius elegantior
AY174862 Cortinarius caerulescens
EF420150 Cortinarius comparioides
EU056976 Cortinarius magnivelatus
EU056978 Cortinarius calochrous var. barbaricus
AF478575 Cortinarius scaurus
FJ039616 Cortinarius glaucopus
EU056962 Cortinarius calochrous
AY040714 Cortinarius tophaceus
AY669537 Cortinarius aleuriosmus
EF014269 Cortinarius parafulmineus
EU057031 Cortinarius odorifer
DQ663464 Cortinarius sp.
AF503545 Cortinarius aureocalceolatus
1
0.36
0.08
1
0.64
0.99
0.28
1
0.11
0.5
0.15
0.51
0.04
1
0.54
0.28
1
1
0.78
1
0.9
0.99
0.83
0.02
0.92
0.27
0.02
1
1
0.05
0.99
0.03
1
1
1
0.02
0.94
0.95
0.87
0.95
1
1
0.26
0.3
0.52
0.6
1
0.46
0.34
0.12
0.16
0.37
0.55
0.48
0.03 1
1
1
0.97
0.98
0.9
1
0.78
0.25
0.22
0
0.86
0.95
0.03
0.06
1
0.96
0.99
1
1
0.1
1
0.12
0.36
0.13
0.91
1
0.24
0.7
0.88
1
0.28
0.61
0.92
1
1
1
0.35
1
0.01
0.88
0.98
1
0.9
1
1
1
0.92
0.77
0.58
1
0.25
0.27
0.07
0.83
0.99
1
0.91
0.43
0.35
1
0.27
1
0.22
0.94
0.98
0.59
1
0.02
0.43
0.81
0
0.44
0.23
0.06
0.31
0.8
0.76
0.45
1
0.06
0.73
0.52
1
0.24
1
0.21
1
0.98
0.02
0.41
1
1
0.05
0.06
0.9
0.28
1
0.96
0.03
0.2
1
1
1
0.78
0.53
0.13
0.96
0.05
0.2
0.47
0.83
0.82
0.58
0.96
0.8
0.17
1
0.14
1
0.8
0.32
0.79
0.49
0.03
1
1
1
0.64
0.02
0.86
1
1
1
0.07
0.93
0.42
0.79
1
0.03
1
0.85
0.14
1
0.28
0.72
1
0.35
1
0.25
0.04
0.52
0.36
0.99
1
0.84
0.89
C, D
A
C. 0.010.020.030.040.050.060.070.0
FM992901 uncultured ectomycorrhiza
EF634090 uncultured ectomycorrhiza
AF325583 Dermocybe splendida
GQ159906 Cortinarius fulvescens
DQ481900 Dermocybe aurantiobasis
GQ159904 Cortinarius holophaeus
FJ717514 Cortinarius sp.
AY669632 Cortinarius walkeriAY669633 Cortinarius tasmacamphoratus
GQ159908 Cortinarius pseudocandelaris
AF136739 Cortinarius sp.
GQ159802 Cortinarius infractus
EU057096 uncultured ectomycorrhiza
DQ481834 uncultured ectomycorrhiza
AF389166 Cortinarius flavifolius
GQ159809 Cortinarius rigens
FJ717564 Cortinarius raphanoides
FJ152509 uncultured ectomycorrhiza
AY174780 Cortinarius infractus
FJ039697 Cortinarius Telamonia sp.
FJ039584 Cortinarius subannulatus
FJ157089 Cortinarius sanguineus
GQ159860 Cortinarius velenovskyi
AJ438981 Cortinarius obtusus
DQ273377 uncultured Cortinariaceae
FJ039612 Cortinarius cf. infractus
AY669544 Cortinarius crassus
GQ159882 Cortinarius melanotus
AY033114 Cortinarius collariatus
FJ157147 Cortinarius semisanguineus
EF420146 Cortinarius sericeolazulinus
AF539707 Cortinarius luteostriatulus
FJ039701 Cortinarius acutus
GQ159899 Cortinarius pseudoduracinus
EU569247 Cortinarius sp.
AY174859 Cortinarius subtortus
EU819467 Cortinarius sp.
EU669315 Cortinarius barlowensis
AF325601 Cortinarius violaceus
AF389162 Dermocybe cardinalis
FJ845396 Cortinarius cinnamomeus
AM902090 uncultured basidiomycete
AY669608 Cortinarius vinaceolamellatus
FM992918 uncultured ectomycorrhiza
DQ097877 Cortinarius alboviolaceus
DQ481671 uncultured ectomycorrhiza
AF539720 Cortinarius icterinus
DQ328059 Cortinarius walpolensis
EU837213 Cortinarius barlowensis
EU669233 Dermocybe humboldtensis
DQ481879 uncultured ectomycorrhiza
U56041 Dermocybe fervida
AY669597 Cortinarius cotoneus
AY641464 uncultured ectomycorrhiza
AF495456 Dermocybe crocea
AY669643 Cortinarius kula
EU569252 Cortinarius sp.
FJ152507 uncultured ectomycorrhiza
U56054 Dermocybe phoenicea
AY669582 Cortinarius sanguineus
FN393139 Cortinarius anomalus
EU645624 uncultured ectomycorrhiza
FJ717517 Cortinarius caesiifolius
AY669536 Cortinarius infractus var. obscurocyaneus
AY669596 Cortinarius bolaris
EU292514 uncultured fungus
FJ039588 Cortinarius californicus
AY669592 Cortinarius salor
AY669598 Cortinarius splendidus
FJ196910 uncultured ectomycorrhiza
AY082608 Cortinarius cinnamomeus
FM992916 uncultured ectomycorrhiza
AF539718 Cortinarius lignyotus
AY083187 Cortinarius conopilus
EU057091 uncultured ectomycorrhiza
AF389151 Cortinarius teraturgus
U56039 Cortinarius cinnamomeus
AB251830 uncultured ectomycorrhiza
AF389163 Cortinarius firmus
U56047 Dermocybe marylandensis
AF136740 Cortinarius sp.
AF112144 Cortinarius rotundisporus
EF600897 Cortinarius venetus var. montanus
AM412268 uncultured ectomycorrhiza
AY669636 Cortinarius sejuctus
AY174781 Cortinarius infractus
DQ328143 Thaxterogaster sp.
FJ152514 uncultured ectomycorrhiza
FJ039586 Cortinarius cf. cotoneus
FJ039603 Cortinarius cf. balaustinus
AF539726 Cortinarius rubrobasalis
GQ159763 Cortinarius rigens
DQ233795 uncultured ectomycorrhiza
AF476989 ectomycorrhizal root
FJ039656 Cortinarius ochrophyllus
AB211255 uncultured ectomycorrhiza
EF077495 Cortinarius croceus
AF325580 Cortinarius delibutus
U56042 Dermocybe fervida
U56069 Dermocybe subcinnabarina
FN393135 Cortinarius sp.
FJ039694 Cortinarius ceraceus
FJ157104 Cortinarius cf. caninus
AY669650 Cortinarius ardesiacus
U56073 Dermocybe sp.
AF539728 Cortinarius tenellus
U56024 Cortinarius caninus
FJ152511 uncultured ectomycorrhiza
AF325578 Cortinarius acutus
FJ152506 uncultured ectomycorrhiza
DQ097886 Cortinarius salor
DQ384593 Cortinarius phoeniceus var. occidentalis
AF389159 Cortinarius icterinus
GQ159909 Cortinarius croceus
DQ481681 uncultured ectomycorrhiza
FJ157025 Cortinarius cinnamomeus
FJ769528 uncultured ectomycorrhiza
EU668307 uncultured Dermocybe
GQ159910 Cortinarius acutus
DQ388819 uncultured fungus
EU525946 Dermocybe sanguinea
DQ377381 uncultured ectomycorrhiza
AF539721 Cortinarius amoenus
FJ157023 Cortinarius cf. croceoconus
GQ159858 Cortinarius aff. pauperculus
DQ328120 Thaxterogaster sp.
EU726285 uncultured Cortinarius
FJ152512 uncultured ectomycorrhiza
FJ039596 Cortinarius idahoensis
AY669634 Cortinarius caeruleoburneus
FJ039652 Cortinarius azureus
AY669656 Cortinarius incisus
AF325599 Thaxterogaster albocanus
DQ328113 Quadrispora tubercularis
FJ158049 uncultured ectomycorrhiza
EU569249 Cortinarius sp.
EU821675 Cortinarius alboviolaceus
DQ149869 Laccaria bicolor
AM412267 uncultured ectomycorrhizal
FJ263279 Cortinarius orellanus
EU816664 uncultured ectomycorrhiza
FJ15250 uncultured ectomycorrhiza
U56074 Dermocybe sp.
EU057094 uncultured ectomycorrhiza
U56050 Dermocybe olivaceopicta
AF325600 Cortinarius cinereobrunneus
DQ367898 Cortinarius sanguineus
AF389168 Cortinarius cotoneus
DQ365639 Cortinarius sp.
