the hibbett lab

at Clark University


Updated March 2017


Cai, C., R. A. Leschen, D. S. Hibbett, F. Xia, and D. Huang. Mycophagous rove beetles highlight diverse mushrooms in the Cretaceous. 2017. Nature Communications 8:14894 DOI: 10.1038/ncomms14894. PDF


Gazis, R., A. Kuo, R. Riley, I. Grigoriev, C. Hesse, J. Spatafora, B. Henrissat, M. Hainaut, A. Lipzen, M. Amirebrahim, K. LaButti, J. Lin, and D. Hibbett. 2016. The genome of Xylona heveae provides a window into fungal endophytism. Fungal Biology 120: 26-42. PDF

Hawksworth, D. L., D. S. Hibbett, P. M. Kirk, and R. Lücking. 2016. (308–310) Proposals to amend Art. 8 to permit the use of DNA sequences as types of names of fungi. Taxon 65: 899-900. PDF

Hibbett, D. 2016. The invisible dimension of fungal diversity. Science 351: 1150-1151 (includes commentary by Kõljalg et al. and Hibbett response). PDF

Hibbett, D., , K. Abarenkov, U. Kõljalg, M. Öpik, B. Chai, J. Cole, Q. Wang, P. Crous, V. Robert, T. Helgason, J. R. Herr, P. Kirk, S. Lueschow, K. O'Donnell, R. H. Nilsson, R. Oono, C. Schoch, C. Smyth, D. M. Walker, A. Porras-Alfaro, J. W. Taylor, D. M. Geiser. 2016. Sequence-based classification and identification of Fungi. Mycologia 108: doi: 10.3852/16-130. PDF

Hibbett, D., R. Blanchette, P. Kenrick and B. Mills. 2016. Climate, decay, and the death of the coal forests. Current Biology 26: R543-R576. PDF

Martin, F., A. Kohler, C. Murat, C. Veneault-Fourrey, and D. S. Hibbett. 2016. Unearthing the roots of ectomycorrhizal symbiosis. Nature Reviews Microbiology 14: doi:10.1038/nrmicro.2016.149. PDF

Miettinen, O., V. Spirin, J. Vlasák, B. Rivoire, S. Stenroos, and D. Hibbett. 2016. Polypores and genus concepts in Phanerochaetaceae (Polyporales, Basidiomycota). MycoKeys 17: 1–46 (2016) doi: 10.3897/mycokeys.17.10153. PDF

Nagy, L. G., R. Riley, A. Tritt, C. Adam, C. Daum, D. Floudas, H. Sun, J. S. Yadav, J. Pangilinan, K.-H. Larsson, K. Matsuura, K. Barry, K. LaButti, R. Kuo, R. Ohm, S. S. Bhattacharya, T. Shirouzu, Y. Yoshinaga, F. M. Martin, I. V. Grigoriev, and D. S. Hibbett. 2016. Comparative genomics of early-diverging mushroom-forming fungi provides insights into the origins of lignocellulose decay capabilities. Molecular Biology and Evolution 33: 959-970. PDF


Floudas, D., and D. S. Hibbett. 2015. Revisiting the taxonomy of Phanerochaete (Polyporales, Basidiomycota) using a four-gene dataset and extensive ITS sampling. Fungal Biology 119: 679-719. PDF

Floudas, Dimitrios, Laszlo G. Nagy, Benjamin W. Held, Robert Riley, Robin A. Ohm, Robert A. Blanchette, Ursula Kües, Igor V. Grigoriev, Robert E. Minto, David S. Hibbett. 2015. Evolution of novel wood decay mechanisms in Agaricales revealed by the genome sequences of Fistulina hepatica and Cylindrobasidium torrendii. Fungal Genetics and Biology 76: 78-92. doi:10.1016/j.fgb.2015.02.002. PDF

Halling, R., M. Nuhn, T. Osmundson, K. Soytong, D. Arora, M. Binder, and D. S. Hibbett. 2015. Evolutionary relationships of Heimioporus and Boletellus (Boletales) with an emphasis on Australian taxa. Australian Systematic Botany 28: 1-22. PDF

Herr, J. R., M. Öpik, and D. S. Hibbett. 2015.Towards the unification of sequence-based classification and sequence-based identification of host-associated microorganisms. New Phytologist 205: 27-31 (meeting report). PDF

Hinchcliff, C. E., S. A. Smith, J. F. Allman, G. Burleigh, R. Chaudury, L. Coghill, K. A. Crandall, J. Deng, B. Drew, R. Gazis, K. Gude, D. S. Hibbett, L. A. Katz, H. D. Laughinghouse IV, E. J. McTavish, P. E. Midford, C. L. Owen, R. H. Ree, J. A. Rees, D. E. Soltis, T. Williams, and K. A. Cranston. 2015. Synthesis of phylogeny and taxonomy into a comprehensive tree of life. Proceedings of the National Academy of Sciences, U.S.A. doi: 10.1073/pnas.1423041112 PDF

Kohler, A. A. Kuo, L. G. Nagy, E. Morin, K. W. Barry, F. Buscot, B. Canbäck, C Choi, N. Cichocki, A. Clum, J.Colpaert, A. Copeland, M. D. Costa, J. Doré, D. Floudas, G. Gay, M. Gardes, M. Girlanda, G. Grelet, H. Gryta, B. Henrissat, S. Herrmann, J Hess, N Högberg, P Jargat, T Johansson, H.-R. Khouja, K. LaButti, U. Lahrmann, A. Levasseur, E. A. Lindquist, A. Lipzen, R. Marmeisse, E. Martino, C. Murat, C.Y. Ngan, U. Nehls, M. Peter, J.M. Plett, A. Pringle, R. Ohm, S Perotto, R. Riley, F. Rineau, J. Ruytinx, A. Salamov, F. Shah, H. Sun, M Tarkka, A. Tritt, C. Veneault-Fourrey, S Zimmermann, A Zuccaro, A. Tunlid, I. V. Grigoriev, D. S. Hibbett, F. Martin. 2015. Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists. Nature Genetics 47: 410-415. doi:10.1038/ng.3223 PDF

