Combined analysis Bayesian consensus

1. Combined analysis Bayesian consensus 100 Neurospora crassa 100 Chaetomium globosum 100 Saccharomyces cerevisiae Dikaryofungi 100% Pneumocystis carinii 100 Schizosaccharomyces pombe 100 Coprinopsis cinerea 100 Phanerochaete chrysosporium 100 Cryptococcus neoformans 96 Ustilago maydis Glomus mosseae 100 100 Glomeromycota 100% Glomus intraradices Scutellospora heterogama 100 Paraglomus occultum 100 Geosiphon pyriforme Mucorales Rhizopus stolonifer 100 100 Cokeromyces recurvatus 100 Phycomyces blakesleeanus Mortierellales 100 Umbelopsis ramanniana Endogonales 100 Endogone pisiformis Endogone lactiflua Mortierellales 100 Mortierella verticillata Mortierella sp. Smittium culisetae 100 100 97 Furculomyces boomerangus Harpellales + Kickxellales (and presumably Asellariales) 100 Coemansia reversa 100 Orphella haysii 100 Spiromyces aspiralis Dimargaritales Dimargaris bacillispora 100 100 Kuzuhaea moniliformis Zoopagales 100 Piptocephalis corymbifera 100 Rhopalomyces elegans 100 Entomophthora muscae Entomophthorales Conidiobolus coronatus 100 98 fungi is Basidiobolus ranarum Olpidium brassicae 100 Allomyces arbusculus 100 Blastocladiales Catenophlyctis sp. 100 Coelomomyces stegomyiae Physoderma maydis 100 Rhizophydium brooksianum 100 Rhizophlyctis harderi 100 Rhizophydium macroporosum Chytridiales 100 Rhizophydium sphaerotheca Batrachochytrium dendrobatidis Entophlyctis helioformis 100 100 99 100 Spizellomyces punctatus Spizellomycetales 100 Powellomyces sp. Gaertneriomyces semiglobiferus 99 100 100 Rhizophlyctis rosea Catenomyces sp. Polychytrium aggregatum 100 Karlingiomyces sp. Rhizoclosmatium sp. 100 100 100 chytrid 187 Chytridiales Rhizophydium sp. 354 100 100 Phlyctochytrium planicorne 100 100 Synchytrium decipiens 99 Synchytrium macrosporum 99 Cladochytrium replicatum 100 98 Nowakowskiella sp. Chytriomyces angularis Monoblepharidiales 100 Monoblepharella sp. 99 100 Oedigoniomyces sp. Neocallimastigales Hyaloraphidium curvatum 100 Neocallimastix sp. Microsporidia 100 Encephalitozoon cuniculi 100 Antonospora locustae fungi is 100 Rozella sp. 100 Rozella allomycis 100 Caenorhabditis elegans 100 Drosophila melanogaster 100 Ciona intestinalis Monosiga brevicollis 100 Phytophthora sojae Thalassiosira pseudonana Dictyostelium discoideum Arabidopsis thaliana 100 Oryza sativa 0.1

2. 100 Neurospora crassa 100 Chaetomium globosum Ascomycota 100 Saccharomyces cerevisiae Pneumocystis carinii 100 Schizosaccharomyces pombe 100 Coprinopsis cinerea 100 Phanerochaete chrysosporium 100 Basidiomycota Cryptococcus neoformans 96 Ustilago maydis Glomus mosseae 100 100 Glomus intraradices Scutellospora heterogama Glomeromycota 100 Paraglomus occultum Geosiphon pyriforme 100 Rhizopus stolonifer 100 100 Cokeromyces recurvatus 100 Phycomyces blakesleeanus 100 Umbelopsis ramanniana Mucorales+Endogonales Endogone pisiformis 100 Endogone lactiflua 100 Mortierella verticillata Mortierella sp. Smittium culisetae 100 100 Furculomyces boomerangus 97 100 Coemansia reversa Kickxellales+Harpellales+ Dimargaritales 100 Orphella haysii 100 Spiromyces aspiralis Dimargaris bacillispora 100 100 Kuzuhaea moniliformis 100 Piptocephalis corymbifera Zoopagales Rhopalomyces elegans Entomophthora muscae 100 Conidiobolus coronatus Entomophthorales 100 98 Basidiobolus ranarum Olpidium brassicae

3. 100 Allomyces arbusculus 100 100 Catenophlyctis sp. Blastocladiales 100 Coelomomyces stegomyiae Physoderma maydis 100 Rhizophydium brooksianum 100 Rhizophlyctis harderi 100 Rhizophydium macroporosum Chytridiales 100 Rhizophydium sphaerotheca Batrachochytrium dendrobatidis Entophlyctis helioformis 100 100 99 Spizellomyces punctatus 100 100 Powellomyces sp. Gaertneriomyces semiglobiferus Spizellomycetales 99 100 Rhizophlyctis rosea 100 Catenomyces sp. Polychytrium aggregatum 100 Karlingiomyces sp. Rhizoclosmatium sp. 100 100 chytrid 187 100 Rhizophydium sp. 354 100 100 Phlyctochytrium planicorne Chytridiales 100 Synchytrium decipiens 100 99 Synchytrium macrosporum 99 Cladochytrium replicatum 100 Nowakowskiella sp. 98 Chytriomyces angularis Monoblepharella sp. 100 99 100 Oedigoniomyces sp. Monoblepharidales Hyaloraphidium curvatum 100 Microsporidia Neocallimastix sp. Encephalitozoon cuniculi 100 100 Antonospora locustae 100 Rozella sp. Rozella allomycis Caenorhabditis elegans 100 100 Drosophila melanogaster 100 Ciona intestinalis Monosiga brevicollis