FJ039594 Cortinarius idahoensis
DQ377379 uncultured ectomycorrhiza
AJ236062 Dermocybe uliginosus
FJ039706 Cortinarius croceocoeruleus
AY669595 Cortinarius rubellus
EU597036 uncultured ectomycorrhiza
EF420140 Cortinarius aureopigmentatus
EU525963 Cortinarius cinnamomeus
U56044 Dermocybe malicoria
AF539727 Cortinarius pachynemeus
DQ481911 Dermocybe aurantiobasis
EF634100 uncultured ectomycorrhiza
AF389150 Cortinarius semisanguineus
GQ159781 Cortinarius acutus
DQ054576 uncultured fungus
AF325582 Cortinarius globuliformis
FJ039696 Cortinarius Telamonia sp.
EU917091 uncultured fungus
AF430288 Cortinarius sp.
AF389127 Cortinarius rotundisporus
AY669603 Cortinarius stephanopus
FJ157034 Cortinarius cf. cinnamomeus
AF539729 Cortinarius squamiger
EU525961 Cortinarius sp.
AY669604 Cortinarius sinapicolor
DQ328086 Thaxterogaster sp.
FJ263280 Cortinarius sp.
DQ328088 Thaxterogaster sp.
EU057097 uncultured ectomycorrhiza
DQ481690 uncultured ectomycorrhiza
AF389152 Cortinarius badiovinaceus
AY669630 Cortinarius cannariusAF539712 Cortinarius carneolus
FJ769529 uncultured ectomycorrhiza
U56052 Dermocybe phoenicea
AF389128 Cortinarius illitus
FJ039601 Cortinarius venetus
AJ889941 Cortinarius anomalus
EU597026 uncultured ectomycorrhiza
AF539734 Cortinarius lividus
DQ481960 uncultured cf. Dermocybe
GQ159891 Cortinarius tubarius
AY669648 Cortinarius tristisAY669637 Cortinarius schlerophyllarum
EU292379 uncultured fungus
AY669646 Cortinarius caninus
U56068 Dermocybe sierraensis
DQ233735 uncultured ectomycorrhiza
AY669651 Cortinarius cystidiocatenatus
AY669578 Cortinarius violaceus
DQ328140 Cortinarius sp.
EU837212 Cortinarius barlowensis
AF539725 Cortinarius elaphinus
FJ717550 Cortinarius obtusus
EU821676 Cortinarius azureus
DQ377433 uncultured ectomycorrhiza
FJ039611 Cortinarius duracinus var. raphanicus
AF389131 Cortinarius atrolazulinus
AF389170 Cortinarius laetus
AF461644 uncultured fungus
AF539736 Cortinarius olivaceobubalinus
AY669602 Cortinarius globuliformis
U56065 Dermocybe semisanguinea
1
1
0.75
1
0.06
0.94
0.220.61
0.17
0.21
0.45
0.2
0.910.2
0.93
0.99
1
0.97
1
0.78
0.31
0.99
0.27
0.83
0.87
0.14
1
1
1
0.9
0.94
0.4
0.15
0.77
0.95
0.56
0.07
0.93
0.95
0.1
0.77
0.69
0.69
1
1
0.03
1
0.07
1
1
0.12
0.72
1
1
1
1
0.68
0.96
1
0.93
0.84
1
0.94
0.24
0.93
0.99
0.75
0.99
0.95
1
1
0.40.19
0.98
1
10.31
0.31
0.47
1
0.78
0.17
0.03
0.42
1
1
1
1
0.52
0.72
0.57
1
0.92
0.29
0.98
1
1
1
0.57
0.87
0.58
0.62
0.52
0.98
1
0.98
1
1
0.05
1
0.03
0.01
0.78
0.38
0.25
1
0.1
0.45
0.77
1
1
1
0.23
1
0.98
0.99
1
1
1
0.38
0.99
0.6
0.99
0.75
0.98
1
0.37
0.07
0.95
0.76
1
1
0.61
0.76
0.23
0.85
1
1
0.97
1
0.99
0.9
1
0.99
0.34
0.3
1
0.96
0.98
0.79
0.99
1 1
0.26
0.97
0.750.94
0.97
0.99
0.85
0.91
1
0.82
0.28
0.71
0.03
1
0.96
1
0.45
0.26
1
0.33
0.96
0.18
0.91
1
0.61
1
0.18
0.34
0.06
1
1
1
0.62
0.44
1
0.6
1
0.38
0.22
0.89
0.49
0.47
0.3
1
1
1
1
0.98
0.81
1
0.16
1
0.28
0.92
1
AB
D
D. Figure S3. Chronogram for Cortinarius. The time scale set to millions of years. MCC tree with median node heights based on the ITS region. The tree is spit into four parts, and connections between figures are indicated by the sub figure annotation at collapsed nodes. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 113 Ma (sd 16 Ma) and the split between Cortinarius aurilicis and Cortinarius iodes an age prior with mean 31 Ma (sd 10 Ma). The cut off for OTUs was set to 0.01 expected substitutions per site. MEDUSA indicated two rate changes (clades marked with gray backgound). The root was inferred to have a net diversification rate = 0.11 and relative extinction rate = 0.00; the clade marked in figure A had a net diversification rate = 0.14 and relative extinction rate = 0.00; the clade marked in figure C had a net diversification rate = 0.26 and relative extinction rate = 0.00.
0.010.020.030.040.050.060.070.0
AY669606 Protoglossum luteum
FJ717596 Cortinarius variosimilis
AY669623 Cortinarius subcastanellus
DQ117928 Cortinarius norrlandicus
AY669553 Cortinarius caligatus
AF325577 Thaxterogaster porphyreus
AY669589 Cortinarius stillatitius
EU821694 Cortinarius vibratilis
AY174798 Cortinarius triumphans
GQ159859 Cortinarius cf. pseudosalor
AF325610 Cortinarius dulciolens
AY669543 Cortinarius patibilis
DQ295110 Cortinarius trivialis
DQ054564 uncultured fungus
DQ328194 Quadrispora sp.
DQ652234 Cortinarius lustrabilis
FJ157133 Cortinarius muscigenus
AY669528 Cortinarius vinaceomaculatus
AF476988 ectomycorrhizal root
FJ039670 Cortinarius nanceiensis
AF112143 Cortinarius radicatus
EF420147 Cortinarius costaricensis
AY669610 Cortinarius archeri
AY669638 Cortinarius cf. submeleagris
AY669529 Cortinarius percomis
AY669618 Cortinarius salmaster
AY669644 Cortinarius sp.
DQ328099 Thaxterogaster sp.
DQ328158 Thaxterogaster sp.
FJ157140 Cortinarius sp.
AY669616 Cortinarius quaresimalis
GQ159888 Cortinarius aff. inamoenus
AY174801 Cortinarius balteatocumatilis
DQ328110 Thaxterogaster sp.
AF325608 Cortinarius saginus
AY669575 Cortinarius caperatus
AY669552 Cortinarius coalescens
DQ295091 Cortinarius favrei
AY174790 Cortinarius varius
DQ295105 Cortinarius fennoscandicus
AF325613 Protoglossum sp.
GQ159874 Cortinarius pingue
FJ717578 Cortinarius vibratilis
AY669649 Cortinarius fulvoiubatus
GQ166892 Cortinarius sp.
FJ717595 Cortinarius sp.
AY033097 Cortinarius alboroseus
AY033106 Cortinarius taylorianus
AF325607 Cortinarius citriolens
DQ097879 Cortinarius crystallinus
AY174791 Cortinarius variiformis
AY669557 Cortinarius pseudovulpinus
AY033113 Cortinarius dulciolens
DQ328183 Thaxterogaster sp.
DQ083772 Cortinarius aurilicis
AY669541 Cortinarius serarius
AY669640 Cortinarius coelopus
EU821686 Cortinarius salor
DQ328205 Thaxterogaster sp.
AY669549 Cortinarius obsoletus
AY174786 Cortinarius cephalixus
EU660946 Cortinarius memoriaannae
AF325568 Thaxterogaster redactus
AY033101 Cortinarius meleagris
AF389149 Cortinarius ombrophilus
AY669617 Cortinarius lavendulensis
EU821651 Cortinarius sp.
AY669576 Cortinarius emodensis
AY669524 Cortinarius acidophilus
AY669619 Cortinarius austrosaginus
AY033108 Cortinarius paradoxus
AY669577 Cortinarius similis
AY174856 Cortinarius nanceiensis
FJ039600 Cortinarius salor
AF182796 Cortinarius trivialis
AY669551 Cortinarius fraudulosus
AY033111 Cortinarius subcastanellus
AY174795 Cortinarius variicolor
FJ157016 Cortinarius causticus
AF539715 Cortinarius caelicolor
FJ039633 Cortinarius cf. variicolor
AF325611 Cortinarius corrugatus
DQ328189 Thaxterogaster sp.
AY669516 Cortinarius paracephalixus
AY669522 Cortinarius claricolor
FJ157038 Cortinarius cf. vibratilis
AF389125 Cortinarius magellanicus
AY669625 Cuphocybe sp.
