R. Vilgalys LAB Department of Biology Duke University Durham, NC 27708, USA Lab Phone : (919)660-7362

DUKE  MYCOLOGY

Current Lab Personnel

• Jessie Uehling, UPGG grad student, fungal systematics, tropical mycology (photo)
• Connie Roberts, herbarium manager (photo)
• Gwendolyn Williams, grad student, mycorrhizal succession (photo)
• Dr. Gregory Bonito, postdoc, truffle ecology and systematics, mycorrhizal ecology (photo)
• Dr. Soledad Benitez Ponce, postdoc (Ph.D, 2008, Plant Pathology, The Ohio State University), NSF Pathogen mediated diversity and response to climate change ( with Jim Clark, Nicholas School of Environment).
• Dr. Andrii Grygansky postdoc, visiting scientist from Univ. Kiev, Entomophthoralean systematics (photo)
• Dr. Sunny Liao, postdoc, NSF Dimensions of Biodiverisity (photo)
• Dr. Rytas Vilgalys, Professor of Biology. Systematics, population biology and natural history of fungi. (photo) 
• Dr. Khalid Hameed, Research Scientist, plant pathology, mycology, incl applied mycology (photo)
• Dr. Dennis Drehmel, adjunct professor, Fungal TWIG coordinator (Discover Life in America program).   Molecular systematics of Amanitaceae and Boletaceae. (photo) 
  
  Former Lab Personnel
  
• Dr. Marianela Rodriguez-Carres, joint postdoc with Marc Cubeta (NCStateUniv), Rhizoctonia systematics, phylogenomics. (photo)
• Dr. Hannah Reynolds, Ph.D. 2011, Phylogeography of the Elaphomycetaceae, currently: postdoc at Ohio Univ., Phylogeography of Elaphomyces (photo),
• Dr. Matthew E. Smith, postdoc, NSF Fungi of the Guyana Shield, current: Assistant Professor, Univ. Florida, molecular ecology and systematics (photo)
• Dr. Brantlee Spakes Richter, Instructor, Univ. Florida, Forest pathology and global change (photo)
• Dr. Terri Porter, postdoc, NSF AFTOL, Chytrid molecular evolution, Phylogenomics (photo)current: Canadian Barcode Consortium, McMaster University (photo)
• Dr. Jason Jackson, Research Scientist, US Forest Service, soil microbial ecology (photo) 
• Dr. Michelle Hersh, currently Postdoctoral Fellow, Cary Institute, NY, host-pathogen ecology (photo)
• Dr. Heath O'Brien is now a postdoc at the University of Toronto, Cyanolichen evolution, fungal environmental genomics (photo)
• Dr. Stephanie Diezmann is now a postdoc at the University of Toronto, yeast evolutionary genetics (photo)
• Dr. Timothy James, Assistant Professor, University of Michigan. Population genetics and mating type evolution in fungi.  (photo) 
• Dr. Jeri Parrent, is currently at University of Guelph.  Molecular ecology of mycorrhizal fungi. (photo) 
• Dr. "JP" Xu is an associate professor at McMaster University.
• Dr. Becky Yahr is at the Royal Botanical Gardens, Edinburgh, Scotland.  Systematics and population biology of lichenized fungi. (photo)
• Dr. Annette Golonka is an assistant professor at theUniv. South Carolina at Lancaster.   Ph.D.: Ecological genetics of nectar-inhabiting microorganisms.
• Dr. Ana Litvintseva is an assistant research professor in the Dept. of  Molecular Genetics and Microbiology, Duke University Medical Center
• Dr. Valerie Hofstetter is currently working at the Paris Museum. Molecular systematics of the Lyophylleae.  (photo)
• Dr. Daniel Henk, is a postdoc at Imperial College, London.  Molecular systematics and ecology of Septobasidium.  (photo)
• Dr. Austen Piwakawaka Ganley is an assistant professor at Massey University, New Zealand.  Concerted evolution of ribosomal DNA in fungi. (photo) 
• Jason Thacker, M.S. molecular evolution of laccase genes, systematics, computer programming (photo) 
• Dr. Terry Henkel is an associate professor at the Univ. of California at Humboldt.   Biodiversity of tropical fungi including ecology and systematics (photo) 
• Dr. Bob Marra is an assistant agricultural scientist at the Connecticut Agricultural Experiment Station, New Haven CT (photo) 
• Dr. Jean-Marc Moncalvo is associate curator the Royal Ontario Museum in Toronto.  Phylogenetic diversity of the Agaricales, also Ganoderma.  (photo) 
• Dr. Anne Pringle is an assistant professor at Harvard University
• Dr. James L. Johnson is an assistant professor at University of Central Washington, Ellensburg
• Dr. David S. Hibbett is a professor at Clark University
• Dr. Francois Lutzoni is a professor at Duke University
• Dr. Joseph Spatafora is a professor at Oregon State University
• Dr. Dolores Gonzales is at the Instituto deEcologia, Xalapa, Vera Cruz, Mexico
• Dr. Jacqui Johnson is an instructor in the Biology Dept at Fordham University
• Dr. Peggy Schultz is a research scientist the Biology Dept., Indiana Univ.
