The largest type study of Agaricales species to date: Bringing identification and nomenclature of Phlegmacium (Cortinarius) into the DNA era

Persoonia: Molecular Phylogeny and Evolution of Fungi

Volumn 33, Issue , 2014, Pages 98-140

  Liimatainen, K ^a   Niskanen, T ^a   Dima, B ^a   Kytovuori I ^a   Ammirati, J F ^b   Froslev T G ^c  

^a UNIVERSITY OF HELSINKI   (Finland)

^b UNIVERSITY OF WASHINGTON   (United States)

^c UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

Basidiomycota; Diversity; DNA barcoding; ITS; Taxonomy; Typification

Indexed keywords

AGARICALES; BASIDIOMYCOTA; CORTINARIUS;

EID: 84915791146     PISSN: 00315850     EISSN: 18789080     Source Type: Journal    
DOI: 10.3767/003158514X684681     Document Type: Article

References (93)

1. Abarenkov K, Nilsson RH, Larsson K-H, et al. 2010. The UNITE database for molecular identification of fungi-recent updates and future perspectives. New Phytologist 186, 2: 281-285.
2. Ammirati JF. 1972. The section Dermocybe of Cortinarius in North America. PhD thesis, University of Michigan, USA.
3. Ammirati JF, Hughes KW, Liimatainen K, et al. 2013. Cortinarius hesleri from eastern North America and related species from Europe and western North America. Botany 91: 91-98.
4. Bidaud A, Moënne-Loccoz P, Carteret X, et al. 2005. Atlas des Cortinaires. Pars XV. Èditions Fèdération mycologique Dauphiné-Savoie, France.
5. Bidaud A, Moënne-Loccoz P, Reumaux P. 1992. Atlas des Cortinaires. Pars IV. Èditions Fèdération mycologique Dauphiné-Savoie, France.
6. Bidaud A, Moënne-Loccoz P, Reumaux P. 1994. Atlas des Cortinaires. Clé generale des sous-genres, sections et series. Èditions Fèdération mycologique Dauphiné-Savoie, France.
7. Bidaud A, Moënne-Loccoz P, Reumaux P, et al. 2006. Atlas des Cortinaires. Pars XVI. Èditions Fèdération mycologique Dauphiné-Savoie, France.
8. Bidaud A, Moënne-Loccoz P, Reumaux P, et al. 2009. Atlas des Cortinaires. Pars XVIII. Èditions Fèdération mycologique Dauphiné-Savoie, France.
9. Bidaud A, Moënne-Loccoz P, Reumaux P, et al. 2010. Atlas des Cortinaires. Pars XIX. Èditions Fèdération mycologique Dauphiné-Savoie, France.
10. Bidaud A, Reumaux P, Carteret X. 2012. Les Cortinaires du docteur Henry. SARL Éditions FMDS, France.
11. Bödeker I, Clemmensen K, Boer W de, et al. 2011. Fungal peroxidases and soil organic matter decomposition: are ectomycorrhizal Cortinarius species the key players? MSA abstracts. Inoculum 62, 3: 11.
12. Bojantchev D. 2011a. Cortinarius callimorphus, a new species from northern California. Mycotaxon 117: 1-8.
13. Bojantchev D. 2011b. Cortinarius mikedavisii sp. nov. from northern California. Mycotaxon 118: 265-272.
14. Brandrud TE. 1996. Cortinarius subgenus Phlegmacium section Phlegmacium in Europe. Descriptive part. Edinburgh Journal of Botany 53: 331-400.
15. Brandrud TE. 1998. Cortinarius subgenus Phlegmacium section Phlegmacioides (= Variecolores) in Europe. Edinburgh Journal of Botany 55: 65-156.
16. Brandrud TE, Lindström H, Marklund H, et al. 1990. Cortinarius Flora Photographica. Vol. I (English version). Cortinarius HB, Sweden.
17. Brandrud TE, Lindström H, Marklund H, et al. 1992. Cortinarius Flora Photographica. Vol. II (Swedish version). Cortinarius HB, Sweden.
18. Brandrud TE, Lindström H, Marklund H, et al. 1994. Cortinarius Flora Photographica. Vol. III (Swedish version). Cortinarius HB, Sweden.
