One Fungus = One Name: DNA and fungal nomenclature twenty years after PCR

IMA Fungus

Volumn 2, Issue 2, 2011, Pages 113-120

  Taylor, John W ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Amsterdam Declaration; ENAS; MycoCode; Nomenclature; Pleomorphic fungi

Indexed keywords

EID: 84858004444     PISSN: 22106340     EISSN: 22106359     Source Type: Journal    
DOI: 10.5598/imafungus.2011.02.02.01     Document Type: Article

References (50)

1. Barron GL (1968) The Genera of Hyphomycetes from Soil. Baltimore: Williams & Wilkins
2. Berbee ML, Taylor JW (1992) 18S ribosomal RNA gene sequence characters place the human pathogen Sporothrix schenckii in the genus Ophiostoma. Experimental Mycology 16: 87-91
3. Briquet J (1912) Règles internationales de al nomenclature botanique adoptées par le Congrès international de botanique de Vienne 1905 dèuxieme édition mise au point d'après les décisions du congrès international de botanique de Bruxelles 1910. Jena: Commission de Rédaction du Congrès, Fischer Verlag
4. Bruns TD, Fogel R, White TJ, Palmer JD (1989) Accelerated evolution of a false-truffle from a mushroom ancestor. Nature 339: 140-142
5. Bruns TD, White TJ, Taylor JW (1991) Fungal molecular systematics. Annual Review of Ecology and Systematics 22: 525-564
6. Burt A, Carter DA, Koenig GL, White TJ, Taylor JW (1996) Molecular markers reveal cryptic sex in the human pathogen Coccidioides immitis. Proceedings of the National Academy of Sciences, USA 93: 770-773
7. Cole GT, Samson RA (1979) Patterns of Development in Conidial Fungi. London: Pitman
8. Crous PW, Slippers B, Wingfield MJ, Rheeder J, Marasas WFO, Philips AJL, Alves A, Burgess T, Barber P, Groenewald JZ (2006) Phylogenetic lineages in the Botryosphaeriaceae. Studies in Mycology 55: 235-253
9. Federal Register (2005) Possession, use and transfer of select agents and toxins; Final rule. 70. Federal Register 52 (18 March 2005): 13294-13325 (13297)
10. Fisher MC, KoenigGL, White TJ, Taylor JW (2002) Molecular and phenotypic description of Coccidioides posadasii sp. nov., previously recognized as the non-California population of Coccidioides immitis. Mycologia 94: 73-84
11. Fuckel L (1870) Symbolae mycologicae. Beiträge zur Kenntnis der rheinischen Pilze. Jahrbücher des Nassauischen Vereins für Naturkunde 23-24: 1-495
12. Gottschalk M, Blanz PA (1984) Highly conserved 5S ribosomal RNA sequences in four rust fungi and atypical 5S rRNA secondary structure in Microstroma juglandis. Nucleic Acids Research 12: 3951-3958
13. Greuter W, Garrity G, Hawksworth DL, Jahn R, Kirk PM, Knapp S, McNeill J, Michel E, Patterson DJ, Pyle R, Tindall B (2011) Draft BioCode (2011): principles and rules regulating the naming of organisms. Taxon 60: 201-212
14. Guadet J, Julien J, Lafay JF, Brygoo Y (1989) Phylogeny of some Fusarium species, as determined by large-subunit rRNA sequence comparison. Molecular Biology and Evolution 6: 227-242
15. Gueho E, Kurtzman CP, Peterson SW (1989) Evolutionary affinities of heterobasidiomycetous yeast estimated from 18S and 25S ribosomal RNA seqeunce divergence. Systematic and Applied Microbiology 12: 230-236
16. Hawksworth DL (2011) Introducing the Draft BioCode (2011). Taxon 60: 199-200
17. Hawksworth DL, Cooper JA, Crous PW, Hyde KD, Iturriaga T, Kirk PM, Lumbsch HT, May TW, Minter DW, Misra JK, Norvell L, Redhead SA, Rossman AY, Seifert KA, Stalpers JA, Taylor JW, Wingfield MJ (2010) Proposals to make the pre-publication deposit of key nomenclatural information in a recognized repository a requirement for valid publication of organisms treated as fungi under the Code. Mycotaxon 111: 514-519; Taxon 59: 660-662
18. Hawksworth DL, Crous PW, Dianese JC, Gryzenhout M, Norvell LL, Seifert KA (2009) Proposals to amend the Code to make it clear that it covers the nomenclature of fungi, and to modify the governance with respect to names of organisms treated as fungi. Taxon 58: 658-659; Mycotaxon 108: 1-4
19. Hawksworth DL, Crous PW, Redhead SA, Reynolds DR, Samson RA, Seifert KA, Taylor JW, Wingfield MJ, et al. (2011) The Amserdam declaration on fungal nomenclature. IMA Fungus 2: 105-112
20. Hennig W (1966) Phylogenetic Systematics. Urbana: University of Illinois Press
21. Hibbett DS, Ohman A, Glotzer D, Nuhn M, Kirk P, Nilsson RH (2011) Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences. Fungal Biology Reviews 25: 38-47
22. Houbraken J, Frisvad JC, Samson RA (2010) Taxonomy of Penicillium citrinum and related species. Fungal Diversity 44: 117-133
23. Hughes SJ (1953) Conidiophores, conidia, and classification. Canadian Journal of Botany 31: 577-659