AY174814 Cortinarius mussivus
DQ149869_Laccaria_bicolor
AY669521 Cortinarius populinus
FJ717585 Cortinarius sp.
AF389142 Cortinarius pluvius
AY669567 Cortinarius borgsjoeensis
DQ481961 uncultured cf. Dermocybe
AY669518 Cortinarius vacciniophilus
AY174803 Cortinarius praestans
FJ717601 Cortinarius variosimilis
DQ328199 Quadrispora sp.
FJ717593 Cortinarius sp.
AY669542 Cortinarius largus
DQ083813 Cortinarius sp.
EU569251 Cortinarius sp.
AY669607 Cortinarius basipurpureus
DQ367896 Cortinarius collinitus
FM202133 Cortinarius sp.
AY669534 Cortinarius delaportei
DQ328152 Thaxterogaster sp.
AY669535 Cortinarius argutus
DQ295122 Cortinarius lividoochrascens
DQ328169 Thaxterogaster sp.
AF389143 Cortinarius croceocaeruleus
DQ083805 Cortinarius percomis
EU846306 Cortinarius magnivelatus
EU084983 Protoglossum luteum
AF325606 Cortinarius sp.
AY669605 Cortinarius erythraeus
AY669550 Cortinarius latobalteatus
EU569250 Cortinarius sp.
DQ328141 Thaxterogaster piriformis
AF539714 Cortinarius punctatisporus
FJ717519 Cortinarius sp.
AY669627 Cortinarius elaiochrous
AF539719 Cortinarius magellanicus
AY174782 Cortinarius infractus
FJ039664 Cortinarius vibratilis
AY669556 Cortinarius tiliae
AY669629 Cuphocybe sp.
AY669517 Cortinarius balteatoalbus
FJ039669 Cortinarius papulosus
DQ328081 Protoglossum violaceum
AY033104 Cortinarius elacatipus
AF325556 Thaxterogaster violaceus
AY033102 Cortinarius meleagris
AY174811 Cortinarius vulpinus
DQ328095 Thaxterogaster sp.
AY033099 Cortinarius elaiochrous
FJ195640 Cortinarius majoranae
AY669611 Cortinarius malvaceus
AF389123 Cortinarius cycneus
FJ157076 Cortinarius cf. vanduzerensis
0.42
0.04
1
0.991
0.89
0.61
1
1
0.39
0.61
1
0.92
0.88
0.91
0.38
1
0.02
0.19
0.85
0.78
0.17
0.01
0.12
1
0.62
1
0.83
0.9
0.15
0.04
1
0.82
0.68
0.41
0.93
0.95
1
1
0
0.99
0.82
1
0.44
0.660.25
1
0.7
1
0.5
0.05
0.6
0.09
0.5
0.68
1
0.1
1
1
1
0.02
0.98
0.96 0.77
0.52
0.62
1
1
0.96
0.780.2
0.68
0.49
1
1
0.77
0.82
0.64
0.8
0.04
1
0.19
0.01
0.96
0.05
0.28
0.2
1
0.6
1
0.68
0.29
1
0.04
0.96
0.91
0.06
1
0.98
1
1
1
0.84
0.97
1
0.01
0.49
0.1
0.94
1
0.37
0.9
0.13
0.08
0.05
0.13
0.74
1
1
0.11
1
0.42
0.07
1
1
0.94
0.28
1
0.06
1
0.85
0.94
0.99
0.08
0.98
1
0.9
1
1
0.03
1
0.4
0.92
0.03
0.91
0.65
0.28
A
B
C
Figure S4. Chronogram for Descolea and allies. Time scale set to millions of years. MCC tree with median node heights based on the ITS region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 83 Ma (sd 15 Ma) and the split between Cortinarius aurilicis and Cortinarius iodes an age prior with mean 31 Ma (sd 10 Ma). The cut off for OTUs was set to 0.02 expected substitutions per site.
0.010.020.030.040.050.060.070.080.0
DQ328167 Timgrovea sp.
DQ328177 Descomyces sp.
HQ728544 Descolea phlebophora
Cortinarius aurilicis
DQ328214 Setchelliogaster sp.
DQ328115 Descomyces sp.
DQ328108 Timgrovea sp.
DQ328069 Descomyces sp.
DQ328195 Timgrovea sp.
AF389133 Cortinarius iodes
AF325649 Descolea recedens
DQ328061 Descomyces sp.
AF325652 Descolea gunnii
AF325647 Descolea antarctica
DQ328116 Timgrovea ferruginea
AF325644 Descomyces sp.
AF325651 Descolea maculata
AF325656 Descolea phlebophora
DQ328063 Descomyces sp.
DQ192181 Descolea maculata
DQ328175 Timgrovea sp.
DQ328168 Descomyces albus
DQ328162 Timgrovea sp.
DQ328184 Setchelliogaster sp.
AF325645 Descomyces albellus
DQ328163 Timgrovea sp.
DQ328058 Descomyces angustisporus
Bolbitius vitellinus
DQ328209 Descomyces albus
DQ328207 Timgrovea sp.
1
1
1
0.93
1
1
0.46
0.99
1
1
1
0.99
0.96
0.95
0.38
1
1
1
0.68
0.98
0.99
1
1
0.99
1
1
1
1
Figure S5. Chronogram for Hebelomateae. Time scale set to millions of years. MCC tree with median node heights based on the ITS region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 85 Ma (sd 14 Ma) and the split between Hebelomateae and Agrocybe an age prior with mean 60 Ma (sd 14 Ma). The cut off for OTUs was set to 0.005 expected substitutions per site. MEDUSA indicated one rate change (clade marked with gray backgound). The root was inferred to have a net diversification rate = 0.11 and relative extinction rate = 0.00; the clade marked in gray had a net diversification rate = 0.27 and relative extinction rate = 0.00.
0.010.020.030.040.050.060.070.0
EU375717 uncultured ectomycorrhiza
AY308582 Hebeloma aestivale
AY900095 Hebeloma submelinoides
AY818352 Anamika lactariolens
EU570183 Hebeloma sp.
AY311516 Hebeloma helodes var. capitata
EU554717 uncultured fungus
EU554800 uncultured fungus
AF430254 Hebeloma velutipes
AF124715 Hebeloma sarcophyllum
EF218766 uncultured ectomycorrhiza
AY900054 Alnicola umbrina
AY900073 Alnicola sp.
AF124712 Naucoria bohemica
AF124693 Hebeloma birrum
FJ717490 Hebeloma sp.
EU570167 Hebeloma hiemale
AY634136 uncultured ectomycorrhiza
AY097047 uncultured cf. Hebeloma
AY309963 Hebeloma cylindrosporum
AY575919 Anamika angustilamellata
AF325633 Hymenogaster tener
EF451057 Hebeloma mesophaeum
EU570180 Hebeloma theobrominum
AY900087 Alnicola sp.
AY312986 Hebeloma saliciphilum
AF325640 Hymenogaster subalpinus
AY320396 Hebeloma vaccinum
AY900089 Alnicola amarescens
AF124683 Hebeloma crustuliniforme
AY303581 Alnicola amarescens
DQ822802 Hebeloma sp.
AY351629 uncultured ectomycorrhiza
EU570185 Hebeloma erumpens
AF325639 Hymenogaster gardneri
AJ875387 uncultured fungus
EU784364 Hymenogaster tener
AY311525 Hebeloma oculatum
AY311520 Hebeloma marginatulum
FM993246 uncultured ectomycorrhiza
AY945302 Hymenogaster raphanodorus
AY351621 Hebeloma funariophilum
DQ328132 Hymenogaster australis
AY309959 Hebeloma brunneifolium
EU570189 Naucoria celluloderma
EU784360 Hymenogaster citrinus
AY900094 Hebeloma submelinoides
AY303584 Alnicola tantilla
AY818348 Agrocybe praecox
AF325637 Hymenogaster populetorum
AY748855 uncultured ectomycorrhiza
EU570194 Hebeloma cf. erumpens
EU570170 Hebeloma sp.
AF430291 Hebeloma incarnatulum
AF325638 Hymenogaster parksii
AY309958 Hebeloma bruchetii
AY900088 Alnicola salabertii
FM993174 uncultured ectomycorrhiza
EU784359 Hymenogaster arenarius
EU784363 Hymenogaster tener
AY308583 Hebeloma albocolossum
FM993124 uncultured ectomycorrhiza
FM203019 uncultured ectomycorrhiza
AY312977 Hebeloma polare
EF434074 uncultured fungus
AY320393 Hebeloma subconcolor
EU346884 Hebeloma sp.