Martin, R., R. Gazis, D. Skaltsas, P. Chaveri and D. S. Hibbett. 2015. Unexpected diversity of basidiomycetous endophytes in sapwood and leaves of Hevea. Mycologia 107:284-297 doi: 10.3852/14-206 PDF

Seelan, J-S, L. G. Nagy, E. Grand, D. S. Hibbett. 2015. Phylogenetic relationships and morphological evolution in Lentinus, Polyporellus and Neofavolus, emphasizing Southeast Asian taxa. Mycologia. 107:XXX-XXX doi: 10.3852/14-084 in press. PDF

Shah, F., C. Nicolás, J. Bentzer, M. Ellström, M. M. Smits, F. Rineau, B. Canbäck, D. Floudas, R. Carleer, G. Lackner, J. Braesel, D. Hoffmeister, B. Henrissat, D. Ahrén, T. Johansson, D. S. Hibbett, F. M. Martin, P. Persson, and A. Tunlid. 2015. Ectomycorrhizal fungi decompose humus-rich litter material using oxidative mechanisms retained from saprotrophic ancestors. New Phytologist doi: 10.1111/nph.13722. PDF

Young, D. A., J. Rice, R. Martin, E. Lindquist, A. Lipzen, I. Grigoriev, and D. S. Hibbett. 2015. Degradation of Bunker C fuel oil by white-rot fungi in sawdust cultures suggests potential applications in bioremediation. PLOS One 10(6): e0130381. doi:10.1371/journal.pone.0130381. PDF


Carlson, A., A. Justo, and D. S. Hibbett. 2014. Species delimitation in Trametes (Polyporales, Basidiomycota): a comparison of ITS, TEF-1, RPB1 and RPB2 phylogenies. Mycologia 106: Early Edition: doi: 10.3852/13-275. (2014). PDF

Hibbett, D. S. 2014. Major events in the evolution of the Fungi. Pp 152-158 in: Princeton Guide to Evolution (J. Losos, ed.) Princeton University Press.

Hibbett, D. D., R. Bauer, M. Binder, A.J. Giachini, K. Hosaka, A. Justo, E. Larsson, K.H. Larsson, J.D. Lawrey, O. Miettinen, L. Nagy, R.H. Nilsson, M. Weiss, and R.G. Thorn. 2014. Agaricomycetes. Pp. 373-429 In: The Mycota, vol. VII, Second Ed., Part A. Systematics and Evolution (D. J. McLaughlin and J. W. Spatafora, eds.). Springer Verlag. PDF(chapter); complete volume PDF

Justo, A., E. Malysheva, T. Bulyonkova, E. C. Vellinga, G. Cobian, N. Nguyen, A. W. Minnis, D. S. Hibbett. 2014. Molecular phylogeny and phylogeography of Holarctic species of Pluteus section Pluteus (Agaricales: Pluteaceae), with description of twelve new species. Phytotaxa 180: 1-85. PDF

Nagy, L. G., R. A. Ohm, G. M. Kovács, D. Floudas, R. Riley, A. Gácser, M. Sipiczki, J. M. Davis, S. L. Doty, G. S. de Hoog, J. W. Spatafora, F. Martin, I. V. Grigoriev, D. S. Hibbett. Phylogenomics reveals latent homology behind the convergent evolution of yeast forms. Nature Communications 5:4471 DOI: 10.1038/ncomms5471. (2014). PDF

Riley, Robert W., Asaf A. Salamov, Daren W. Brown, Laszlo G Nagy, Dimitrios Floudas, Benjamin W Held, Anthony Levasseur, Vincent Lombard, Emmanuelle Morin, Robert Otillar, Erika A Lindquist, Hui Sun, Kurt M. LaButti, Jeremy Schmutz, Dina Jabbour, Hong Luo, Scott E Baker, Antonio G Pisabarro, Jonathan D Walton, Robert A Blanchette, Bernard Henrissat, Francis Martin, Dan Cullen, David S. Hibbett, and Igor V. Grigoriev. Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white rot/brown rot paradigm for wood decay fungi. Proceedings of the National Academy of Science USA 111: Early Edition doi: 10.1073/pnas.1400592111 (2014). PDF


Binder, Manfred, Alfredo Justo, Robert Riley, Asaf Salamov, Francesc Lopez-Giraldez, Elisabet Sjökvist, Alex Copeland, Brian Foster, Hui Sun, Ellen Larsson, Karl-Henrik Larsson, Jeffrey Townsend, Igor V. Grigoriev, and David S. Hibbett. Phylogenetic and phylogenomic overview of the Polyporales. Mycologia 105, 1350-1373, doi:10.3852/13-003 (2013). PDF

Drew, B.T., R. Gazis, P. Cabezas, K.S. Swithers, J. Deng, R. Rodriguez, L.A. Katz, K.A. Crandall, D.S. Hibbett, D.E. Soltis. 2013. Lost branches on the tree of life. PLOS Biology 11:e1001636. PDF

Hibbett, D. S., Stajich, J. E. & Spatafora, J. W. Toward genome-enabled mycology. Mycologia 105, 1339-1349, doi:10.3852/13-196 (2013).PDF

Hibbett, D. S., and J. W. Taylor. 2013. Fungal systematics: is a new age of enlightenment at hand? Nature Reviews Microbiology doi:10.1038/nrmicro2942. PDF

Hori,Chiaki, Jill Gaskell, Kiyohiko Igarashi, Masahiro Samejima, David Hibbett, Bernard Henrissat, and Dan Cullen. Genomewide analysis of polysaccharides degrading enzymes in 11 white- and brown-rot Polyporales provides insight into mechanisms of wood decay. Mycologia 105, 1412-1427, doi:10.3852/13-072 (2013).PDF

