Publications

2024

  • Clemons R, Yacoub M, Faust E, Toledo LF, Jenkinson TS, Carvalho T, Simmons DR, Kalinka E, Fritz-Laylin LK, James TY, Stajich JE | An endogenous DNA virus in an amphibian-killing fungus associated with pathogen genotype and virulence | Current Biology | In press | doi.org/10.1016/j.cub.2024.02.062

  • Harvey R, Davis DD, Simmons DR, Aime MC | 2024 | First report of Puccinia recondita rust on native jewelweed (Impatiens capensis) in Pennsylvania | Plant Disease | 108(3):813 | doi.org/10.1094/PDIS-11-23-2288-PDN

  • Hyde KD, [...] Simmons DR […], et al. | 2024 | Global consortium for the classification of fungi and fungus-like taxa | Mycosphere | 14(1):1960–2012 | doi.org/10.5943/mycosphere/14/1/23

  • Jerônimo GH, Simmons DR, Longcore JE, James TY, Amses KR, Seto K, Pires-Zottarelli CLA | 2024 | Investigations of CZEUM cultures reveal new genera and species of Cladochytriales (Cladochytriomycetes, Chytridiomycota) | Mycological Progress | 23:1 | doi.org/10.1007/s11557-023-01936-y

2023

  • Harvey R, Davis DD, Simmons DR, Aime MC | 2023 | First report of Puccinia lagenophorae on Senecio vulgaris in Pennsylvania | Plant Disease | 107(8):2542 | doi.org/10.1094/PDIS-10-22-2492-PDN

  • Hurdeal VG, Longcore JE, Jones EBG, Simmons DR, Hyde KD, Gentekaki E | 2023 | Integrative approach to species delimitation in Rhizophydiales: novel species of Angulomyces, Gorgonomyces, and Terramyces from northern Thailand | Molecular Phylogenetics and Evolution | 180:107706 | doi.org/10.1016/j.ympev.2023.107706

  • Quandt CA, Marino JA, Simmons DR, Davis WJ, Hassett BT, Picard KT, James TY | 2023 | Evaluating the diversity of the enigmatic fungal phylum Cryptomycota across habitats using 18S rRNA metabarcoding | Fungal Ecology | 64:101248 | doi.org/10.1016/j.funeco.2023.101248

  • Seto K, Simmons DR, Quandt CA, Frenken T, Dirks AC, Clemons RA, McKindles KM, McKay RM, James TY | 2023 | A combined microscopy and single-cell sequencing approach reveals the ecology, morphology, and phylogeny of uncultured lineages of zoosporic fungi | mBio | 14(4):e01313-23 | doi.org/10.1128/mbio.01313-23

2022

  • Amses KR†, Simmons DR†, Longcore JE, Mondo SJ, Seto K, Jerônimo GH, Bonds AE, Quandt CA, Davis WJ, Chang Y, Federici BA, Kuo A, LaButti K, Pangilinan J, Andreopoulos W, Tritt A, Riley R, Hundley H, Johnson J, Lipzen A, Barry K, Lang BF, Cuomo CA, Buchler NE, Grigoriev IV, Spatafora JW, Stajich JE, James TY | 2022 | Diploid-dominant life cycles characterize the early evolution of Fungi | Proceedings of the National Academy of Sciences of the United States of America | 119(36):e2116841119 | doi.org/10.1073/pnas.2116841119 | Selected for issue cover | † Equal contribution

  • Jerônimo GH, Simmons DR, Amses KR, Seto K, James TY, Pires-Zottarelli CLA, Longcore JE | 2022 | Phytochytrium and Sparrowiella, two new polycentric genera in Cladochytriales | Mycological Progress | 21:31 | doi.org/10.1007/s11557-022-01791-3

2021

  • Simmons DR, Longcore JE, James TY | 2021 | Polyrhizophydium stewartii, the first known rhizomycelial genus and species in the Rhizophydiales, is closely related to Batrachochytrium | Mycologia | 113:684–690 | doi.org/10.1080/00275514.2021.1885206

  • Voigt K, James TY, Kirk PM, Santiago ALCMdeA, Waldman B, Griffith GW, Fu M, Radek R, Strassert JFH, Wurzbacher C, Jerônimo GH, Simmons DR, Seto K, Gentekaki E, Hurdeal VG, Hyde KD, Nguyen TTT, Lee HB | 2021 | Early-diverging fungal phyla: taxonomy, species concept, ecology, distribution, anthropogenic impact, and the novel phylogenetic proposals | Fungal Diversity | 109:59–98 | doi.org/10.1007/s13225-021-00480-y