AM882885 Naucoria submelinoides
AY309964 Hebeloma fragilipes
DQ365636 Hebeloma incarnatulum
AJ875382 uncultured fungus
AF124697 Hebeloma helodes
DQ481994 uncultured ectomycorrhiza
DQ328124 Hymenogaster arenarius
AM882996 Crepidotus mollis
FM992926 uncultured ectomycorrhiza
AY311526 Hebeloma pallidoluctuosum
AY900093 Alnicola cholea
AF124675 Hebeloma danicum
AY918956 Hymenogaster boozeri
FM993273 uncultured ectomycorrhiza
EU784365 Hymenogaster vulgaris
EU554998 uncultured fungus
AF124680 Hebeloma tomentosum
AY312985 Hebeloma sacchariolens
AY310842 uncultured ectomycorrhiza
AY303582 Alnicola geraniolens
EU570177 Hebeloma cistophilum
AY900103 Alnicola macrospora
AB211274 Hebeloma pusillum
EU784361 Hymenogaster griseus
AJ920024 uncultured fungus
AY900090 Alnicola tantilla
AY309961 Hebeloma calyptrosporum
AJ893225 uncultured ectomycorrhiza
DQ447994 uncultured Agaricomycetes
AY945303 Hymenogaster rubyensis
AY900031 Alnicola badia
EF644129 uncultured ectomycorrhiza Hebeloma
AY900040 Alnicola sp.
AY320394 Hebeloma subsaponaceum
FJ789604 Hymenogaster sp.
AY312987 Hebeloma senescens
AY312982 Hebeloma pusillum
AF325636 Hymenogaster griseus
AY833049 uncultured basidiomycete
EU847262 uncultured ectomycorrhiza
AF407163 Anamika indica
AF325632 Hymenogaster alnicola
AY278767 Hebeloma radicosum
AF124673 Hebeloma bulbiferum
AF124698 Hebeloma edurum
AY900081 Naucoria escharoides
FM993206 uncultured ectomycorrhiza
AY312981 Hebeloma pumilum
FM992925 uncultured ectomycorrhiza
AY900074 Alnicola sphagneti
AY311518 Hebeloma longicaudum
AF124682 Hebeloma sinapizans
0.99
1
0.92
0.99
1
0.96
1
1
0.68
0.99
0.6
0.65
0.791
0.54
0.66
0.51
0.76
1
0.08
0.18
0.83
0.99
0.36
0.25
0.43
1
0.99
1
0.22
0.73
1
1
0.99
0.99
0.65
1
0.59 0.12
0.79
0.47
1
0.9
1
0.11
1
0.69
0.81
0.6
1
1
0.17
1
0.97
0.99
1
0.97
0.33
0.95
10.97
0.98
0.96
0.45
0.51
0.38
1
1
0.45
0.98
0.45
1
0.99
1
0.37
0.72
0.25
0.26
0.94
0.66
1
0.66
1
0.71
0.94
0.41
1
1
0.99
0.56
0.29
0.29
0.43
1
0.32
1
0.58
1
1
0.24
1
0.74
0.26
1
0.79
0.58
0.92
0.59
0.45
0.15
0.92
0.69
0.24
1
1
0.88
0.26
Figure S6. Chronogram for Hydnangiaceae. Time scale set to millions of years. MCC tree with median node heights based on the ITS region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was given an age prior with mean 112 Ma (sd 17 Ma) and the split between Hydnangiaceae and Mythicomyces an age prior with mean 72 Ma (sd 17 Ma). The cut off for OTUs was set to 0.01 expected substitutions per site.
0.010.020.030.040.050.060.070.080.090.0100.0
AY825516 uncultured ectomycorrhiza
DQ404393 Mythicomyces corneipes
EF644110 Laccaria laccata
EU486434 Laccaria montana
GQ240912 uncultured Laccaria
AB211273 Laccaria laccata
EU597085 Laccaria bicolor
AM161523 uncultured ectomycorrhiza
DQ149871 Laccaria pseudomontana
DQ974699 Laccaria cf. laccata
AF389133 Cortinarius iodes
FJ168606 Laccaria sp.
FJ168603 Laccaria sp.
FJ168599 Hydnangium carneum
AB211271 Laccaria murina
AJ699074 Laccaria laccata
GQ205354 uncultured fungus
GQ240913 uncultured Laccaria
EF218783 uncultured ectomycorrhiza
AB211143 uncultured mycorrhiza
DQ149864 Laccaria pumila
AB459516 Laccaria vinaceoavellanea
FJ168602 Laccaria sp.
EF530940 Laccaria amethystina
FJ168600 Laccaria ochropurpurea
DQ421089 uncultured fungus
GQ267477 Laccaria proxima
DQ149861 Laccaria nobilis
EF634114 uncultured ectomycorrhiza
EU819476 Laccaria amethystina
AM113953 Laccaria amethystina
AY880933 uncultured ectomycorrhiza
AY702728 uncultured fungus
FJ168598 Laccaria sp.
FN393140 uncultured Laccaria
DQ149865 Laccaria montana
EU819478 Laccaria laccata var. pallidifolia
GQ205355 uncultured fungus
FJ168595 Hydnangium sp.
0.69
1
0.13
1
0.67
0.65
1
0.21
1
1
0.23
0.8
0.49
0.84
0.09
0.58
1
0.22
0.81
0.15
0.09
0.36
0.99
0.6 0.99
0.93
0.25
0.46
0.19
0.42
1
0.97
0.52
0.82
0.18
0.09
0.49
Figure S7. Chronogram for Hygrophorus. Time scale set to millions of years. MCC tree with median node heights based on the nucLSU region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 154 Ma (sd 20 Ma). The cut off for OTUs was set to 0.01 expected substitutions per site.
0.025.050.075.0100.0125.0150.0
AY635769 Hygrophorus flavodiscus
DQ071733 Hygrophorus chrysodon
AF430273 Hygrophorus discoideus
AF430270 Hygrophorus pustulatus
AF042623 Hygrophorus bakerensis
AF430280 Hygrophorus leucophaeus
AY684167 Hygrocybe aff. conica
AY586660 Hygrophorus agathosmus
AY586662 Hygrophorus olivaceoalbus
EU712607 Uncultured Russulaceae
FJ627029 Hygrophorus sp.
DQ457678 Hygrophorus pudorinus
EU292415 Uncultured fungus
AF042562 Hygrophorus sordidus
FJ943241 Hygrophorus sp.
DQ974809 Hygrophorus chrysodon
FJ196924 Uncultured ectomycorrhiza
AY635775 Agaricus bisporus
DQ273522 Uncultured Hygrophoraceae
FJ196923 Uncultured ectomycorrhiza
AY586663 Hygrophorus russula
AF430279 Hygrophorus eburneus
AF430272 Hygrophorus capreolarius
0.53
0.64
0.17
0.88
0.99
1
10.37
1
1
1
0.92
0.7
0.17
0.33
0.13
0.83
0.95
0.98
0.98
1
A. 0.010.020.030.040.050.060.070.080.0
AY380398 Mallocybe subtilisior
JN975007 Inocybe aff. nivevelata
EU600903 Inocybe sp.
AM882784 Inocybe spuria
AM882941 Inocybe bongardii
AM882945 Inocybe cf. calamistrata
JN975013 Inocybe umbrinella
AM882769 Inocybe obsoleta
JN975018 Inocybe calamistrata
JN975017 Inocybe sp.
EU569871 Inocybe sp.
AY702014 Inocybe cookei
HQ201348 Inocybe curreyi ss Hesler
AY380368 Inocybe calamistrata
AY038315 Mallocybe dulcamara
AM882956 Inocybe cookei
GU062739 Auritella sp.
AM882786 Inocybe cf. rimosa
AY380403 Mallocybe unicolor
EU555446 Inocybe sp
JN975009 Inocybe sp.
JN975028 Mallocybe sp.
AY380371 Auritella dolichocystis
AM882866 Inocybe gymnocarpa
EU600890 Inocybe sp.
AM882960 Inocybe quietiodor
JN975025 Inocybe maculata
EU569858 Mallocybe leucoblema
AY380366 Mallocybe agardhii
JN975005 Inocybe aff. rimosa
JN975032 Inocybe sp.
EU600831 Inocybe sp.
JN975026 Inocybe maculata group
EU600887 Tubariomyces sp.
EU600834 Inocybe sp.
AM882762 Inocybe rimosa
AY038321 Inocybe cf. maculata
AM882964 Inocybe maculata
AY745700 Inocybe maculata
AY380386 Inocybe lilacinosquamosa
EU600851 Inocybe rimosa
AY380395 Auritella geoaustralis
JN975034 Inocybe lanatodisca
AY380379 Mallocybe heimii
EU569847 Inocybe fastiella
AM882771 Inocybe perlata
JN975008 Inocybe rimosa
EU563510 uncultured ectomycorrhiza
EU569854 Inocybe hirsuta var. maxima
AY038327 Mallocybe flavicothurnata
GU907094 Tubariomyces inexpectata
AM882765 Inocybe bulbosissima
EF417792 uncultured ectomycorrhiza
EU600883 Inocybe sp.
AY702013 Cortinarius iodes
JN975016 Inocybe sp.
AM882951 Inocybe erubescens
AM882948 Inocybe calamistrata
JN975006 Inocybe rimosa
GQ892938 Inocybe sp.