Losos, J. B., Arnold, S., Bejerano, G., Brodie, E.D., III , Hibbett, D., Hoekstra, H. E., Mindell, D. P., Monteiro, A., Moritz, C., Orr, H. A., Petrov, D. A, Renner, S. S., Ricklefs, R. E., Soltis, P. S., Turner, T,L. 2013. Evolutionary biology for the 21st century. PLoS Biology 11(1): e1001466. doi:10.1371/journal.pbio.1001466. PDF

Nuhn, Mitchell E., M. Binder, A.F.S. Taylor, R.E. Halling and D.S. Hibbett. 2013. Phylogenetic overview of the Boletineae. Fungal Biology 117: 475-511. doi:10.1016/j.funbio.2013.04.008.PDF

Ortiz-Santana, B., Lindner, D. L., Miettinen, O., Justo, A. & Hibbett, D. S. A phylogenetic overview of the antrodia clade (Basidiomycota, Polyporales). Mycologia 105, 1391-1411, doi:10.3852/13-051 (2013). PDF

Ruiz-Dueñas, Francisco J., Taina Lundell, Dimitrios Floudas, Laszlo G. Nagy, José M. Barrasa, David S. Hibbett, and Angel T. Martínez. Lignin-degrading peroxidases in Polyporales: an evolutionary survey based on 10 sequenced genomes. Mycologia 105, 1428-1444, doi:10.3852/13-059 (2013). PDF

Taylor, J. W., and D. S. Hibbett. 2013. Toward sequence-based classification of fungal species. IMA Fungus 4: 33-34 (editorial) (2013)." PDF

Fernandez-Fueyo, E., Ruiz-Duenas, F. J., Ferreira P., Floudas, D., Hibbett, D., Canessa, P., Larrondo, L. F., James, T., Seelenfreund, D., Lobos, S., Polanco, R., Tello, M., Honda, Y., Watanabe, T., Watanabe, T., Ryu, J. S., Kubicek, C. P., Schmoll, M., Gaskell, J., Hammel, K. E., St. John, F., Vanden Wymelenberg, A., Sabat, G., BonDurant, S. S., Syed, K., Yadav, J., Doddapaneni, H., Subramanian, V., Lavín, J. L., Oguiza, J. A., Perez, G., Pisabarro, A. G., Ramirez, L., Santoyo, F., Master, E., Coutinho, P. M., Henrissat, B., Lombard, V., Magnuson, J. K., Kües, U., Hori, C., Igarashi, K., Samejima, M., Barry, K., Lapidus, A., Lindquist, E., Riley, R., Hoffmeister, D., Schwenk, D., Hadar, Y., Yarden, O., de Vries, r. P., Wiebenga, A., Stenlid, J., Eastwood, D., Grigoriev, I., Berka, R., Blanchette, R. A., Kersten, P., Martinez, A. T., Vicuna, R., Cullen, D. 2012. Comparative genomics of wood decay fungi Phanerochaete chrysosporium and Ceriporiopsis subvermispora provides insight into mechanisms of selective ligninolysis. Proc. Nat. Acad. Sci. USA. doi/10.1073/pnas.1119912109. PDF

Floudas, D., M. Binder, R, Riley, K. Barry, R. A. Blanchette, B. Henrissat, A. T. Martínez, R. Otillar, J. W. Spatafora, J. S. Yadav, A. Aerts, I. Benoit,, A. Boyd, A. Carlson, A. Copeland, P. M. Coutinho, R. P. de Vries,, P. Ferreira, K. Findley, B. Foster, J. Gaskell, D. Glotzer, P. Górecki, J. Heitman, C. Hesse, C. Hori, K. Igarashi, J. A. Jurgens, N. Kallen, P. Kersten, A. Kohler, U. Kües, T. K. A. Kumar, A. Kuo, K. LaButti, L. F. Larrondo, E. Lindquist, A. Ling, V. Lombard, S. Lucas, T. Lundell, R. Martin, D. J. McLaughlin, I. Morgenstern, E. Morin, C. Murat, M. Nolan, R. A. Ohm, A. Patyshakuliyeva, A. Rokas, F. J. Ruiz-Dueñas, G. Sabat, A. Salamov, M. Samejima, J. Schmutz, J. C. Slot, F. St. John, J. Stenlid, H. Sun, S. Sun, K. Syed, A. Tsang, A. Wiebenga, D. Young, A. Pisabarro, D. C. Eastwood, F. Martin, D. Cullen, I. V. Grigoriev, and D. S. Hibbett. 2012. The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes. Science 336: 1715-1719.PDF

Halling, R. H., M Nuhn,T. Osmundson, N. Fechner, J.M. Trappe, K. Soytong, D. Arora, D.S. Hibbett, M. Binder. 2012. Affinities of the Boletus chromapes group to Royoungia and the description of two new genera, Harrya and Australopilus. Australian systematic Botany 25: 418–431. PDF

Halling, R. H., M. Nuhn, N. A. Fechner, T. W. Osmundson, K. Soytong, D. S. Hibbett, and M. Binder. 2012. Sutorius: a new genus for Boletus eximius (Boletineae). Mycologia 104: 951-961.PDF

Morin, E., A. Kohler, A. Baker, M. Foulogne-Oriol, V. Lombard, L. G. Nagy, R. A Ohm, A. Patyshakuliyeva, A. Brun, A. L. Aerts, A. M. Bailey, C. Billette, P. M. Coutinho, G. Deakin, H. Doddapaneni, D. Floudas, J. Grimwood, K. Hildén, U. Kües, K. M. LaButti, S. Lapidus, E. A. Lindquist, S. M Lucas, T. Lundell, C. Murat, R. W. Riley, A. A. Salamov, J. Schmutz, V. Subramanian, H. A.B. Wosten, J. Xu, D. C. Eastwood, G. D. Foster, A. S.M. Sonnenberg, D. Cullen, R. P. de Vries, D. S. Hibbett, B. Henrissat, K. S. Burton, R. W Kerrigan, M. P Challen, I. V. Grigoriev, and F. Martin. 2012. The genome sequence of the Button Mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche. Proceedings of the National Academy of Science USA. PDF

