Publications of Rytas J Vilgalys     :recent first  combined  bibtex listing:

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Papers Published

  1. AE Arnold, DA Henk, RL Eells, F Lutzoni, R Vilgalys, Diversity and phylogenetic affinities of foliar fungal endophytes in loblolly pine inferred by culturing and environmental PCR., Mycologia, United States, vol. 99 no. 2 , pp. 185-206  [abs].
  2. PB Matheny, JM Curtis, V Hofstetter, MC Aime, JM Moncalvo, ZW Ge, JC Slot, JF Ammirati, TJ Baroni, NL Bougher, KW Hughes, DJ Lodge, RW Kerrigan, MT Seidl, DK Aanen, M DeNitis, GM Daniele, DE Desjardin, BR Kropp, LL Norvell, A Parker, EC Vellinga, R Vilgalys, DS Hibbett, Major clades of Agaricales: a multilocus phylogenetic overview., Mycologia, United States, vol. 98 no. 6 , pp. 982-95  [abs].
  3. JM Moncalvo, RH Nilsson, B Koster, SM Dunham, T Bernauer, PB Matheny, TM Porter, S Margaritescu, M Weiss, S Garnica, E Danell, G Langer, E Langer, E Larsson, KH Larsson, R Vilgalys, The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods., Mycologia, United States, vol. 98 no. 6 , pp. 937-48  [abs].
  4. TY James, PM Letcher, JE Longcore, SE Mozley-Standridge, D Porter, MJ Powell, GW Griffith, R Vilgalys, A molecular phylogeny of the flagellated fungi (Chytridiomycota) and description of a new phylum (Blastocladiomycota)., Mycologia, United States, vol. 98 no. 6 , pp. 860-71  [abs].
  5. AE Arnold, DA Henk, RL Eells, F Lutzoni, R Vilgalys, Diversity and phylogenetic affinities of foliar fungal endophytes in loblolly pine inferred by culturing and environmental PCR., Mycologia, United States, vol. 99 no. 2 , pp. 185-206  [abs].
  6. PB Matheny, JM Curtis, V Hofstetter, MC Aime, JM Moncalvo, ZW Ge, JC Slot, JF Ammirati, TJ Baroni, NL Bougher, KW Hughes, DJ Lodge, RW Kerrigan, MT Seidl, DK Aanen, M DeNitis, GM Daniele, DE Desjardin, BR Kropp, LL Norvell, A Parker, EC Vellinga, R Vilgalys, DS Hibbett, Major clades of Agaricales: a multilocus phylogenetic overview., Mycologia, United States, vol. 98 no. 6 , pp. 982-95  [abs].
  7. JM Moncalvo, RH Nilsson, B Koster, SM Dunham, T Bernauer, PB Matheny, TM Porter, S Margaritescu, M Weiss, S Garnica, E Danell, G Langer, E Langer, E Larsson, KH Larsson, R Vilgalys, The cantharelloid clade: dealing with incongruent gene trees and phylogenetic reconstruction methods., Mycologia, United States, vol. 98 no. 6 , pp. 937-48  [abs].
  8. TY James, PM Letcher, JE Longcore, SE Mozley-Standridge, D Porter, MJ Powell, GW Griffith, R Vilgalys, A molecular phylogeny of the flagellated fungi (Chytridiomycota) and description of a new phylum (Blastocladiomycota)., Mycologia, United States, vol. 98 no. 6 , pp. 860-71  [abs].
  9. G Schönian, A Forche, HJ Tietz, M Müller, Y Gräser, R Vilgalys, TG Mitchell, W Presber, [Genetic structure of geographically different populations of candida albicans], Mycoses, Germany, vol. 43 Suppl 2 (2000), pp. 51-6  [abs].
  10. JG McEwen, JW Taylor, D Carter, J Xu, MS Felipe, R Vilgalys, TG Mitchell, T Kasuga, T White, T Bui, CM Soares, Molecular typing of pathogenic fungi., Med Mycol, England, vol. 38 Suppl 1 (2000), pp. 189-97  [abs].
  11. JM Moncalvo, FM Lutzoni, SA Rehner, J Johnson, R Vilgalys, Phylogenetic relationships of agaric fungi based on nuclear large subunit ribosomal DNA sequences., Syst Biol, England, vol. 49 no. 2 (June, 2000), pp. 278-305  [abs].