JN974916 Mallocybe cf. subtilisior
AY239018 Inocybe ayangannae
EU600885 Inocybe sp.
AM882938 Inocybe calamistrata
JN975015 Inocybe fastigiata ss Kauffman
EU569836 Mallocybe dulcamara
AY380374 Inocybe fastiella
JN975021 Inocybe apiosmota
AF205694 Crepidotus applanatus var. applanatus
JN975010 Inocybe umbrinella
JN975012 Inocybe actinocephala
AY380382 Inocybe lanatodisca
JN975014 Inocybe sp.
EU600847 Inocybe rimosa
EU600829 Inocybe sp.
EU569868 Inocybe maculata
JN642235 Inocybe sp.
EU522733 Inocybe sp.
EU569844 Inocybe sp.
EU600870 Inocybe sp.
AY380394 Mallocybe sp
EU555466 Inocybe cf. renispora
AM882774 Inocybe flavella
EU569870 Inocybe malenconii
EU555454 Inocybe calamistrata
AF518622 Inocybe sp
EU569855 Tubariomyces inexpectata
AY700196 Mallocybe dulcamara
AM882706 Inocybe adaequata
EU555452 Inocybe calamistrata
GQ892937 Inocybe sp.
AY635766 Auritella aureoplumosa
EU569834 Mallocybe dulcamara
AF347101 Inocybe cervicolor
EU600877 Inocybe sp.
AM882944 Inocybe calamistrata
JN975019 Inocybe aff. calamistrata
EU600852 Inocybe rimosa
AM882782 Inocybe flavella
EU555463 Inocybe cf. reisneri
AM882939 Inocybe cervicolor
JN975020 Inocybe sp.
EF561633 Inocybe rimosa
AY038317 Inocybe hirsuta var. maxima
AM882781 Inocybe mimica
EU600863 Inocybe sororia
AY380400 Mallocybe sp.
DQ071697 Inocybe rimosa
AY732213 Inocybe sp.
JN975033 Inocybe cyanotincta
FJ627030 Inocybe aff. calamistrata
GU907092 Tubariomyces inexpectata
AM882864 Mallocybe terrigena
EU600840 Inocybe sp.
AY732212 Inocybe mutata
JN975011 Inosperma sp.
HQ201353 Inocybe jurana ss Hesler
EU600879 Inocybe sp
EU600853 Inocybe rimosa
JN975024 Inocybe latericia
EU604546 Inocybe sp.
AM882776 Inocybe flavella
JN975023 Inocybe aff. latericia
HQ201340 Inocybe calamistrata var. mucidiolens
EU569874 Inocybe misakaensis
AY380369 Inocybe calamistratoides
JN975022 Inocybe apiosmota
AY380381 Mallocybe jarrahae
JN975004 Inosperma aff. sororia
AY038325 Auritella serpentinocystis
EU555451 Inocybe sp.
JN975027 Inocybe regisii
AM882952 Inocybe cookei
1
1
0.55
0.4
0.64
0.05
0.25
1
0.17
0.29
0.37
0.09
0.57
1
0.67
1
0.851
0.99
0.97
1
1
0.33
0.99
0.4
0.52
0.02
0.98
0.89
0.07
0.36
0.97
0.05
0.14
1
1
0.12
0.48
0.27
0.61
0.28
1
0.56
1
1
1
1
0.81
0.55
0.21
0.99
0.99
0.95
1
0.76
1
0.63
0.99
0.84
0.75
1
0.92
1
0.99
1
0.82
0.96
1
0.18
0.34
0.08
1
0.47
1
0.65
1
0.83
0.76
0.91
1
0.85
0.22
1
0.99
0.82
0.16
0.11
0.17
0.77
0.75
0.98
1
0.81
1
0.24
1
0.94
0.23
0.05
0.98
1
0.95
1
0.86
0.95
1
0.64
1
0.22
1
1
0.55
0.02
0.75
0.79
1
0.49
0.94
0.67
0.99
1
0.75
0.38
0.95
0.99
0.59
0.57
0.57
0.99
1
1
0.97
1
B, C
B 0.010.020.030.040.050.060.070.080.0
EU600884 Inocybe sp.
FN557549 uncultured ectomycorrhizal
AM882721 Inocybe cf. praetervisa
GQ892974 Inocybe sp.
EU600844 Inocybe sp.
AM882713 Inocybe nematoloma
GQ892949 Inocybe aff. sphaerospora
EU691943 uncultured fungus
AM882823 Inocybe lacera
AY038324 Inocybe relicina
JN974994 Inocybe crucifera
JN975029 Inocybe sp.
JN642241 Inocybe pulchella
AM882923 Inocybe acutella
AM882760 Inocybe calida
EU307818 Inocybe sp.
AM882931 Inocybe subporospora
JN974976 Inocybe jacobi
JN974931 Inocybe sp.
EU600865 Inocybe sp.
EU600838 Inocybe sp.
EU600894 Inocybe sp.
JN974987 Inocybe soluta
EU569857 Inocybe lasseri
EU600900 Inocybe sp.
GQ892971 Inocybe hydrocybiformis
AM882930 Inocybe cf. assimilata
GQ892948 Inocybe sphaerospora
AM882929 Inocybe assimilata
EU600854 Inocybe scissa
EU569860 Inocybe sp.
EU307835 Inocybe intricata
GQ892976 Inocybe sp.
AY380370 Inocybe cerasphora
AY732211 Inocybe tubarioides
AF261510 Inocybe petinosa
JN974995 Inocybe sp.
JN974989 Inocybe subfulva
JN974984 Inocybe sp.
AY038320 Inocybe leptophylla
GQ892977 Inocybe sp.
AY239024 Inocybe napipes
GQ892952 Inocybe aff. pileosulcata
JN974988 Inocybe sp.
HQ641104 Inocybe aff. xanthomelas
JN974927 Inocybe sp.
JN974973 Inocybe cf. diminuta
EU499603 Inocybe splendens
JN974977 Inocybe albodisca
FJ207485 uncultured Inocybe
EU600897 Inocybe sp
FJ567525 uncultured basidiomycete
EU555474 Inocybe sp.
AM882754 Inocybe subcarpta
JN974975 Inocybe asterospora
AY038318 Inocybe lacera
GQ892959 Inocybe sp
AY380363 Inocybe sp.
AM882759 Inocybe calospora
GQ892957 Inocybe sp.
AM882846 Inocybe fibrosa
AY702013 Cortinarius iodes
JN974978 Inocybe aff albodisca
AY038313 Inocybe calospora
JN974979 Inocybe albodisca
JN974999 Inocybe praetervisa
JN974997 Inocybe hebes
EU307845 Inocybe subexilis
AF205694 Crepidotus applanatus var. applanatus
JN974986 Inocybe sp.
FJ567238 uncultured basidiomycete
EU600875 Inocybe sp.
AM882921 Inocybe pseudoasterospora
AM882717 Inocybe saliceticola
GQ892964 Inocybe sp.
EU555456 Inocybe sp.
AM882722 Inocybe cf. asterospora
GQ892956 Inocybe sp.
JN974981 Inocybe fallax
HQ201350 Inocybe diabolica
FJ566668 uncultured basidiomycete
HQ641112 Inocybe rufofusca
JN974980 Inocybe sp.
JN974990 Inocybe sp.
EU307819 Inocybe albodisca
GQ892960 Inocybe sp
AM882755 Inocybe soluta
JN974974 Inocybe cf. umbrinous
AM882821 Inocybe impexa
JN974992 Inocybe sp.
JN974983 Inocybe graveolens
EU600874 Inocybe sp.
AM882757 Inocybe sambucina
GQ892947 Inocybe sp.
GQ892963 Inocybe sp.
AM882789 Inocybe teraturgus
GQ892975 Inocybe sp.
JN974996 Inocybe fuscescentipes
JN974991 Inocybe sp.
JN974932 Inocybe sp.
AY239027 Inocybe teraturgus
AM882711 Inocybe subexilis
AY702015 Inocybe aff. asterospora
AM882715 Inocybe rennyi
HQ641095 Inocybe cf. straminipes
GQ892958 Inocybe sp.
GQ892970 Inocybe sp.
GQ892973 Inocybe aff. hydrocybiformis
EU861785 uncultured fungus
AM882897 Inocybe asterospora
AM882724 Inocybe salicis
EU569853 Inocybe glaucodisca
AY509115 Inocybe sp.
GQ892941 Inocybe sp.
JN974985 Inocybe cf. scissa
EU555442 Inocybe aff. antillana
AM882815 Inocybe lacera var. helobia
EU692212 uncultured fungus
AM882720 Inocybe praetervisa
GQ892950 Inocybe sp.
GQ892962 Inocybe sp.
AY038319 Inocybe lanunosa
AY748869 uncultured_ectomycorrhiza
GQ892955 Inocybe sp.
HQ201342 Inocybe chalcodoxantha
AY239022 Inocybe curvipes
GQ892968 Inocybe sp.