• Dr. John Hopple is an assistant professor at the Biology department at Ithaca College
• Dr. Wendy Untereiner is a professor at Brandon University, Manitoba, Canada
• if you're not on this list, we're still working on it....
• Lab group photos from recent years... 

Recent publications (Vilgalys lab)

• Ceresini, P. C., Shew, H. D., Vilgalys, R. J. and Cubeta, M. A. (2002). Genetic diversity of Rhizoctonia solani AG-3 from potato and tobacco in North Carolina. Mycologia 94, 437-449. download pdf file
• Ceresini, P. C., Shew, H. D., Vilgalys, R. J., Rosewich, U. L. and Cubeta, M. A. (2002). Genetic structure of populations of Rhizoctonia solani AG-3 on potato in eastern North Carolina. Mycologia 94, 450-460. download pdf file
• Ceresini, P. C., Shew, H. D., Vilgalys, R. J., Gale, L. R. and Cubeta, M. A. (2003). Detecting migrants in populations of Rhizoctonia solani anastomosis group 3 from potato in North Carolina using multilocus genotype probabilities. Phytopathology 93, 610-615. download pdf file
• Davis, E. C., Franklin, J. B., Shaw, A. J. and Vilgalys, R. (2003). Endophytic Xylaria (Xylariaceae) among liverworts and angiosperms: Phylogenetics, distribution, and symbiosis. American Journal of Botany 90, 1661-1667.download pdf file
• Dolan, R.W, E.S. Menges, and R.Yahr. 2004. Genetic variation in Nolina brittoniana, a plant endemic to the central ridges of Florida. Southeastern Naturalist 3(1):25-36.
• Drehmel, D., J.-M.  Moncalvo, and R.  Vilgalys.  1999.  Molecular phylogeny of Amanitabased on large subunit ribosomal DNA sequences: implications for taxonomy and character evolution. Mycologia 91:610-618.
• Forche, A., G. Schönian, R. Vilgalys, Y. Gräser, and T.G. Mitchell.  1999.  Genetic structure of typical and atypical populations of Candida albicans from Africa.  Fungal Genetics and Biology 28:107-125.  download pdf file
• Forche, A. , J. Xu, R. Vilgalys, and T. G. Mitchell.  2001.  Development and characterization of a genetic linkage map of Cryptococcus neoformans var. neoformans using amplified fragment length polymorphisms and other markers. Fungal Genetics and Biology31:189-203.   download pdf file
• Frey, S.D., Knorr, M., Parrent, J.L., and R.T. Simpson. 2004. Chronic nitrogen enrichment affects the structure and function of the soil microbial community in temperate hardwood and pine forests Forest Ecology and Management 196: 159-171. download pdf file
• Gonzalez, D., Carling, D. E., Kuninaga, S., Vilgalys, R. and Cubeta, M. A. (2001). Ribosomal DNA systematics of Ceratobasidium and Thanatephorus with Rhizoctonia anamorphs. Mycologia 93, 1138-1150.
• Gräser, Y., M. El Fari, R. Vilgalys, A.F.A. Kuijpers, G.S. De Hoog, W. Presber, and H.-J. Tietz. 1999.  Phylogeny and taxonomy of the family Arthrodermataceae (dermatophytes) using sequence analysis of the ribosomal ITS region.  Medical Mycology 37:105-114.