24. Inderbitzin P, Shoemaker RA, O'Neill NR, Turgeon BG, Berbee ML (2006) Systematics and mating systems of two fungal pathogens of opium poppy: the heterothallic Crivellia papaveracea with a Brachycladium penicillatum asexual state and a homothallic species with a Brachycladium papaveris asexual state. Canadian Journal of Botany 84: 1304-1326
25. Jumpponen A, Jones KL (2009) Massively parallel 454 sequencing indicates hyperdiverse fungal communities in temperate Quercus macrocarpa phyllosphere. New Phytologist 184: 438-448
26. Jumpponen A, Jones KL (2010) Seasonally dynamic fungal communities in the Quercus macrocarpa phyllosphere differ between urban and nonurban environments. New Phytologist 186: 496-513
27. Kendrick B (ed.)(1979) The Whole Fungus: the sexual-asexual synthesis. 2 vols. Ottawa: National Museums of Canada
28. Koufopanou V, Burt A, Taylor JW (1997) Concordance of gene genealogies reveals reproductive isolation in the pathogenic fungus Coccidioides immitis. Proceedings of the National Academy of Sciences, USA 94: 5478-5482
29. Kurtzman CP, Smiley MJ, Johnson CJ, Wickerham LJ, Fuson GB (1980) Two new and closely related heterothallic species, Pichia amyolphila and Pichia mississippiensis: characterization by hybridization and deoxyribonucleic acid reassociation. International Journal of Systematic Bacteriology 30: 208-216
30. Mason EW (1933) Annotated account of Fungi received at the Imperial Mycological Institute, List II (Fasc. 2). Mycological Papers 3: 1-67
31. Mason EW (1937) Annotated account of Fungi received at the Imperial Mycological Institute, List II, Fasc. 3 gen. part. Mycological Papers 4: 69-99
32. McNeill J, Barrie FR, Burdet HM, Demoulin V, Hawksworth DL, Marhold K, Nicolson DH, Prado J, Silva PC, Skog JE, Wiersema JH (eds) (2006) International Code of Botanical Nomenclature (Vienna Code) adopted by the Seventeenth Interational Botanical Congress, Vienna, Austria, July 2005. [Regnum Vegetabile No. 146.] Ruggell: A.R.G. Gantner Verlag
33. Norvell LL, Hawksworth DL, Peterson RH, Redhead SA (2010) IMC9 Edinburgh Nomenclature Sessions. IMA Fungus 1: 143-147; Mycotaxon 113: 503-511
34. Rabinow P (1996) Making PCR: a story of biotechnology. Chicago: University of Chicago Press
35. Raper KB, Fennell DI (1965) The Genus Aspergillus. Baltimore: Williams & Wilkins
36. Reynolds DR, Taylor JW (1991) DNA specimens and the 'International code of botanical nomenclature'. Taxon 40: 311-315
37. Reynolds DR, Taylor JW (1992) Article 59: reinterpretation or revision? Taxon 42: 91-98
38. Reynolds DR, Taylor JW (eds) (1993) The Fungal Holomorph: mitotic, meiotic and pleomorphic speciation in fungal systematics. Wallingford: CAB International
39. Saccardo PA (1882) Sylloge Fungorum omnium hucusque cognitorum. Vol. 1. Pavia: PA Saccardo
40. Saiki RK, Gelfand DH, Stoffel S, Scharf SJ, Higuchi R, Horn GT, Mullis KB, Erlich H (1988) Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science 239: 487-491
41. Taylor JW (1995) Making the Deuteromycota redundant: a practical integration of mitosporic and meiosporic fungi. Canadian Journal of Botany 73 (Suppl.): s754-s759
42. Taylor JW, Turner E, Townsend JP, Dettman JR, Jacobson D (2006) Eukaryotic microbes, species recognition and the geographic limits of species: examples from the kingdom Fungi. Philosophical Transactions of the Royal Society B-Biological Sciences 361: 1947-1963
43. Tubaki K (1958) Studies on the Japanese Hyphomycetes, 5. Leaf and stem group with a discussion of the classification of Hyphomycetes and their perfect stages. Journal of the Hattori Botanical Laboratory 20: 142-244
44. Tulasne L-R, Tulasne C (1861) Selecta Fungroum Carpologia. Vol. 1. Paris: Imperial Typographer. [Reprint (1931) Oxford: Clarendon Press.]
45. Vuillemin P (1910a) Les aleuriospores. Bulletin de la Société des Sciences du Nancy 12: 151-175
46. Vuillemin P (1910b) Les conidiospores. Bulletin de la Société des Sciences du Nancy 11: 129-172
47. Walker WF, Doolittle WF (1982) Redividing the basidiomycetes on the basis of 5S rRNA sequences. Nature 299: 723-724
48. Walker WF, Doolittle WF (1983) Systematics of basidiomycetes based on 5S rRNA sequences and other data. Nature 303: 731-732
49. Weresub LK, Pirozynski KA (1979) Pleomorphism of fungi as treated in the history of mycology and nomenclature. In: The Whole Fungus (B Kendrick, ed.) 1: 17-25. Ottawa: National Museums of Canada
50. White TJ, Bruns T, Lee S, Taylor W (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: PCR Protocols: a guide to methods and applications (M Innis et al., eds): 315-322. Academic Press, San Diego