JN974993 Inocybe lacera
AY380399 Inocybe tahquamenonensis
EU569840 Inocybe epidendron
JN642237 Inocybe amazoniensis
AY038322 Inocybe praetervisa
EU555471 Inocybe conspicuospora
EU307838 Inocybe sp.
FM993253 uncultured ectomycorrhiza
GQ892954 Inocybe sp.
EU600880 Inocybe xerophytica
EU555441 Inocybe aff. antillana
EU307837 Inocybe sp.
AM882708 Inocybe petinosa
GQ892967 Inocybe sp.
JN974998 Inocybe aff. margaritispora
1
0.3
1
0.49
0.06
1
0.46
0.02
1
1
0.61
0.81
0.29
0.83
0.48
0.48
1
1
0.25
0.8
0.97
0.80.33
0.04
0.05
0.57
1
0.69
1
0.97
1
0.180.14
0.87
1
1
1
0.01
0.04
0.67
0.58
0.07
0.99
0.65
0.84
1
0.84
1
1
0.98
1
1
1
1
0.99
0.27
0.8
0.98
0.95
0.98
0.88
1
0.55
1
0.08
1
0.28
0.96
0.01
1
0.92
0.72
0.21
0.78
0.63
0.98
0.08
0.88
1
0.94
1
1
0.88
1
1
0.53
0.99
0.03
0.66
0.89
0.68
0.01
0.37
1
1
0.24
0.96
0.05
0.32
0.12
1
0.99
0.49
0.36
1
0.94
0.84
0.92
0.34
0.77
0.96
1
1
1
1
1
0.18
0
1
0.81
0.7
1
1
1
1
0.21
0.29
0.56
1
0.04
0.68
1
0.61
0.07
0.99
0.99
1
0.74
0.16
1
0.44
0.39
0.75
0.61
0.96
1
A
C
C. Figure S8. Chronograms for Inocybaceae (tree spitted in three parts A-C). Time scales are set in million years. MCC tree with median node heights based on the nucLSU region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 93 Ma (sd 15 Ma) and the split between Inocybaceae and Crepidotus an age prior with mean 50 Ma (sd 12 Ma). The cut off for OTUs was set to 0.01 expected substitutions per site.
GQ892929 Inocybe splendensEU499611 Inocybe splendensFJ567207 uncultured basidiomycete
0.010.020.030.040.050.060.070.080.0
AM882801 Inocybe leptocystis
EU522845 Inocybe sp.
AY380375 Inocybe flocculosa
AY380388 Inocybe nothopes
AM882834 Inocybe inodora
FJ567053 uncultured basidiomycete
JN974933 Inocybe citrifolia
AY038316 Inocybe godeyi
AM882798 Inocybe umbratica
EU569850 Inocybe sp.
AM882914 Inocybe cf. exilis
JN974953 Inocybe geophylla
AY239019 Inocybe candidipes
EU499607 Inocybe catalaunica
AY380376 Inocybe fuscodisca
EU522899 uncultured fungus
GQ892953 Inocybe sp.
FJ567187 uncultured basidiomycete
EU600856 Inocybe serrata
JN975003 Inocybe sp.
JN974971 Inocybe subochracea
JN974937 Inocybe sp.
EU600895 Inocybe sp.
JN974924 Inocybe sp.
JN974945 Inocybe tenebrosa
GQ906703 Inocybe leiocephala
JN974968 Inocybe aff. pallidobrunnea
EU307831 Inocybe fulineoatra
AM882970 Inocybe aff. pseudoreducta
AM882810 Inocybe hystrix
AY536280 Inocybe alabamensis
AM882800 Inocybe ambigua
EU600837 Inocybe sp.
EU555443 Inocybe albovestita
EU499608 Inocybe sp.
JN974928 Inocybe sp.
AY038312 Inocybe agglutinata
DQ273511 uncultured Cortinariaceae
EU307841 Inocybe olympiana
FJ568319 uncultured basidiomycete
JN974918 Inocybe aff. fibrillosibrunnea
FJ567351 uncultured basidiomycete
Inocybe cerea
JN974962 Inocybe langei
AY388643 Inocybe pusio
JN974949 Inocybe lilacina
AM882975 Inocybe cf. griseovelata
EU499601 Inocybe aff. sindonia
AM882730 Inocybe incarnata
JN974959 Inocybe sp.
AY380391 Inocybe serotina
AY380385 Inocybe lilacina
JN974951 Inocybe geophylla
JN974941 Inocybe aff. flocculosa
AM882971 Inocybe glabripes
EU555461 Inocybe cf. murrayana
EU522732 Inocybe sp.
AY038311 Inocybe abietis
AY380377 Inocybe geophylla
AM882886 Inocybe fuscidula
JN974957 Inocybe sp.
GQ892939 Inocybe sp.
AM882742 Inocybe giacomi
EU522787 Inocybe sp.
JN974972 Inocybe subochracea
AM882868 Inocybe posterula
JN974936 Inocybe aff. pseudorachodes
AM882847 Inocybe nitidiuscula
JN974964 Inocybe sp.
FJ567088 uncultured basidiomycete
FJ566934 uncultured basidiomycete
EU555469 Inocybe cf. umbrosa
AM882802 Inocybe obscurobadia
AY732208 Inocybe violaceocaulis
AY702013 Cortinarius iodes
EU522765 Inocybe sp.AM882850 Inocybe cincinnataJN974943 Inocybe sp.
AY239021 Inocybe chelanensis
GQ892943 Inocybe sp.
HQ222007 Inocybe semifulva
HQ201345 Inocybe cinnamomea
AM882733 Inocybe pyriodora var. chamaesalicis
EF417810 uncultured ectomycorrhiza
AY239023 Inocybe glabrodisca
FJ568283 uncultured basidiomycete
JN975002 Inocybe sp.
AY239025 Inocybe sierraensis
AF205694 Crepidotus applanatus var. applanatus
EU569838 Inocybe emergens
EU600859 Inocybe_aff. serrata
FJ568213 uncultured basidiomycete
EU522868 uncultured fungus
JN974934 Inocybe sp.
AM882882 Inocybe ochroalba
JN974922 Inocybe sp.
JN974956 Inocybe sp.
JN974942 Inocybe inodora
AM882873 Inocybe lilacina
JN974944 Inocybe sp.
JN974965 Inocybe sp.
EU522796 Inocybe sp.
AY380397 Inocybe subochracea
AM882731 Inocybe fraudans
HQ641100 Inocybe salicis-herbaceae
EU555447 Inocybe sp.
JN974925 Inocybe sp.
AF042616 Inocybe lilacina
EU307834 Inocybe sp.
JN974966 Inocybe sp.
JN974970 Inocybe aeruginascens
HQ641102 Inocybe phaeosticta
AM882808 Inocybe cf. microspora
EU569843 Inocybe sp.
EU522782 Inocybe sp.
EU433887 Inocybe fraudans
AM882787 Inocybe leptophylla
AY380378 Inocybe griseolilacina
AM882932 Inocybe hirtella
JN974947 Inocybe mytiliodora
EU569851 Inocybe sp.
AM882875 Inocybe lilacina
AM882967 Inocybe tenebrosa
EU555457 Inocybe sp.
AY380389 Inocybe sp.
JN974950 Inocybe lilacina
AM882934 Inocybe hirtella
JN974961 Inocybe microlepidota
AY380383 Inocybe leiocephala
AM882915 Inocybe muricellata
AY038326 Inocybe sp.
EU307840 Inocybe stellatospora
AM882737 Inocybe haemacta
JN974960 Inocybe sp.
JN974921 Inocybe sp.
AY038323 Inocybe pudica
EF417812 uncultured ectomycorrhiza
JN974982 Inocybe stigmatospora
Inocybe sp.
EU499617 Inocybe phaeoleuca
JN974920 Inocybe sp.
JN974969 Inocybe aff. hystrix
Inocybe praetervisa
AM882725 Inocybe melanopus
AM882735 Inocybe erinaceomorpha
DQ974812 uncultured ectomycorrhiza
FJ567609 uncultured basidiomycete
AM882748 Inocybe tetragonospora
FJ568031 uncultured basidiomycete
JN974939 Inocybe sp.
AY038314 Inocybe corydalina
FJ207477 uncultured Inocybe
JN975000 Inocybe aff. mixtilis
EU307848 Inocybe fibrillosibrunnea
JN974955 Inocybe pusio group
EU499613 Inocybe splendens
EU522755 Inocybe sp.
AY380367 Inocybe armeniaca
FJ566087 uncultured basidiomycete
JN974958 Inocybe sp.
AM882738 Inocybe tricolor
JN974935 Inocybe aff. cincinnata
JN974948 Inocybe kauffmani
AY732209 Inocybe paludinella
JN974919 Inocybe sp.
AM882796 Inocybe cf. ambigua
AM882936 Inocybe pelargonium
HQ641106 Inocybe tabacina
FJ207510 uncultured Inocybe
EF417809 uncultured ectomycorrhiza
AM882894 Inocybe fuscidula
JN975030 Inocybe sp.