Padamsee, M., T. K. A. Kumar, R. Riley, M. Binder, A. Boyd, A. M. Calvo, K. Furukawa, C. Hesse, S. Hohmann, T. Y. James, K. LaButti, A. Lapidus, E. Lindquist, S. Lucas, K. Miller, S. Shantappa, I. V. Grigoriev, D. S. Hibbett, D. J. McLaughlin, J. W. Spatafora, and M. C. Aime. 2012. The genome of the xerotolerant mold Wallemia sebi reveals adaptations to osmotic stress and suggests cryptic sexual reproduction. Fungal Genetics and Biology 49: 217-226. PDF

Wilson, A., M. Binder, and D. S. Hibbett. 2012. Diversity and evolution of ectomycorrhizal host associations in Sclerodermatineae (Boletales, Basidiomycota). New Phytologist 194(4): doi: 10.1111/j.1469-8137.2012.04109. PDF

Eastwood, D. C., D. Floudas, M. Binder, A. Majcherczyk, P. Schneider, A. Aerts, F. O. Asiegbu, S. E. Baker, K. Barry, M. Blumentritt, P. M. Coutinho, D. Cullen, R. P. De Vries, A. Gathman, B. Goodell, B. Henrissat, K. Ihrmark, H. Kauserud, A. Kohler, K. LaButti, A. Lapidus, J. L. Lavin, Y.-H. Lee, E. Lindquist, W. Lilly, S. Lucas, E. Morin, C. Murat, J. A. Oguiza, J. Park, A. G. Pisabarro, R. Riley, A. Rosling, A. Salamov, O. Schmidt, J. Schmutz, I. Skrede, J. Stenlid, A. Wiebenga, X. Xie, U. Kües, D. S. Hibbett, D. Hoffmeister, N. Högberg, F. Martin, I., V. Grigoriev, S. C. Watkinson. 2011. Evolution of plant cell wall degrading machinery underlies the functional diversity of forest fungi. Science 333: 762-765. PDF

Grigoriev, I. V., D. Cullen, S. B. Goodwin, D. Hibbett, T. W. Jeffries, C. P. Kubicek, C. Kuske, J. Magnuson, F. Martin, J. Spatafora, A. Tsang, and S. Baker. 2011. Fueling the future with fungal genomics. Mycology in press. PDF

Hawksworth DL, Crous PW, Redhead SA, Reynolds DR, Samson RA, Seifert KA, Taylor JW, Wingfield MJ, Abaci Ö, Aime C, Asan A, Bai F-Y, Beer ZWd, Begerow D, Berikten D, Boekhout T, Buchanan PK, Burgess T, Buzina W, Cai L, Cannon PF, Crane JL, Damm U, Daniel H-M, Diepeningen ADv, Druzhinina I, Dyer PS, Eberhardt U, Fell JW, Frisvad JC, Geiser DM, Geml J, Glienke C, Gräfenhan T, Groenewald JZ, Groenewald M, Gruyter Jd, Guého-Kellermann E, Guo L-D, Hibbett DS, Hong S-B, Hoog GSd, Houbraken J, Huhndorf SM, Hyde KD, Ismail A, Johnston PR, Kadaifciler DG, Kirk PM, Kõljalg U, Kurtzman CP, Lagneau P-E, Lévesque CA, Liu X, Lombard L, Meyer W, Miller A, Minter DW, Najafzadeh MJ, Norvell L, Ozerskaya SM, Öziç R, Pennycook SR, Peterson SW, Pettersson OV, Quaedvlieg W, Robert VA, Ruibal C, Schnürer J, Schroers H-J, Shivas R, Slippers B, Spierenburg H, Takashima M, Taşkın E, Thines M, Thrane U, Uztan AH, Raak Mv, Varga J, Vasco A, Verkley G, Videira SIR, Vries RPd, Weir BS, Yilmaz N, Yurkov A, Zhang N. 2011. The Amsterdam declaration on fungal nomenclature. IMA Fungus 2: 105-112. PDF

Hibbett, D. S., and D. Glotzer. 2011. Where are all the undocumented fungal species? A study of Mortierella demonstrates the need for sequence-based classification. New Phytologist 191: 592-596. PDF

Hibbett, D. S., A. Ohman, D. Glotzer, M. Nuhn, P. M. Kirk, and R. H. Nilsson. 2011. Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences. Fungal Biology Reviews 25: 38-47. PDF

Justo, A., Vizzini,A., Minnis,A.M, Menolli,Jr.N., Capelari,M., Rodriguez,O., Malysheva,E., Contu,M., Ghingnone,S., and D.S.Hibbett. 2011. Phylogeny of the Pluteaceae (Agaricales, Basidiomycota): taxonomy and character evolution. Fungal Biology 115: 1-20 PDF

Justo, A., and D. S. Hibbett. 2011. Phylogenetic classification of Trametes (Basidiomycota, Polyporales) based on a five-marker dataset. Taxon 60: 1567-1583. PDF

Martin, F., A. Cullen, D. Hibbett, A. Pisabarro, J.W. Spatafora, S. E. Baker, and I. Grigoriev. 2011. Sequencing the fungal tree of life. New Phytologist DOI: 10.1111/j.1469-8137.2011.03688.x PDF

Neves, M. A., M. Binder, R. Halling, D. S. Hibbett, and K. Soytong. 2012. The phylogeny of selected Phylloporus species, inferred from NUC-LSU and ITS sequences, and descriptions of new species from the Old World. Fungal Diversity DOI 10.1007/s13225-012-0154-0. PDF

Wilson, A., M. Binder, and D. S. Hibbett. 2011. Effects of fruiting body morphology on diversification rates in three independent clades of fungi estimated using binary state speciation and extinction analysis. Evolution doi:10.1111/j.1558-5646.2010.01214.x. PDF

Seitzman, B. H., A. Ouimette, R. L. Mixon, E. A. Hobbie, and D. S. Hibbett. 2011. Conservation of biotrophy in Hygrophoraceae inferred from combined stable isotope and phylogenetic analyses. Mycologia 103: 280-290. PDF