  12. J Xu, R Vilgalys, TG Mitchell, Multiple gene genealogies reveal recent dispersion and hybridization in the human pathogenic fungus Cryptococcus neoformans., Mol Ecol, ENGLAND, vol. 9 no. 10 (October, 2000), pp. 1471-1481  [abs].
  13. TY James, JM Moncalvo, S Li, R Vilgalys, Polymorphism at the ribosomal DNA spacers and its relation to breeding structure of the widespread mushroom Schizophyllum commune., Genetics, United States, vol. 157 no. 1 (January, 2001), pp. 149-61  [abs].
  14. U Kües, TY James, R Vilgalys & MP Challen, The chromosomal region containing pab-1, mip, and the A mating type locus of the secondarily homothallic homobasidiomycete Coprinus bilanatus., Curr Genet, United States, vol. 39 no. 1 (February, 2001), pp. 16-24  [abs].
  15. TY James & R Vilgalys, Abundance and diversity of Schizophyllum commune spore clouds in the Caribbean detected by selective sampling., Mol Ecol, England, vol. 10 no. 2 (February, 2001), pp. 471-479  [abs].
  16. J Xu, C Onyewu, HJ Yoell, RY Ali, RJ Vilgalys, TG Mitchell, Dynamic and heterogeneous mutations to fluconazole resistance in Cryptococcus neoformans., Antimicrob Agents Chemother, United States, vol. 45 no. 2 (February, 2001), pp. 420-7  [abs].
  17. A Forche, J Xu, R Vilgalys & TG Mitchell, Development and characterization of a genetic linkage map of Cryptococcus neoformans var. neoformans using amplified fragment length polymorphisms and other markers., Fungal Genet Biol, United States, vol. 31 no. 3 (December, 2001), pp. 189-203  [abs].
  18. J Xu, G Luo, RJ Vilgalys, ME Brandt, TG Mitchell, Multiple origins of hybrid strains of Cryptococcus neoformans with serotype AD., Microbiology, England, vol. 148 no. Pt 1 (January, 2002), pp. 203-12  [abs].
  19. JM Moncalvo, R Vilgalys, SA Redhead, JE Johnson, TY James, M Catherine Aime, V Hofstetter, SJ Verduin, E Larsson, TJ Baroni, R Greg Thorn, S Jacobsson, H Clémençon, OK Miller, One hundred and seventeen clades of euagarics., Mol Phylogenet Evol, United States, vol. 23 no. 3 (June, 2002), pp. 357-400  [abs].
  20. EA Morehouse, TY James, AR Ganley, R Vilgalys, L Berger, PJ Murphy, JE Longcore, Multilocus sequence typing suggests the chytrid pathogen of amphibians is a recently emerged clone., Mol Ecol, England, vol. 12 no. 2 (February, 2003), pp. 395-403  [abs].
  21. PC Ceresini, HD Shew, RJ Vilgalys, LR Gale, MA Cubeta, Detecting Migrants in Populations of Rhizoctonia solani Anastomosis Group 3 from Potato in North Carolina Using Multilocus Genotype Probabilities., Phytopathology, United States, vol. 93 no. 5 (May, 2003), pp. 610-5  [abs].
  22. A Pringle, JM Moncalvo, R Vilgalys, Revisiting the rDNA sequence diversity of a natural population of the arbuscular mycorrhizal fungus Acaulospora colossica., Mycorrhiza, Germany, vol. 13 no. 4 (August, 2003), pp. 227-31  [abs].
  23. AP Litvintseva, RE Marra, K Nielsen, J Heitman, R Vilgalys, TG Mitchell, Evidence of sexual recombination among Cryptococcus neoformans serotype A isolates in sub-Saharan Africa., Eukaryot Cell, United States, vol. 2 no. 6 (December, 2003), pp. 1162-8  [abs].
  24. GI Zervakis, JM Moncalvo & R Vilgalys, Molecular phylogeny, biogeography and speciation of the mushroom species Pleurotus cystidiosus and allied taxa., Microbiology, England, vol. 150 no. Pt 3 (March, 2004), pp. 715-726  [abs].