• Henkel, T. W., Terborgh, J. and Vilgalys, R. J. (2002). Ectomycorrhizal fungi and their leguminous hosts in the Pakaraima Mountains of Guyana. Mycological Research 106, 515-531. download pdf file
• Hofstetter, V., Clemencon, H., Vilgalys, R. and Moncalvo, J. M. (2002). Phylogenetic analyses of the Lyophylleae (Agaricales, Basidiomycota) based on nuclear and mitochondrial rDNA sequences. Mycological Research 106, 1043-1059. download pdf file
• Hopple, J., and R. Vilgalys.  (1999).  Phylogenetic relationships in the mushroom genus Coprinus and dark-spored allies based on sequence data from the nuclear gene coding for the large ribosomal subunit RNA: divergent domains, outgroups and monophyly.  Molecular Phylogenetic and Evolution 13:1-19.   download pdf file
• Hughes, K.W., Petersen, R.H., Johnson, J.E., Moncalvo, J.-M., Vilgalys, R., Redhead, S., Thomas, T., and McGhee, L.L.  2000.  Infrageneric phylogeny of Collybiass. str. based on sequences of ribosomal ITS and LSU regions.  Mycological Research 105: 164-172.
• Isikhuemen, O., J.-M.  Moncalvo, F. Nerud, and R.  Vilgalys.  2000.  Mating compatibility and phylogeography in Pleurotus tuberregium(Fr.) Sing.  Mycological Research 104:732-737. download pdf file
• James, T.Y., D.  Porter, J.  L.  Hamrick, and R.  Vilgalys.  1999.  Evidence for restricted intercontinental gene flow in the cosmopolitan mushroom, Schizophyllum commune.Evolution 53:1665-1677. download pdf file
• James, T.Y., D. Porter, C.A. Leander, R. Vilgalys, and J.E. Longcore.  2000.  Molecular phylogenetics of the Chytridiomycota supports the utility of ultrastructural data in chytrid systematics.  Can. J. Bot. 78: 336-350.  download as pdf file
• James, T. Y., and R. Vilgalys. 2001. Abundance and diversity of Schizophyllum commune spore clouds in the Caribbean detected by selective sampling.  Molecular Ecology 10: 471-479. download pdf file
• James, T. Y., J.-M. Moncalvo, S. Li and R. Vilgalys. 2001. Polymorphism at the ribosomal DNA spacers and its relation to breeding structure of the widespread mushroom Schizophyllum commune.  Genetics 157:149-161. Download pdf file
• James, T. Y., Kues, U., Rehner, S. A. and Vilgalys, R. (2004). Evolution of the gene encoding mitochondrial intermediate peptidase and its cosegregation with the A mating-type locus of mushroom fungi. Fungal Genetics and Biology 41, 381-390. download pdf file
• James, T. Y., Liou, S. R. and Vilgalys, R. (2004). The genetic structure and diversity of the A and B mating-type genes from the tropical oyster mushroom, Pleurotus djamor. Fungal Genetics and Biology 41, 813-825.download pdf file
• Kues, U., James, T. Y., Vilgalys, R. and Challen, M. P. (2001). The chromosomal region containing pab-1, mip, and the A mating type locus of the secondarily homothallic homobasidiomycete Johnson, J., and R. Vilgalys.1998.  Phylogenetic systematics of Lepiotasensu lato based on nuclear large subunit rDNA evidence.  Mycologia 90:971-979.
• Kües, U., T. Y. James, R. Vilgalys, and M. P. Challen.  2001.  The chromosomal region containing pab-1, mip, and the A mating locus of the secondarily homothallic homobasidiomycete Coprinus bilanatus.  Curr. Genet. 39: 16-24.
Download pdf file
• Litvintseva, A. P., Marra, R. E., Nielsen, K., Heitman, J., Vilgalys, R. and Mitchell, T. G. (2003). Evidence of sexual recombination among Cryptococcus neoformans serotype A isolates in sub-Saharan Africa. Eukaryotic Cell 2, 1162-1168. download pdf file
• Marra, R. E., Huang, J. C., Fung, E., Nielsen, K., Heitman, J., Vilgalys, R. and Mitchell, T. G. (2004). A genetic linkage map of Cryptococcus neoformans variety neoformans serotype D (Filobasidiella neoformans). Genetics 167, 619-631. download pdf file
• Menges, E.S, R.W. Dolan, R.Yahr, D.R. Gordon. 2001. Comparative genetics of seven plants endemic to Florida's Lake Wales Ridge. Castanea 66: 98-114.