Binder, M., K.H.Larsson, P.B. Matheny, and D.S.Hibbett. 2010. Amylocorticiales ord. nov. and Jaapiales ord. nov.: Early diverging clades of Agaricomycetidae dominated by corticioid forms. Mycologia, 102: 865-880 PDF

Garcia-Sandoval, R., Z. Wang, M. Binder, and D. S. Hibbett. 2010. Molecular phylogenetics of the Gloeophyllales and relative ages of clades of Agaricomycotina producing a brown rot. Mycologia DOI: 10.3852/10-209. PDF

Justo, A., Morgenstern, I., Hallen-Adams, H.E., and D.S. Hibbett. 2010 Convergent evolution of sequestrate forms in Amanita under Mediterranean climate conditions. Mycologia 102(3): 2010. PDF

Morgenstern, I., D. Robertson, and D. Hibbett. 2010. Characterization of 3 mnp genes in Fomitiporia mediterranea and report of additional class II peroxidases in the Hymenochaetales. Applied and Environmental Microbiology 76: 6431-6440 .


Hibbett, D. S., and P. B. Matheny. 2009. Relative ages of ectomycorrhizal mushrooms and their plant hosts. BMC Biology 7:13

Hibbett,D.S., A.Ohman, and P.M.Kirk.2009. Fungal ecology catches fire. New Phytologist (Commentary) 184:279-282 PDF

Martinez, D., J. Challacombe, I. Morgenstern, D. Hibbett, M. Schmoll, C. P. Kubicek, P. Ferreira, F. J. Ruiz-Duenas, A. T. Martinez, P. Kersten, K. E. Hammel, A. Vanden Wymelenberg, J. Gaskell, E. Lindquist, G. Sabat, S. Splinter Bondurant, L. F. Larrondo, P. Canessa, R. Vicuna, J. Yadav, H. Doddapaneni, V. Subramanian, A. G. Pisabarro, J. L. Lavín, J. A. Oguiza, E. Master, B. Henrissat, P. M. Coutinho, P. Harris, J. K. Magnuson, S. Baker, K. Bruno, W. Kenealy, P. J. Hoegger, U. Kues, P. Ramiaiya, S. Lucas, A. Salamov, H. Shapiro, H. Tu, C. L. Chee, M. Misra, G. Xie, S. Teter, D. Yaver, T. James, M. Mokrejs, M. Popisek, I. Grigoriev, T. Brettin, D. Rokhsar, R. Berka and D. Cullen. 2009. Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion. Proceedings of the National Academy of Sciences, U.S.A. 106: 1954-1959. PDF

Matheny, P. B., M. C. Aime, N. L. Bougher, B. Buyck, D. E. Desjardin, E. Horak, B. R. Kropp, D. J. Lodge, J. M. Trappe, and D. S. Hibbett. 2009. Out of the paleotropics? Historical biogeographic patterns in the cosmopolitan ectomycorrhizal mushroom family Inocybaceae. Journal of Biogeography.

McLaughlin,D.J.,D.S.Hibbett, F.Lutzoni, J.Spatafora, and R.Vilgalys. 2009. The search for the fungal tree of life. Trends in Microbiology doi:10:1016/j.tim.2009.08.001 PDF

Nakasone, K.K.,D.S.Hibbett, and G.Goranova. 2009. Neocampanella, a new corticioid fungal genus, and a note on Dendrothele bispora. Botany(formerly Canadian Journal of Botany) 87:875-882. PDF

Staijch, J., M. L. Berbee, M. Blackwell, D.S.Hibbett, T.Y.James, J.Spatafora, and J.W.Taylor. 2009. The Fungi.Current Biology 19: R840-R845. PDF

Ge, Z.-W., Z. L. Yang, P. B. Matheny, and D. S. Hibbett. 2008. Flammulina species from China inferred by morphological data. Fungal Diversity 32:59-68. PDF

Morgenstern, I., S. Klopman, and D. S. Hibbett. 2008. Molecular evolution and diversity of lignin degrading heme peroxidases in the homobasidiomycetes. Journal of Molecular Evolution DOI 10.1007/s00239-008-9079-3. PDF

Hibbett, D. S. 2007. After the gold rush, or before the flood? Evolutionary morphology of mushroom-forming fungi (Agaricomycetes) in the early 21st century. Mycological Research 111: 1001-1018. PDF

Hibbett, D. S., M. Binder, J. F. Bischoff, M. Blackwell, P. F. Cannon, O. E. Eriksson, S. Huhndorf, T. James, P. M. Kirk, R. Lücking, T. Lumbsch, F. Lutzoni, P. B. Matheny, D. J. Mclaughlin, M. J. Powell, S. Redhead, C. L. Schoch, J. W. Spatafora, J. A. Stalpers, R. Vilgalys, M. C. Aime, A. Aptroot, R. Bauer, D. Begerow, G. L. Benny, L. A. Castlebury, P. W. Crous, Y.-C. Dai, W. Gams, D. M. Geiser, G. W. Griffith, C. Gueidan, D. L. Hawksworth, G. Hestmark, K. Hosaka, R. A. Humber, K. Hyde, J. E. Ironside, U. Kõljalg, C. P. Kurtzman, K.-H. Larsson, R. Lichtwardt, J. Longcore, J. Miądlikowska, A. Miller, J.-M. Moncalvo, S. Mozley-Standridge, F. Oberwinkler, E. Parmasto, V. Reeb, J. D. Rogers, C. Roux, L. Ryvarden, J. P. Sampaio, A. Schüßler, J. Sugiyama, R. G. Thorn, L. Tibell, W. A. Untereiner, C. Walker, Z. Wang, A. Weir, M. Weiß, M. M. White, K. Winka, Y.-J. Yao, N. Zhang. 2007. A higher-level phylogenetic classification of the Fungi. Mycological Research 111: 509-547. PDF

Kumar, A., Celio, G. C., Matheny, P. B., McLaughlin, D. J., Hibbett, D. S., and Manimohan, P. 2007. Phylogenetic relationships of Auriculoscypha based on ultrastructural and molecular studies. Mycological Research 111: 268-274. PDF