  25. TY James, U Kües, SA Rehner & R Vilgalys, Evolution of the gene encoding mitochondrial intermediate peptidase and its cosegregation with the A mating-type locus of mushroom fungi., Fungal Genet Biol, United States, vol. 41 no. 3 (March, 2004), pp. 381-390  [abs].
  26. RE Marra, JC Huang, E Fung, K Nielsen, J Heitman, R Vilgalys & TG Mitchell, A genetic linkage map of Cryptococcus neoformans variety neoformans serotype D (Filobasidiella neoformans)., Genetics, United States, vol. 167 no. 2 (June, 2004), pp. 619-631  [abs].
  27. TY James, SR Liou & R Vilgalys, The genetic structure and diversity of the A and B mating-type genes from the tropical oyster mushroom, Pleurotus djamor., Fungal Genet Biol, United States, vol. 41 no. 8 (August, 2004), pp. 813-825  [abs].
  28. R Yahr, R Vilgalys & PT Depriest, Strong fungal specificity and selectivity for algal symbionts in Florida scrub Cladonia lichens., Mol Ecol, England, vol. 13 no. 11 (November, 2004), pp. 3367-3378  [abs].
  29. S Diezmann, CJ Cox, G Schonian, R Vilgalys & TG Mitchell, Phylogeny and evolution of medical species of Candida and related taxa: a multigenic analysis., J Clin Microbiol, United States, vol. 42 no. 12 (December, 2004), pp. 5624-5635  [abs].
  30. Litvintseva, A. P., L. Kestenbaum, R. Vilgalys, and T. G. Mitchell, Comparative analysis of environmental and clinical populations of Cryptococcus neoformans, J Clin Microbiol, vol. 43 (2005), pp. 556-64 .
  31. Wallenstein, M.D. and R. J. Vilgalys, Quantitative analyses of nitrogen cycling genes in soils, Pedobiologia, vol. 49 (2005), pp. 665-672 .
  32. Fierer, N., J. A. Jackson, R. Vilgalys, and R. B. Jackson, Assessment of Soil Microbial Community Structure by Use of Taxon-Specific Quantitative PCR Assays, Appl. Env. Microbiol., vol. 71 (2005), pp. 4117-4120 .
  33. James, T. Y. and R. Vilgalys, Chytrid fungi as agents of amphibian decline- what can we learn from the earliest diverging fungi?, in Fungal Molecular principles of fungal pathogenesis, ASM Press. Joe Heitman, Scott Filler, and Aaron Mitchell-eds (2005) .
  34. AP Litvintseva, L Kestenbaum, R Vilgalys, TG Mitchell, Comparative analysis of environmental and clinical populations of Cryptococcus neoformans., Journal of clinical microbiology, United States, vol. 43 no. 2 (February, 2005), pp. 556-64  [abs].
  35. M Didukh, R Vilgalys, SP Wasser, OS Isikhuemhen, E Nevo, Notes on Agaricus section Duploannulati using molecular and morphological data., Mycological research, England, vol. 109 no. Pt 6 (June, 2005), pp. 729-40  [abs].
  36. N Fierer, JA Jackson, R Vilgalys, RB Jackson, Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays., Applied and environmental microbiology, United States, vol. 71 no. 7 (July, 2005), pp. 4117-20  [abs].
  37. HE O'Brien, JL Parrent, JA Jackson, JM Moncalvo, R Vilgalys, Fungal community analysis by large-scale sequencing of environmental samples., Applied and environmental microbiology, United States, vol. 71 no. 9 (September, 2005), pp. 5544-50  [abs].
  38. R Yahr, R Vilgalys, PT DePriest, Geographic variation in algal partners of Cladonia subtenuis (Cladoniaceae) highlights the dynamic nature of a lichen symbiosis., The New phytologist, England, vol. 171 no. 4 (2006), pp. 847-60  [abs].
  39. Yahr R, Vilgalys R, DePriest PT, Geographic variation in algal partners of Cladonia subtenuis (Cladoniaceae) highlights the dynamic nature of a lichen symbiosis, New Phytologist, vol. 171 (2006), pp. 847-860 .
  40. Parrent, J. L., W. F. Morris., R. Vilgalys, CO2-enrichment and nutrient availability alter ectomycorrhizal fungal communities, Ecology, vol. 87 (2006), pp. 2278-2287 .