AM882836 Inocybe mixtilis
AM882728 Inocybe griseolilacina
JN974940 Inocybe sp.
AM882790 Inocybe squarrosa
HQ641096 Inocybe ambigua
JN974938 Inocybe griseovelata
JN975001 Inocybe sp.
EU307814 Inocybe luteifolia
AY380387 Inocybe mixtilis
JN974926 Inocybe sp.
JN974963 Inocybe aff. corydalina
JN974952 Inocybe armeniaca
AM882827 Inocybe fibrosoides
EU522766 Inocybe sp.
FJ568209 uncultured basidiomycete
EU307813 Inocybe queletii
FJ567000 uncultured basidiomycete
EU307828 Inocybe griseolilacina
JN974954 Inocybe sp.
JN974930 Inocybe castanea
JN975031 Inocybe praetervisa group
AM882831 Inocybe oblectabilis
JN974967 Inocybe sp.
AM882750 Inocybe alpigenes
AY380393 Inocybe sindonia
FJ566015 uncultured basidiomycete
JN974917 Inocybe aff. serrata
EU307826 Inocybe cf. hirtella
EU307851 Inocybe sp.
EU499618 Inocybe phaeoleuca
JN974946 Inocybe aff. mytiliodora
AY380390 Inocybe queletii
EU307827 Inocybe bakeri
AM882842 Inocybe cf. fuscidula
EU522754 Inocybe sp.
HQ201355 Inocybe laetior
JN974929 Inocybe sp.
EU555468 Inocybe cf. umbrosa
HQ641099 Inocybe cf. oblectabilis
JN974923 Inocybe sp.
AM882978 Inocybe cf. phaeodisca
GQ892978 Inocybe sp.
EU600861 Inocybe sp.
FJ196928 uncultured ectomycorrhiza
AM882877 Inocybe geophylla
1
1
0.27
0.93
0.94
0.64
1
0.62
0.02
1
0.99
0.03
0.71
0.57
0.91
0.26
0.99
1
1
0.77
0.23
0.65
0.84
0.55
0.12
0.95
0.99
0.53
0.98
0.62
0.54
0.81
0.16
1
0.33
0.04
1
0.75
0.38
0.44
0.35
1
0.07
0.45
1
1
0.98
0.83
1
0.99
1
0.64
0.02
1
1
1
1
1
0.74
0.79
0.97
1
0.86
0.98
0.69
0.03
10
0.06
0.07
0.97
0.39
0.29
1
1
0.05
0.21
0.54
0
1
0.97
0.85
1
0.13
0.19
0.96
1
0.95
0.06
0.05
0.08
0.97
0.37
0.13
0.79
0.13
0.97
0.46
0.04
1
0.05
0.67
1
0.88
0.96
1
0.29
1
0.08
0.58
0.87
1
0.16
0.08
0.72
1
1
0.69
1
0.98
1
0.07
0.66
0.03
0.99
0.5
0.11
1
0.96
0.82
0.2
0.75
0.36
1
0.26
0.99
0.78
1
1
0.96
0.99
1
0.81
0.06
0.32
0.39
0.07
1
1
0.15
0.34
0.45
0.35
1
0.46
0.27
0.09
0.52
0.52
0.93
1
1
0
1
1
0.05
0.3
0.75
1
0.41
1
0.2
0.95
0.99
1
1
0.09
0.41
0.1
1
1
0.67
1
1
1
0.09
0.66
0.36
0.69
1
0.38
0.04
0.08
1
1
0.35
1
0.57
0.94
0.99
0.25
1
0.991
0.78
0.98
0.33
0.19
1
1
0.85
1
0.97
1
0.87
1
0.01
1
0.51
0.16
0.06
0.71
1
1
0.3
0.94
A
B
Figure S9. Chronogram for Phaeocollybia. Time scale set to millions of years. MCC tree with median node heights based on the ITS region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was assigned an age prior with mean 85 Ma (sd 14 Ma) and the split between Phaeocollybia, Hebeloma, and Galerina an age prior with mean 60 Ma (sd 15 Ma). The cut off for OTUs was set to 0.02 expected substitutions per site. MEDUSA indicated one rate change (clade marked with gray backgound).The root was inferred to have a net diversification rate = 0.02 and relative extinction rate = 0.00; the clade marked in gray had a net diversification rate = 0.07 and relative extinction rate = 0.00.
0.010.020.030.040.050.060.070.080.0
EU846282 Phaeocollybia fallax
EU846284 Phaeocollybia fallax
GQ165693 Phaeocollybia pleurocystidia
AY818348 Agrocybe praecox
GQ165636 Phaeocollybia benzokauffmanii
EU570185 Hebeloma erumpens
GQ165647 Phaeocollybia californica
EU669366 Phaeocollybia fallax
Galerina semilanceata
GQ165657 Phaeocollybia lilacifolia
GQ165666 Phaeocollybia luteosquamulosa
GQ165634 Phaeocollybia attenuata
EU669354 Phaeocollybia dissiliens
GQ165622 Phaeocollybia ammiratii
GQ165702 Phaeocollybia scatesiae
GQ165696 Phaeocollybia radicata
EU846268 Phaeocollybia piceae
GQ165655 Phaeocollybia gregaria
GQ165682 Phaeocollybia oregonensis
AM882996 Crepidotus mollis
EU644706 Phaeocollybia sipei
EU852801 Phaeocollybia pseudofestiva
EU697255 Phaeocollybia pseudofestiva
EU697249 Phaeocollybia piceae
EU669234 Phaeocollybia olivacea
DQ494682 Phaeocollybia festiva
AF501567 Phaeocollybia graveolens
0.32
0.76
1
0.4
1
1
1
1
0.65
1
1
0.97
0.83
0.6
0.94
0.73
0.68
1
0.3
0.84
0.57
1
0.11
1
0.42
Figure S10. Chronogram for Tricholoma. Time scale set to million of years. MCC tree with median node heights based on the ITS region. Node bars represent 95% credibility intervals for node heights. Numbers above branches represents posterior probabilities. Names of outgroup taxa are in gray. The root was given an age prior with mean 103 Ma (sd 15 Ma) and the split between Tricholoma and Entoloma an age prior with mean 91 Ma (sd 15 Ma). The cut off for OTUs were set to 0.025 expected substitutions per site.
0.010.020.030.040.050.060.070.080.090.0100.0
AB301605 Lyophyllum decastes
AF458444 Tricholoma mutabile
AF527368 Tricholoma magnivelare
EU186275 Tricholoma sejunctum
AF349686 Tricholoma portentosum
AF062611 Tricholoma nictitans
DQ990868 uncultured ectomycorrhiza
AY656986 uncultured mycorrhiza
AF377247 Tricholoma acerbum
DQ974703 Tricholoma cf. flavovirens
DQ389733 Tricholoma sp.
AF377204 Tricholoma sp.
DQ974702 Tricholoma ustale
AF357016 Tricholoma subaureum
AF377238 Tricholoma fracticum
AF309519 Tricholoma caligatum
AF062608 Tricholoma imbricatum
EF493302 Tricholoma pardinum
AF458446 Tricholoma luteomaculosum
AF377241 Tricholoma psammopus
DQ206983 Entoloma prunuloides
AY462034 Tricholoma sulphureum
DQ494700 Tricholoma saponaceum
AB289665 Tricholoma robustum
EF493262 Tricholoma album
AF377236 Tricholoma focale
AF349691 Tricholoma sejunctum
EU294283 Tricholoma matsutake
AF377245 Tricholoma sulphureum
FJ807976 uncultured ectomycorrhiza
AF377181 Tricholoma flavovirens
AF458439 Tricholoma muricatum
EU563478 uncultured ectomycorrhiza
AY656987 uncultured mycorrhiza
AB036895 Tricholoma flavovirens
FJ807978 uncultured ectomycorrhiza
AF377235 Tricholoma ustale
AF377198 Tricholoma cingulatum
EU186279 Tricholoma lascivum
EU186274 Tricholoma portentosum
AF377239 Tricholoma dryophilum
AY462035 Tricholoma sulphureum
AY750166 Tricholoma atroviolaceum
AB289668 Tricholoma fulvocastaneum
DQ367919 Tricholoma aurantium
EU781654 uncultured ectomycorrhiza
EF619841 uncultured Tricholoma
AF377202 Tricholoma intermedium var macrosporum
FJ596910 Tricholoma aff. sejunctum
AF062610 Tricholoma orirubens
EU597086 Tricholoma leucophyllumAF377180 Tricholoma sp.