• Moncalvo, J.-M., D. Drehmel, and R. Vilgalys.  2000.  Variation in modes and rates of evolution in nuclear and mitochondrial ribosomal DNA in the mushroom genus Amanita(Agaricales, Basidiomycota): phylogenetic implications.  Molecular Phylogenetics and Evolution 16:48-63. download as pdf file
• Moncalvo, J.-M., F.M. Lutzoni, S.A. Rehner, J. Johnson, and R. Vilgalys.  2000.  Phylogenetic relationships of agaric fungi based on nuclear large subunit ribosomal DNA sequences.  Systematic Biology 49:278-305. download as pdf file
• Moncalvo, J. M., Vilgalys, R., Redhead, S. A., Johnson, J. E., James, T. Y., Aime, M. C., Hofstetter, V., Verduin, S. J. W., Larsson, E., Baroni, T. J., Thorn, R. G., Jacobsson, S., Clemencon, H. and Miller, O. K., Jr. (2002). One hundred and seventeen clades of euagarics. Molecular Phylogenetics and Evolution 23, 357-400. download pdf file
• Morehouse, E. A., James, T. Y., Ganley, A. R. D., Vilgalys, R., Berger, L., Murphy, P. J. and Longcore, J. E. (2003). Multilocus sequence typing suggests the chytrid pathogen of amphibians is a recently emerged clone. Molecular Ecology 12, 395-403. download pdf file
• Mueller, G. M., Wu, Q. X., Huang, Y. Q., Guo, S. Y., Aldana, G. R. and Vilgalys, R. (2001). Assessing biogeographic relationships between North American and Chinese macrofungi. Journal of Biogeography. 28, 271-281. download pdf file
• Parrent, J.L., Garbelotto, M., and G.S. Gilbert. 2004. Population genetic structure of the polypore fungus Datronia caperata in fragmented mangrove forests. Mycological Research 108: 403-410. download pdf file
• Peintner, U., Bougher, N. L., Castellano, M. A., Moncalvo, J. M., Moser, M. M., Trappe, J. M. and Vilgalys, R. (2001). Multiple origins of sequestrate fungi related to Cortinarius (Cortinariaceae). American Journal of Botany 88, 2168-2179. downlad pdf file
• Peintner, U., Horak, E., Moser, M. and Vilgalys, R. (2002). Rozites, Cuphocybe and Rapacea are taxonomic synonyms of Cortinarius: New combinations and new names. Mycotaxon 83, 447-451.
• Peintner, U., Bougher, N. L., Castellano, M. A., Moncalvo, J. M., Moser, M. M., Trappe, J. M. and Vilgalys, R. (2001). Multiple origins of sequestrate fungi related to Cortinarius (Cortinariaceae). American Journal of Botany 88, 2168-2179.
• Peintner, U., Horak, E., Moser, M. and Vilgalys, R. (2002). Rozites, Cuphocybe and Rapacea are taxonomic synonyms of Cortinarius: New combinations and new names. Mycotaxon 83, 447-451.
• Peintner, U., Horak, E., Moser, M. M. and Vilgalys, R. (2002). Phylogeny of Rozites, Cuphocybe and Rapacea inferred from ITS and LSU rDNA sequences. Mycologia 94, 620-629.
• Peintner, U., Moser, M. and Vilgalys, R. (2002). Thaxterogaster is a taxonomic synonym of Cortinarius: New combinations and new names. Mycotaxon 81, 177-184.
• Pringle, A., J.-M. Moncalvo, and R. Vilgalys.  2000. High levels of variation in ribosomal DNA sequences within and among spores of a natural population of the arbuscular mycorrhizal fungus Acaulospora colossica.Mycologia. 92:259-268. (not available as pdf)
• Pringle, A., Moncalvo, J. M. and Vilgalys, R. (2003). Revisiting the rDNA sequence diversity of a natural population of the arbuscular mycorrhizal fungus Acaulospora colossica. Mycorrhiza 13, 227-231. download pdf file
• Redhead, S.A., K.A. Seifert, R. Vilgalys and J.-M. Moncalvo. 2000. Rhacophyllus and Zerovaemyces -- teleomorphs or anamorphs?  Taxon 49: 789-798.
• Redhead, S.A., R. Vilgalys, J.-M. Moncalvo, J. Johnson, and J.S. Hopple, Jr.  2000.  CoprinusPersoon and the disposition of Coprinus species sensu lato.  Taxon 50:203-241.