Louzan, R., Wilson, A. W., Binder, M., and D. S. Hibbett. 2007. Phylogenetic placement of Diplocystis wrightii in the Sclerodermatineae (Boletales) based on nuclear ribosomal large subunit DNA sequences. Mycoscience 48: 66-69. PDF

Slot, J. C., K. Hallstrom, P. B. Matheny, and D. S. Hibbett. 2007. Diversification of NRT2 and its fungal homologs. Molecular Biology and Evolution 24: 1731-1743. PDF

Slot, J. C., and D. S. Hibbett. 2007. Horizontal transfer of a nitrate assimilation gene cluster and ecological transitions in fungi: a phylogenetic study. PLoS One 10:e1097. PDF

Wilson, A. W., E. A. Hobbie, and D. S. Hibbett. 2007. The ectomycorrhizal status of Calostoma cinnabarinum determined using isotopic, molecular, and morphological methods. Canadian Journal of Botany 85: 385-393. PDF

Aime, M. C., P. B. Matheny, D. A. Henk, E. M. Frieders, R. H. Nilsson, D. J. McLaughlin, L. J. Szabo, and D. S. Hibbett. 2006. An overview of the higher-level classification of Pucciniomycotina based on  combined analyses of nuclear large and small subunit rDNA sequences. Mycologia 98: 896-905. PDF

Binder, M., D. S. Hibbett, Z. Wang, and W. Farnham. 2006. Evolutionary origins of Mycaureola dilseae, a basidiomycete pathogen of the subtidal red alga Dilsea carnosa. American Journal of Botany 93: 547-556. PDF

Binder, M., and D. S. Hibbett. 2006. Molecular systematics and biological diversification of Boletales. Mycologia 98: 971-981. PDF

Blackwell, M., D. S. Hibbett, J. W. Taylor, and J. W. Spatafora. 2006. Research coordination networks: a phylogeny for kingdom Fungi (Deep Hypha). Mycologia 98: 829-837. PDF

Blanco-Dios, J.B., Z. Wang, M. Binder, and D. S. Hibbett. 2006. A new Sparassis from Spain described using morphological and molecular data. Mycological Research 110: 1227-1231. PDF

Dai Y.C., Z. Wang, M. Binder, and D. S. Hibbett. 2006. Phylogeney and a new species of Sparassis (Polyporales, Basidiomycota): evidence from mitochondrial atp6, nuclear rDNA and rpb2 genes. Mycologia 98: 584-592. PDF

Hibbett, D. S. 2006. A Phylogenetic overview of the Agaricomycotina. Mycologia 98: 917-925. PDF

James, T. Y., F. Kauff, C. Schoch, P. B. Matheny, V. Hofstetter, C. Cox, G. Celio, C. Gueidan, E. Fraker, J. Miadlikowska, H. T. Lumbsch, A. Rauhut, V. Reeb, A. E. Arnold, A. Amtoft, J. E. Stajich, K. Hosaka, G.-H. Sung, D. Johnson, B. O'Rourke, M. Crockett, M. Binder, J. M. Curtis, J. C. Slot, Z. Wang, A. W. Wilson, A. Schüßler, J. E. Longcore, K. O'Donnell, S. Mozley-Standridge, D. Porter, P. M. Letcher, M. J. Powell, J. W. Taylor, M. M. White, G. W. Griffith, D. R. Davies, R. A. Humber, J. B. Morton, J. Sugiyama, A. Y. Rossman, J. D. Rogers, D. H. Pfister, D. Hewitt, K. Hansen, S. Hambleton, R. A. Shoemaker, J. Kohlmeyer, B. Volkmann-Kohlmeyer, R. A. Spotts, M. Serdani, P. W. Crous, K. W. Hughes, K. Matsuura, E. Langer, G. Langer, W. A. Untereiner, R. Lücking, B. Büdel, D. M. Geiser, A. Aptroot, P. Diederich, I. Schmitt, M. Schultz, R. Yahr, D. Hibbett, F Lutzoni, D. McLaughlin, J. Spatafora, and R. Vilgalys. 2006. Reconstructing the early evolution of the fungi using a six gene phylogeny. Nature 443: 818-822. PDF
Also see accompanying News and Views piece by Tom Bruns.

Matheny, P. B., J. M. Curtis, V. Hofstetter, M. C. Aime, J.-M. Moncalvo, Z. W. Ge, Z. L. Yang, J. C. Slot, J. F. Ammirati, T. J. Baroni, N. L. Bougher, K. W. Hughes, D. J. Lodge, R. W. Kerrigan, M. T. Seidl, D. K. Aanen, M. DeNitis, G. M. Daniele, D. E. Desjardin, B. R. Kropp, L. L. Norvell, A. Parker, E. C. Vellinga, R. Vilgalys. and D. S. Hibbett. 2006. Major clades of Agaricales: a multi-locus phylogenetic overview. Mycologia 98: 982-995. PDF

Matheny, P. B., J. A. Gossman, P. Zalar, T. K. Arun Kumar, and D. S. Hibbett. 2006. Resolving the phylogenetic position of the Wallemiomycetes: an enigmatic major lineage of Basidiomycota. Canadian Journal of Botany 84: 1794-1805. PDF

Matheny, P. B., Z. Wang, M. Binder, J. M. Curtis, Y. W. Lim, R. H. Nilsson, K. W. Hughes, V. Hofstetter, J. F. Ammirati, C. Schoch, G. E. Langer, D. J. McLaughlin, A. W. Wilson, T. Frøslev, Z. W. Ge, R. W. Kerrigan, J. C. Slot, E. C. Vellinga, Z. L. Liang, T. J. Baroni, M. Fischer, K. Hosaka, K. Matsuura, M. T. Seidl, J. Vaura, and D. S. Hibbett. 2007. Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi). Molecular Phylogenetics and Evolution 43: 430-451. PDF