AF241519 Tricholoma squarrulosum
AB036894 Tricholoma ustale
AF309533 Tricholoma caligatum
DQ097883 Tricholoma cf. terreum
FJ845445 Tricholoma platyphyllum
EU597089 Tricholoma cf. davisiae
FJ845444 Tricholoma vaccinum
AB036899 Tricholoma sejunctum
AF377183 Tricholoma columbetta
DQ097867 Tricholoma intermedium
EU819447 Tricholoma sejunctum
AY573540 Tricholoma terreum
FJ596885 Tricholoma sejunctum
AF309522 Tricholoma caligatum
AB036900 Tricholoma japonicum
AF241516 Tricholoma album
AF377193 Tricholoma sejunctum
AF377203 Tricholoma vernaticum
DQ517420 Tricholoma moseri
AF377226 Tricholoma sciodes
AF377229 Tricholoma huronense
DQ389734 Tricholoma orirubens
FJ845448 Tricholoma sejunctum
FJ845443 Tricholoma myomyces
AY462033 Tricholoma sulphureum
AF204807 Tricholoma bakamatsutake
EU160594 Tricholoma scalpturatum
AJ272072 Tricholoma populinum
1
0.94
1
1
1
0.35
0.71
1
1
1
0.84
0.52
1
1
0.98
0.52
1
1
0.47
1
0.65
0.8
0.93
1
0.37
0.62
0.33
0.99
0.99
0.96
0.46
0.97
1
1
0.88
1
0.44
1
0.75
0.97
0.66
1
1
1
1
1
1
0.5
1
0.83
1
0.99
0.22
0.89
0.23
0.36
1
1
0.54
1
0.48
1
0.96
1
1
1
1
1
0.58
0.52
0.92
0.45
0.280.45
0.77
0.92
1
0.96
Table S1. Probabilities of stem origins during different epochs. Jurrassic Cretaceous Paleogene ECM lineage
of Agaricales Late Early Late Total Paleocene Eocene Oligocene Total Amanita 0.00 0.49 0.51 1.00 0.00 0.00 0.00 0.00 Catathelasma 0.00 0.13 0.76 0.89 0.07 0.04 0.00 0.11 Cortinarius* 0.00 0.05 0.71 0.76 0.17 0.08 0.00 0.25 Descolea* 0.00 0.01 0.50 0.51 0.24 0.23 0.01 0.48 Hebelomateae 0.00 0.00 0.34 0.34 0.36 0.30 0.00 0.66 Hydnangiaceae 0.00 0.03 0.65 0.68 0.2 0.12 0.00 0.32 Hygrophorus 0.13 0.65 0.15 0.80 0.01 0.00 0.00 0.01 Inocybaceae 0.00 0.00 0.34 0.34 0.39 0.26 0.00 0.65 Phaeocollybia 0.00 0.00 0.26 0.26 0.34 0.39 0.01 0.74 Tricholoma 0.00 0.19 0.80 0.99 0.01 0.00 0.00 0.01 * Including gasteroid allies. Table S2. Ancestral plant association. The ancestral plant association reconstructed for most trees in the posterior distribution using parsimony and the proportion of the posterior distribution (P), for which this state was reconstructed. The median probability (and 95% credibility interval) for each state given the Bayesian ancestral state reconstruction is also provided.
Parsimony Bayesian ECM lineage of Agaricales Group** P Angiosperm Pinaceae Generalist Amanita Eq. 0.86 0.33 (0.08-0.34) 0.33 (0.00-0.34) 0.34 (0.33-0.88) Catathelasma Pin. 1.00 0.33 (0.00-0.34) 0.33 (0.33-1.00) 0.33 (0,00-0.38) Cortinarius* Ang. 0.71 0.33 (0.32-0.36) 0.33 (0.30-0.34) 0.33 (0.32-0.33) Descolea* Ang. 1.00 1.00 (0.33-1.00) 0.00 (0.00-0.33) 0.00 (0.00-0.33) Hebelomateae Ang. 1.00 0.00 (0.00-0.33) 0.35 (0.28-0.71) 0.63 (0.29-0.72) Hydnangiaceae Ang. 0.99 0.33 (0.33-0.42) 0.33 (0.25-0.34) 0.33 (0.31-0.34) Hygrophorus Pin. 1.00 0.24 (0.00-1.00) 0.34 (0.00-1.00) 0.30 (0.00-1.00) Inocybaceae Ang. 0.99 0.33 (0.26-0.37) 0.33 (0.31-0.41) 0.33 (0.32-0.34) Phaeocollybia Pin. 1.00 0.50 (0.00-1.00) 0.00 (0.00-1.00) 0.33 (0.00-0.63) Tricholoma Pin. 0.80 0.33 (0.25-0.55) 0.33 (0.21-0.46) 0.33 (0.10-0.38) * Including gasteroid allies. ** Eq. (equivocal); Pin. (Pinaceae); Ang. (angiosperm)
Table S3. Diversification rate model comparison using DivBayes. Taxa given the same number are defined to have the same rate for net diversification (N; speciation rate – extinction rate) and relative extinction rate (E; extinction rate/speciation rate), respectively. If no numbers are given for relative extinction rate, the Yule model was used (extinction rate = 0 for all taxa). The mean and standard deviation (SD) of the normal distributed age prior and the number of species (No.) for each group are also given.
Models Age prior 1 2 3 4 5 6 7 8 9 10 11
ECM lineage of Agaricales
No. Mean SD N E N E N E N E N E N E N E N E N E N E N E Amanita 500 99 12 0 0 0 0 0 0 0 0 0 0 0 0 0 0 Catathelasma 4 91 18 0 0 0 1 1 0 1 1 1 0 1 0 1 1 Cortinarius* 2011 75 15 0 0 0 2 2 0 2 2 0 1 2 1 0 2 Descolea* 30 66 15 0 0 0 3 3 0 3 3 0 0 0 0 0 0 Hebelomateae 281 61 11 0 0 0 4 4 0 4 4 0 0 0 1 0 2 Hydnangiaceae 76 73 13 0 0 0 5 5 0 5 5 0 0 0 0 0 0 Hygrophorus 100 125 25 0 0 0 6 6 0 6 6 0 0 0 0 1 1 Inocybaceae 507 62 10 0 0 0 7 7 0 7 7 0 0 0 1 0 2 Phaeocollybia 50 59 11 0 0 0 8 8 0 8 8 0 0 0 0 0 0 Tricholoma 200 90 11 0 0 0 9 9 0 9 9 0 0 0 0 0 0 Table S4. Bayes factors for each model in Table S3 as estimated from harmonic means of the log likelihood in the DivBayes runs. The estimated net diversification rate (N) and relative extinction rate (E) are given for each category (indexed as in Table S3). Model Log Bayes factor Estimated rates
1 -67.3 N0: 0.07 (0.06-0.09) 2 -67.5 N0: 0.08 (0.06-0.09)
E0: 0.21 (0.01-0.68) 3 -65.7 N0: 0.07 (0.05-0.12) N1: 0.04 (0.01-0.10) N2: 0.12 (0.08-0.22) N3: 0.08
(0.04-0.18) N4: 0.11 (0.07-0.20) N5: 0.08 (0.04-0.15) N6: 0.05 (0.03-0.11) N7: 0.12 (0.07-0.20) N8: 0.09 (0.05-0.18) N9: 0.07 (0.04-0.12)
4 -65.9 N0: 0.07 (0.05-0.12) N1: 0.04 (0.01-0.10) N2: 0.12 (0.07-0.21) N3: 0.07 (0.03-0.18) N4: 0.11 (0.06-0.19) N5: 0.07 (0.04-0.14) N6: 0.05 (0.03-0.11) N7: 0.11 (0.07-0.19) N8: 0.08 (0.04-0.17) N9: 0.07 (0.04-0.12) E0: 0.16 (0.01-0.60)
5 -66.4 N0: 0.07 (0.04-0.11) N1: 0.03 (0.01-0.10) N2: 0.11 (0.06-0.20) N3: 0.07 (0.03-0.17) N4: 0.10 (0.05-0.19) N5: 0.07 (0.03-0.14) N6: 0.04 (0.02-0.10) N7: 0.10 (0.06-0.19) N8: 0.08 (0.03-0.17) N9: 0.06 (0.03-0.11) E0: 0.42 (0.02-0.93) E1: 0.33 (0.01-0.87) E2: 0.46 (0.02-0.96) E3: 0.38 (0.02-0.90) E4: 0.45 (0.02-0.94) E5: 0.40 (0.02-0.92) E6: 0.40 (0.02-0.92) E7: 0.45 (0.02-0.95) E8: 0.40 (0.02-0.91) E9: 0.41 (0.02-0.93)
6 -65.6 N0: 0.08 (0.07-0.10) N1: 0.04 (0.01-0.10) 7 -66.7 N0: 0.08 (0.06-0.09) N1: 0.12 (0.08-0.22) 8 -65.3 N0: 0.08 (0.06-0.09) N1: 0.04 (0.01-0.10) N2: 0.12 (0.08-0.22) 9 -64.3 N0: 0.06 (0.05-0.08) N1: 0.11 (0.08-0.15) 10 -65.0 N0: 0.09 (0.07-0.10) N1: 0.04 (0.03-0.07) 11 -63.2 N0: 0.07 (0.06-0.09) N1: 0.04 (0.03-0.08) N2: 0.11 (0.08-0.15)
top related