• Redhead, S. A., Lutzoni, F., Moncalvo, J. M. and Vilgalys, R. (2002). Phylogeny of agarics: Partial systematics solutions for core omphalinoid genera in the Agaricales (euagarics). Mycotaxon 83, 19-57.
• Redhead, S. A., Moncalvo, J. M., Vilgalys, R. and Lutzoni, F. (2002). Phylogeny of agarics: Partial systematics solutions for bryophilous omphalinoid agarics outside of the Agaricales (euagarics). Mycotaxon 82, 151-168.
• Schönian, G., Forche, A., Tietz, H. J., Muller, M., Graser, Y., Vilgalys, R., Mitchell, T. G. and Presber, W. (2000). Genetic structure of geographically different populations of Candida albicans. Mycoses 43, 51-56.
• Thorn, R.G., J.-M.  Moncalvo, C. A. Reddy, and R. Vilgalys.  2000.  Phylogenetic analyses and the distribution of nematophagy support a monophyletic Pleurotaceae within the polyphyletic pleurotoid-lentinoid fungi.  Mycologia 92:241-252. (not available as pdf)
• Walker, J.F., and J.L. Parrent. 2004. Molecular phylogenetic evidence for the mycorrhizal status of Tremellodendron (Sebacinaceae). Memoirs of the New York Botanical Garden 89: 291-296.
• Xu, J., R. Vilgalys, and T.G. Mitchell.  1999.  Lack of genetic differentiation between two geographic samples of Candida albicans isolated from patients infected with HIV.  Journal of Bacteriology 181:1369-1373. download pdf file
• Xu, J., R.Y. Ali, D.A. Gregory, D. Amick, S.E. Lambert, H.J. Yoell, R.J. Vilgalys, and T.G. Mitchell.  2000.  Uniparental mitochondrial transmission in sexual crosses in Cryptococcus neoformans. Current Microbiology 40:269-273.    download pdf file
• Xu, J., T.G. Mitchell, and R. Vilgalys.  1999.  PCR-restriction fragment length polymorphism (RFLP) analyses reveal both extensive clonality and local genetic differentiation in Candida albicans. Molecular Ecology 8:59-73.      download pdf file
• Xu, J. P., Vilgalys, R. and Mitchell, T. G. (2000). Multiple gene genealogies reveal recent dispersion and hybridization in the human pathogenic fungus Cryptococcus neoformans. Molecular Ecology 9, 1471-1481. download pdf file
• Xu, J., A.R. Ramos, R. Vilgalys, and T.D. Mitchell.  2000.  Clonal and spontaneous origins of fluconazole resistance in Candida albicans. Journal of Clinical Microbiology 38: 1214-1220.    download pdf file
• Xu, J., R. Vilgalys, and T.D. Mitchell.  2000.  Multiple gene genealogies reveal recent dispersion and hybridization in the human pathogenic fungus Cryptococcus neoformans.  Molecular Ecology 9:1471-1481. download pdf file
• Xu, J., Luo, G., Vilgalys, R. J., Brandt, M. E. and Mitchell, T. G. (2002). Multiple origins of hybrid strains of Cryptococcus neoformans with serotype AD. Microbiology 148, 203-212.
• Xu, J. P., Onyewu, C., Yoell, H. J., Ali, R. Y., Vilgalys, R. J. and Mitchell, T. G. (2001). Dynamic and heterogeneous mutations to fluconazole resistance in Cryptococcus neoformans. Antimicrobial Agents and Chemotherapy 45, 420-427. download pdf
• Vilgalys, R. (2003). Taxonomic misidentification in public DNA databases. New Phytologist 160, 4-5. download pdf
  Yahr, R., R. J. Vilgalys, and P.T. DePriest. In press. Strong symbiont specificity and selectivity in Florida scrub lichens. Molecular Ecology.
• Yahr, R. and P.T. DePriest. In press. Ecology, life-history, and conservation of the endangered lichen Cladonia perforata. Book chapter for “Plant Conservation: A Natural History Approach”, eds. Krupnick, G, and J. Kress.
• Zervakis, G. I., Moncalvo, J. M. and Vilgalys, R. (2004). Molecular phylogeny, biogeography and speciation of the mushroom species Pleurotus cystidiosus and allied taxa. Microbiology-Sgm 150, 715-726. download pdf