Wang Z., M. Binder, C. L. Schoch, P. R. Johnston , J. W. Spatafora, and D. S. Hibbett. 2006. Evolution of helotialean fungi (Leotiomycetes, Pezizomycotian): a nuclear rDNA phylogeny. Molecular Phylogenetics and Evolution. PDF

Wang, Z., P. R. Johnston, S. Takamatsu, J. W. Spatafora, and D. S. Hibbett. 2006. Toward a phylogenetic classification of the Leotiomycetes based on rDNA data. Mycologia 98: 1065-1075. PDF

Binder, M., D. S. Hibbett*, K.-H. Larsson, E. Larsson, and E. Langer. 2005. The phylogenetic distribution of resupinate forms in the homobasidiomycetes. Systematics and Biodiversity 3: 113-157. PDF

Frøslev, T. G., P. B. Matheny, and D. S. Hibbett. 2005. Lower level relationships in the mushroom genus Cortinarius (Basidiomycota, Agaricales): a comparison of RPB1, RPB2 and ITS phylogenies. Molecular Phylogenetics and Evolution 37: 602-618. PDF

Hibbett, D. S., R. H. Nilsson, M. Snyder, M. Fonseca, J. Costanzo, and M. Shonfeld. 2005. Automated Phylogenetic Taxonomy: An Example in the Homobasidiomycetes (Mushroom-Forming Fungi). Systematic Biology 54: 660-668. PDF

Wang, Z., M. Binder, and D. S. Hibbett. 2005. Life history and systematics of the aquatic discomycete Mitrula (Helotiales, Ascomycota) based on cultural, morphological, and molecular studies. American Journal of Botany 92: 1565-1574. PDF

Yang, Z.-L., P. B. Matheny, Z. Ge, and D. S. Hibbett. 2005. New Asian species of the genus Anamika (euagarics, hebelomatoid clade) based on morphology and ribosomal DNA sequences. Mycological Research 109: 1259-1267. PDF

Bodensteiner, P., M. Binder, R. Agerer, J.-M. Moncalvo and D. S. Hibbett. 2004.
Phylogenetic relationships of cyphelloid homobasidiomycetes. Molecular Phylogenetics and Evolution 33: 501-515. PDF

Desjardin, D. E., Z. Wang, M. Binder, and D. S. Hibbett. 2004. Sparassis cystidiosa sp. nov. from Thailand is described using morphological and molecular data. Mycologia 96:1010-1014. PDF

Egger, K. N., and D. S. Hibbett. 2004. The evolutionary implications of reciprocal exploitation in mycorrhizas. Canadian Journal of Botany 82: 1110-1121. PDF

Hibbett, D. S. 2004. Trends in morphological evolution in homobasidiomycetes. Systematic Biology 53: 889-903. PDF

Lutzoni, F., F. Kauff, C. J. Cox, D. McLaughlin, G. Celio, B. Dentinger, M. Padamsee, D. Hibbett, T. Y. James, E. Baloch, M. Grube, V. Reeb, V. Hofstetter, C. Schoch, A. E. Arnold, J. Miadlikowska, J. Spatafora, D. Johnson, S.Hambleton, M. Crockett, R. Shoemaker, G.-H. Sung, R. Lücking, T. Lumbsch, K. O’Donnell, M. Binder, P. Diederich, D. Ertz, C. Gueidan, K. Hansen, R. C. Harris, K. Hosaka, Y.-W. Lim, B. Matheny, H. Nishida, D. Pfister, J. Rogers, A. Rossman, I. Schmitt, H. Sipman, J. Stone, J. Sugiyama, R. Yahr, R. Vilgalys. 2004. Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits. American Journal of Botany 91: 1446-1480. PDF

Wang, Z., M. Binder, Y.-C. Dai, and D. S. Hibbett. 2004. Phylogenetic relationships of Sparassis inferred from nuclear and mitochondrial ribosomal DNA and a protein-coding gene (rpb2). Mycologia 96:1013-1027. PDF

Hibbett, D. S., M. Binder, Z. Wang, and Y. Goldman. 2003. Another fossil agaric from Dominican amber. Mycologia. 95: 685-687. PDF

Redberg, G. L., R. Rodriguez, J. Ammirati, and D. S. Hibbett. 2003. Phylogenetic relationships of Bridgeoporus nobilissimus inferred from rDNA sequences. Mycologia 95: 836-845. PDF

Binder, M., and D. S. Hibbett. 2002. Higher-level phylogenetic relationships of homobasidiomycetes (mushroom-forming fungi) inferred from four rDNA regions. Molecular Phylogenetics and Evolution 22: 76-90. PDF

Hibbett, D. S., and M. Binder. 2002. Evolution of complex fruiting body morphologies in homobasidiomycetes. Proceedings of the Royal Society of London Series B. 269: 1963-1969. PDF

Wang., Z., M. Binder, and D. S. Hibbett. 2002. A new species of Cudonia based on morphological and molecular data. Mycologia 94: 641-650. PDF

Binder, M., and D. S. Hibbett. 2001. Phylogenetic relationships of the marine gasteromycete Nia vibrissa. Mycologia 93: 679-688.

Hibbett, D. S. 2001. Shiitake mushrooms and molecular clocks: historical biogeography of Lentinula. Journal of Biogeography 28: 231-241. PDF

Hibbett, D. S., and M. J. Donoghue. 2001. Analysis of correlations among wood decay mechanisms, mating systems, and substrate ranges in homobasidiomycetes. Systematic Biology 50: 215-242. PDF

Hibbett, D. S. and M. Binder. 2001. Evolution of marine mushrooms. Biological Bulletin 201: 319-322. PDF

Hibbett, D.S. and R.G. Thorn. 2001. Basidiomycota: Homobasidiomycetes. The Mycota VII Part B. Systematics and Evolution. McLaughlin/McLaughlin/Lemke (Eds.) Springer-Verlage, Berlin Heidelberg. PDF

Wu, S.-H., D. S. Hibbett, and M. Binder. 2001. Phylogenetic relationships of Aleurodiscus sensu lato and related genera. Mycologia 93: 720-731.