  41. James TY, Srivilai P, Kues U, Vilgalys R, Evolution of the bipolar mating system of the mushroom Coprinellus disseminatus from its tetrapolar ancestors involves loss of mating-type-specific pheromone receptor function, Genetics, vol. 172 (2006), pp. 1877-1891 .
  42. Litvintseva, A. P., Thakur, R., Vilgalys, R., Mitchell, T. G., Multilocus sequence typing reveals three genetic subpopulations of Cryptococcus neoformans var. grubii (serotype A), Including a Unique Population in Botswana, Genetics, vol. 172 (2006), pp. 2223-2238 .
  43. James TY, Kauff F, Schoch CL, Matheny PB, Hofstetter V, Cox CJ, Celio G, Gueidan C, Fraker E, Miadlikowska J, Lumbsch HT, Rauhut A, Reeb V, Arnold AE, Amtoft A, Stajich JE, Hosaka K, Sung GH, Johnson D, O'Rourke B, Crockett M, Binder M, Curtis JM, Slot JC, Wang Z, Wilson AW, Schussler A, Longcore JE, O'Donnell K, Mozley-Standridge S, Porter D, Letcher PM, Powell MJ, Taylor JW, White MM, Griffith GW, Davies DR, Humber RA, Morton JB, Sugiyama J, Rossman AY, Rogers JD, Pfister DH, Hewitt D, Hansen K, Hambleton S, Shoemaker RA, Kohlmeyer J, Volkmann-Kohlmeyer B, Spotts RA, Serdani M, Crous PW, Hughes KW, Matsuura K, Langer E, Langer G, Untereiner WA, Lucking R, Budel B, Geiser DM, Aptroot A, Diederich P, Schmitt I, Schultz M, Yahr R, Hibbett DS, Lutzoni F, McLaughlin DJ, Spatafora JW, Vilgalys R, Reconstructing the early evolution of Fungi using a six-gene phylogeny, Nature, vol. 443 (2006), pp. 818-822 .
  44. Gonzalez D, Cubeta MA, Vilgalys R, Phylogenetic utility of indels within ribosomal DNA and beta-tubulin sequences from fungi in the Rhizoctonia solani species complex, Molecular Phylogenetics and Evolution, vol. 40 (2006), pp. 459-470 .
  45. TY James, P Srivilai, U Kües, R Vilgalys, Evolution of the bipolar mating system of the mushroom Coprinellus disseminatus from its tetrapolar ancestors involves loss of mating-type-specific pheromone receptor function., Genetics, United States, vol. 172 no. 3 (March, 2006), pp. 1877-91  [abs].
  46. AP Litvintseva, R Thakur, R Vilgalys, TG Mitchell, Multilocus sequence typing reveals three genetic subpopulations of Cryptococcus neoformans var. grubii (serotype A), including a unique population in Botswana., Genetics, United States, vol. 172 no. 4 (April, 2006), pp. 2223-38  [abs].
  47. D González, MA Cubeta, R Vilgalys, Phylogenetic utility of indels within ribosomal DNA and beta-tubulin sequences from fungi in the Rhizoctonia solani species complex., Molecular phylogenetics and evolution, United States, vol. 40 no. 2 (August, 2006), pp. 459-70  [abs].
  48. JL Parrent, WF Morris, R Vilgalys, CO2-enrichment and nutrient availability alter ectomycorrhizal fungal communities., Ecology, United States, vol. 87 no. 9 (September, 2006), pp. 2278-87  [abs].