2020

  • Longcore JE, Qin S, Simmons DR, James TY | 2020 | Quaeritorhiza haematococci gen. et sp. nov., a parasitic chytrid of the commercially grown alga, Haematococcus pluvialis | Mycologia | 112:606–615 | doi.org/10.1080/00275514.2020.1730136

  • Longcore JE, Simmons DR | 2020 | Chytridiomycota | 9 pp. | Encyclopedia of Life Sciences | John Wiley & Sons, Ltd | Chichester | www.els.net | doi.org/10.1002/9780470015902.a0000349.pub4

  • Myers JM, Bonds AE, Clemons RA, Thapa NA, Simmons DR, Longcore JE, Bonito G, Stajich JE, Spatafora JW, Chang Y, Corrochano L, Gryganskyi A, Grigoriev I, James TY | 2020 | Survey of early-diverging lineages of fungi reveals abundant and diverse mycoviruses | mBio | 11:e02027-20 | doi.org/10.1128/mBio.02027-20

  • Simmons DR, Bonds AE, Castillo BT, Clemons RA, Glasco AD, Myers JM, Thapa N, Letcher PM, Longcore JE, Powell MJ, James TY | 2020 | The Collection of Zoosporic Eufungi at the University of Michigan (CZEUM): introducing a new repository of barcoded Chytridiomyceta and Blastocladiomycota cultures | IMA Fungus | 11:20 | doi.org/10.1186/s43008-020-00041-z

2019

  • Davis WJ, Jerônimo GH, Simmons DR, Quandt CA, James TY | 2019 | Revisiting the aquatic phycomycete biota of the Douglas Lake region since the time of Dogma and Sparrow | Philippine Journal of Systematic Biology | 13:1–14 | doi.org/10.26757/pjsb2019b13001

  • James TY, Michelotti LA, Glasco AD, Clemons RA, Powers RA, James ES, Simmons DR, Bai F, Ge S | 2019 | Adaptation by loss of heterozygosity in Saccharomyces cerevisiae clones under divergent selection | Genetics | 213:665–683 | doi.org/10.1534/genetics.119.302411

  • Jerônimo GH, Jesus AL, Simmons DR, James TY, Pires-Zottarelli CLA | 2019 | Novel taxa in Cladochytridiales (Chytridiomycota): Karlingiella (gen. nov.) and Nowakowskiella crenulata (sp. nov.) | Mycologia | 111:506–516 | doi.org/10.1080/00275514.2019.1588583

  • Jerônimo GH, Simmons DR, James TY, Pires-Zottarelli CLA | 2019 | Boothiomyces angulosum and Boothiomyces elyense: two new combinations to Terramycetaceae (Rhizophydiales, Chytridiomycota) | Nova Hedwigia | 109:399–412 | doi.org/10.1127/nova_hedwigia/2019/0536

2018

  • Letcher PM, Longcore JE, James TY, Leite DS, Simmons DR, Powell MJ | 2018 | Morphology, ultrastructure, and molecular phylogeny of Rozella multimorpha, a new species in Cryptomycota | Journal of Eukaryotic Microbiology | 65:180–190 | doi.org/10.1111/jeu.12452

2017

  • Bateman C, Huang Y-T, Simmons DR, Kasson MT, Stanley EL, Hulcr J | 2017 | Ambrosia beetle Premnobius cavipennis (Scolytinae: Ipini) carries highly divergent ascomycotan ambrosia fungus, Afroraffaelea ambrosiae gen. et sp. nov. (Ophiostomatales: Ophiostomataceae) | Fungal Ecology | 25:41–49 | doi.org/10.1016/j.funeco.2016.10.008

  • Li Y, Bateman CC, Skelton J, Jusino MA, Nolen ZJ, Simmons DR, Hulcr J | 2017 | Wood decay fungus Flavodon ambrosius (Basidiomycota: Polyporales) is widely farmed by two genera of ambrosia beetles | Fungal Biology | 121:984–989 | doi.org/10.1016/j.funbio.2017.08.004

2016

  • Kasson MT, Wickert KL, Stauder CM, Macias AM, Berger MC, Simmons DR, Short DPG, DeVallance DB, Hulcr J | 2016 | Mutualism with aggressive wood-degrading Flavodon ambrosius (Polyporales) facilitates niche expansion and communal social structure in Ambrosiophilus ambrosia beetles | Fungal Ecology | 23:86–96 | doi.org/10.1016/j.funeco.2016.07.002

  • Longcore JE, Simmons DR, Letcher PM | 2016 | Synchytrium microbalum sp. nov. is a saprobic species in a lineage of parasites | Fungal Biology | 120:1156–1164 | doi.org/10.1016/j.funbio.2016.06.010