Hibbett, D. S., Luz-Beatriz Gilbert, and Michael J. Donoghue. 2000. Evolutionary instability of ectomycorrhizal symbioses in basidiomycetes. Nature 407: 506-508. PDF

Hughey, B. D., G. C. Adams, T. D. Bruns, and D. S. Hibbett. 2000. Phylogeny of Calostoma, the gelatinous stalked puffball, based on nuclear and mitochondrial ribosomal DNA sequences. Mycologia 92: 94-104.

Taylor J. W., D. J. Jacobson, S. Kroken, T. Kasuga, D. M. Geiser, D. S. Hibbett, and M. C. Fisher. 2000. Phylogenetic species recognition and species concepts in fungi. Fungal Genetics and Biology 31: 21-32. PDF

Hansen, K., D. S. Hibbett, and D. H. Pfister. 1999. Phylogenetic relationships of Phillipsia inferred from ribosomal DNA intergenic transcribed spacer sequences. Mycologia 91: 299-314.

Pine, E. M., D. S. Hibbett, and M. J. Donoghue. 1999. Evolutionary relationships of cantharelloid and clavarioid fungi. Mycologia 91: 944-963.

Hibbett, D. S., and M. J. Donoghue. 1998. Integrating phylogenetic analysis and classification in fungi. Mycologia 90:347-356. PDF

Hibbett, D. S., K. Hansen, and M. J. Donoghue. 1998. Phylogeny and biogeography of Lentinula inferred from an expanded rDNA dataset. Mycological Research 102: 1041-1049. PDF

Hibbett, D. S., D. Grimaldi, and M. J. Donoghue. 1997. Fossil mushrooms from Cretaceous and Miocene ambers and the evolution of homobasidiomycetes. American Journal of Botany 84: 981-991. PDF

Hibbett, D. S., M. J. Donoghue, and P. B. Tomlinson. 1997. Is Phellinites digiustoi the oldest homobasidiomycete? American Journal of Botany 84: 1005-1011. PDF

Hibbett, D. S., E. M. Pine, E. Langer, G. Langer, and M. J. Donoghue. 1997. Evolution of gilled mushrooms and puffballs inferred from ribosomal DNA sequences. Proceedings of the National Academy of Sciences, U.S.A. 94: 12002-12006. PDF

Hibbett, D. S. 1996. Phylogenetic evidence for horizontal transmission of Group 1 introns in the nuclear ribosomal DNA of mushroom-forming fungi. Molecular Biology and Evolution 13: 903-917. PDF

Hibbett, D. S., and M. J. Donoghue. 1996. Implications of phylogenetic studies for conservation of genetic diversity in shiitake mushrooms. Conservation Biology 10: 1321-1327. PDF

Hibbett, D. S., D. Grimaldi, and M. J. Donoghue. 1995. Cretaceous mushrooms in amber. Nature 377: 487.

Hibbett, D. S., and M. J. Donoghue. 1995. Progress toward a phylogenetic classification of the Polyporaceae through parsimony analyses of ribosomal DNA sequences. Canadian Journal of Botany 73(Suppl. 1): S853-S861.

Hibbett, D. S., A. Tsuneda, Y. Fukumasa-Nakai, and M. J. Donoghue. 1995. Phylogenetic diversity in shiitake inferred from nuclear ribosomal DNA sequences. Mycologia 87: 618-638. PDF

Fukuda, M. Y. Nakai, D. S. Hibbett, T. Matsumoto, and Y. Hayashi. 1994. Mitochondrial DNA restriction fragment length polymorphisms in natural populations of Lentinula edodes. Mycological Research 98: 169-175.

Hibbett, D. S., A. Tsuneda, and S. Murakami. 1994. The secotioid form of Lentinus tigrinus: genetics and development of a fungal morphological innovation. American Journal of Botany 81: 466-478. PDF

Hibbett, D. S., A. Tsuneda, and S. Murakami. 1994. Post-meiotic nuclear behavior in Lentinus, Panus, and Neolentinus. Mycologia 86: 725-732. PDF

Hibbett, D. S., and R. G. Thorn. 1994. Nematode-trapping in Pleurotus tuberregium. Mycologia 86: 696-699. PDF

Hibbett, D. S., A. Tsuneda, Y. Fukumasa-Nakai, and M. J. Donoghue. 1995. Phylogenetic diversity in shiitake inferred from nuclear ribosomal DNA sequences. Mycologia 87: 618-638.

Vilgalys, R., J. S. Hopple, and D. S. Hibbett. 1994. Phylogenetic implications of generic concepts in fungi: the impact of molecular systematic studies. Mycologia Helvetica 6: 73-91.

Hibbett, D. S., S. Murakami, and A. Tsuneda. 1993. Hymenophore development and evolution in Lentinus. Mycologia 85: 428-443. PDF

Hibbett, D. S., S. Murakami, and A. Tsuneda. 1993. Sporocarp ontogeny in Panus: evolution and classification. American Journal of Botany 80: 1336-1348. PDF

Hibbett, D. S., and R. Vilgalys. 1993. Phylogenetic relationships of Lentinus (Basidiomycotina) inferred from molecular and morphological characters. Systematic Botany 18: 409-433. PDF

Bruns, T. D., R. Vilgalys, S. M. Barnes, D. Gonzalez, D. S. Hibbett, D. J. Lane, L. Simon, S. Stickel, T. M. Szaro, W. G. Weisburg, and M. L. Sogin. 1992. Evolutionary relationships within the fungi: analyses of nuclear small subunit rRNA sequences. Molecular Phylogenetics and Evolution 1: 231-241.

Hibbett, D. S. 1992. Ribosomal RNA and fungal systematics. Transactions of the Mycological Society of Japan 33: 533-556.

Hibbett, D. S., and R. Vilgalys. 1991. Evolutionary relationships of Lentinus to the Polyporaceae: evidence from restriction analysis of enzymatically amplified ribosomal DNA. Mycologia 83: 425-439. PDF