  49. TY James, F Kauff, CL Schoch, PB Matheny, V Hofstetter, CJ Cox, G Celio, C Gueidan, E Fraker, J Miadlikowska, HT Lumbsch, A Rauhut, V Reeb, AE Arnold, A Amtoft, JE Stajich, K Hosaka, GH Sung, D Johnson, B O'Rourke, M Crockett, M Binder, JM Curtis, JC Slot, Z Wang, AW Wilson, A Schüssler, JE Longcore, K O'Donnell, S Mozley-Standridge, D Porter, PM Letcher, MJ Powell, JW Taylor, MM White, GW Griffith, DR Davies, RA Humber, JB Morton, J Sugiyama, AY Rossman, JD Rogers, DH Pfister, D Hewitt, K Hansen, S Hambleton, RA Shoemaker, J Kohlmeyer, B Volkmann-Kohlmeyer, RA Spotts, M Serdani, PW Crous, KW Hughes, K Matsuura, E Langer, G Langer, WA Untereiner, R Lücking, B Büdel, DM Geiser, A Aptroot, P Diederich, I Schmitt, M Schultz, R Yahr, DS Hibbett, F Lutzoni, DJ McLaughlin, JW Spatafora, R Vilgalys, Reconstructing the early evolution of Fungi using a six-gene phylogeny., Nature, England, vol. 443 no. 7113 (October, 2006), pp. 818-22  [abs].
  50. JL Parrent, R Vilgalys, Biomass and compositional responses of ectomycorrhizal fungal hyphae to elevated CO2 and nitrogen fertilization., The New phytologist, England, vol. 176 no. 1 (2007), pp. 164-74  [abs].
  51. PC Ceresini, HD Shew, TY James, RJ Vilgalys, MA Cubeta, Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci., BMC evolutionary biology, England, vol. 7 (2007), pp. 163  [abs].
  52. Henk DA, Vilgalys R, Molecular phylogeny suggests a single origin of insect symbiosis in the Pucciniomycetes with support for some relationships within the genus Septobasidium, American Journal of Botany, vol. 94 (2007), pp. 1515-1526 .
  53. DS Hibbett, M Binder, JF Bischoff, M Blackwell, PF Cannon, OE Eriksson, S Huhndorf, T James, PM Kirk, R Lücking, H Thorsten Lumbsch, F Lutzoni, PB Matheny, DJ McLaughlin, MJ Powell, S Redhead, CL Schoch, JW Spatafora, JA Stalpers, R Vilgalys, MC Aime, A Aptroot, R Bauer, D Begerow, GL Benny, LA Castlebury, PW Crous, YC Dai, W Gams, DM Geiser, GW Griffith, C Gueidan, DL Hawksworth, G Hestmark, K Hosaka, RA Humber, KD Hyde, JE Ironside, U Kõljalg, CP Kurtzman, KH Larsson, R Lichtwardt, J Longcore, J Miadlikowska, A Miller, JM Moncalvo, S Mozley-Standridge, F Oberwinkler, E Parmasto, V Reeb, JD Rogers, C Roux, L Ryvarden, JP Sampaio, A Schüssler, J Sugiyama, RG Thorn, L Tibell, WA Untereiner, C Walker, Z Wang, A Weir, M Weiss, MM White, K Winka, YJ Yao, N Zhang, A higher-level phylogenetic classification of the Fungi., Mycological research, England, vol. 111 no. Pt 5 (May, 2007), pp. 509-47  [abs].
  54. TM Porter, CW Schadt, L Rizvi, AP Martin, SK Schmidt, L Scott-Denton, R Vilgalys, JM Moncalvo, Widespread occurrence and phylogenetic placement of a soil clone group adds a prominent new branch to the fungal tree of life., Molecular phylogenetics and evolution, United States, vol. 46 no. 2 (February, 2008), pp. 635-44  [abs].
  55. WH Hartman, CJ Richardson, R Vilgalys, GL Bruland, Environmental and anthropogenic controls over bacterial communities in wetland soils., Proceedings of the National Academy of Sciences of the United States of America, United States, vol. 105 no. 46 (November, 2008), pp. 17842-7  [abs].

Book Chapters

  1. James, T. Y. and R. Vilgalys, Amphibian chytridiomycosis as an emerging infectious disease of wildlife: what can we learn from the earliest diverging fungi?, in Molecular principles of fungal pathogenesis, edited by J. Heitman, S.G. Filler, J.E. Edwards, Jr, and A.P. Mitchell (2006), ASM Press, Washington, D.C. .
  2. Idnurm, A., T. Y. James, and R. Vilgalys, Sex in the rest: mysterious mating in the Chytridiomycota and Zygomycota, in Sex in fungi: molecular determination and evolutionary implications, edited by Joe Heitman, Jim Kronstad, John Taylor, and Lorna Casselton eds (2007), ASM Press, Washington, D.C. .

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