  • Simmons DR, De Beer ZW, Huang Y-T, Bateman C, Campbell AS, Dreaden TJ, Li Y, Ploetz RC, Black AW, Li H-F, Chen C-Y, Wingfield MJ, Hulcr J | 2016 | New Raffaelea species (Ophiostomatales) from the USA and Taiwan associated with ambrosia beetles and plant hosts | IMA Fungus | 7:265–273 | doi.org/10.5598/imafungus.2016.07.02.06

  • Simmons DR, Li Y, Bateman CC, Hulcr J | 2016 | Flavodon ambrosius sp. nov., a basidiomycetous mycosymbiont of Ambrosiodmus ambrosia beetles | Mycotaxon | 131:277–285 | doi.org/10.5248/131.277 | Selected for issue cover

2015

  • Li Y†, Simmons DR†, Bateman CC, Short DPG, Kasson MT, Rabaglia R, Hulcr J | 2015 | New fungus-insect symbiosis: culturing, molecular, and histological methods determine saprophytic Polyporales mutualists of Ambrosiodmus ambrosia beetles | PLoS ONE | 10:e0137689 | doi.org/10.1371/journal.pone.0137689 | † Equal contribution

  • Simmons DR, Kepler RM, Rehner SA, Groden E | 2015 | Phylogeny of Hirsutella species (Ophiocordycipitaceae) from the United States: remedying the paucity of Hirsutella sequence data | IMA Fungus | 6:345–356 | doi.org/10.5598/imafungus.2015.06.02.06

  • Simmons DR, Lund J, Levitsky T, Groden E | 2015 | Ophiocordyceps myrmicarum, a new species infecting invasive Myrmica rubra in Maine | Journal of Invertebrate Pathology | 125:23–30 | doi.org/10.1016/j.jip.2014.12.010

2013

  • Hajek AE, Longcore JE, Simmons DR, Peters K, Humber RA | 2013 | Chytrid mycoparasitism of entomophthoralean azygospores | Journal of Invertebrate Pathology | 114:333–336 | doi.org/10.1016/j.jip.2013.10.002

2012

  • Longcore JE, Simmons DR | 2012 | Blastocladiomycota | 8 pp. | Encyclopedia of Life Sciences | John Wiley & Sons, Ltd | Chichester | www.els.net | doi.org/10.1002/9780470015902.a0023623

  • Longcore JE, Simmons DR | 2012 | Chytridiomycota | 11 pp. | Encyclopedia of Life Sciences | John Wiley & Sons, Ltd | Chichester | www.els.net | doi.org/10.1002/9780470015902.a0000349.pub3

  • Longcore JE, Simmons DR | 2012 | The Polychytriales ord. nov. contains chitinophilic members of the rhizophlyctoid alliance | Mycologia | 104:276–294 | doi.org/10.3852/11-193

  • Simmons DR, Letcher PM, Powell MJ, Longcore JE | 2012 | Alogomyces tanneri gen. et sp. nov., a chytrid in Lobulomycetales from horse manure | Mycologia | 104:157–163 | doi.org/10.3852/11-043

  • Simmons DR, Longcore JE | 2012 | Thoreauomyces gen. nov., Fimicolochytrium gen. nov. and additional species in Geranomyces | Mycologia | 104:1229–1243 | doi.org/10.3852/12-015

2011

  • Simmons DR | 2011 | Phylogeny of Powellomycetaceae fam. nov. and description of Geranomyces variabilis gen. et comb. nov. | Mycologia | 103:1411–1420 | doi.org/10.3852/11-039

  • Steiger RA, Simmons DR, Longcore JE | 2011 | Cylindrochytridium johnstonii is a member of the Cladochytriales | Mycotaxon | 118:293–302 | doi.org/10.5248/118.293

2009

  • Freeman KR, Martin AP, Karki D, Lynch RC, Mitter MS, Meyer AF, Longcore JE, Simmons DR, Schmidt SK | 2009 | Evidence that chytrids dominate fungal communities in high-elevation soils | Proceedings of the National Academy of Sciences of the United States of America | 106:18315–18320 | doi.org/10.1073/pnas.0907303106

  • Mozley-Standridge SE, Letcher PM, Longcore JE, Porter D, Simmons DR | 2009 | Cladochytriales — a new order in Chytridiomycota | Mycological Research | 113:498–507 | doi.org/10.1016/j.mycres.2008.12.004

  • Simmons DR, James TY, Meyer AF, Longcore JE | 2009 | Lobulomycetales, a new order in the Chytridiomycota | Mycological Research | 113:450–460 | doi.org/10.1016/j.mycres.2008.11.019