19. Brandrud TE, Lindström H, Marklund H, et al. 1998. Cortinarius Flora Photographica. Vol. IV (Swedish version). Cortinarius HB, Sweden.
20. Brandrud TE, Lindström H, Marklund H, et al. 2012. Cortinarius Flora Photographica. Vol. V (Swedish version). Cortinarius HB, Sweden.
21. Britzelmayr M. 1885. Hymenomyceten aus Südbayern 4: Cortinarius, Paxillus, Hygrophorus, Lactarius, Russula, Cantharellus, Marasmius, Lentinus, Panus, Trogia, Schizophyllum, Lenzites. Berichte des Naturhistorischen Vereins Augsburg 28: 119-160.
22. Burnett J 2003. Fungal populations and species. Oxford University Press. USA.
23. Cleland JB. 1976 [1935]. Toadstools and mushrooms and other larger fungi of South Australia. South Australian Government Printer, Australia.
24. Edgar RC. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32: 1792-1797.
25. Fries EM. 1818. Observationes Mycologicae 2. Bonnier, Copenhagen, Denmark.
26. Fries EM. 1821. Systema Mycologicum. Uppsala, Sweden.
27. Fries EM. 1836-1838. Epicrisis systematis mycologici seu synopsis Hymenomycetum. Uppsala, Sweden.
28. Fries EM. 1851. Monographia Cortinariorum Sueciae. Uppsala, Sweden.
29. Fries EM. 1867-1884. Icones selectae Hymenomycetum nondum delineatorum. Nordstedt & Son, Uppsala, Sweden.
30. Frøslev TG, Jeppesen TS. 2011. Knoldslørhatte som indikatorarter gennem 20 år (1991-2011). Svampe 64: 34-45.
31. Frøslev TG, Jeppesen TS, Læssoe T. 2006. Seven new calochroid and fulvoid species of Cortinarius. Mycological Research 110: 1046-1058.
32. Frøslev TG, Jeppesen TS, Læssoe T, Kjøller R. 2007. Molecular phylogenetics and delimitation of species in Cortinarius section Calochroi (Basidiomycota, Agaricales) in Europe. Molecular Phylogenetics and Evolution 44: 217-227.
33. Frøslev TG, Matheny PB, Hibbett D. 2005. Lower level relationships in the mushroom genus Cortinarius (Basidiomycota, Agaricales): A comparison of RBP1, RPB2 and ITS phylogenies. Molecular Phylogenetics and Evolution 37: 602-618.
34. Gardes M, Bruns TD. 1993. ITS primers with enhanced specifity for basidiomycetes. Application to the identification of mycorrhizae and rusts. Molecular Ecology 2: 113-118.
35. Garnica S, Spahn P, Oertel B, et al. 2011. Tracking the evolutionary history of Cortinarius species in section Calochroi, with transoceanic disjunct distributions. BMC Evolutionary Biology 11: 213.
36. Garnica S, Weiß M, Oberwinkler F. 2002. New Cortinarius species from Nothofagus forests in South Chile. Mycologia 96: 136-145.
37. Garnica S, Weiß M, Oertel B, et al. 2009. Phylogenetic relationships in Cortinarius, section Calochroi, inferred from nuclear DNA sequences. BMC Evolutionary Biology 9: 1.
38. Garnica S, Weiß M, Oertel B, et al. 2005. A framework for a phylogenetic classification in the genus Cortinarius (Basidiomycota, Agaricales) derived from morphological and molecular data. Canadian Journal of Botany 83: 1457-1477.
39. Gasparini B, Soop K. 2008. Contribution to the knowledge of Cortinarius (Agaricales, Cortinariaceae) of Tasmania (Australia) and New Zealand. Australasian Mycologist 27, 3: 173-203.
40. Gilbertson RL. 1962. Index to species and varieties of fungi described by C. H. Peck from 1909 to 1915. Mycologia 54, 5: 460-465.
41. Gjerde I, Brandrud TE, Sætersdal M. 2012. Spredning av mykorrhizasopp til granplantefelt på Vestlandet. In: Rolstad J, Gjerde I, Schei FH (eds), Spredningsøkologi hos skoglevende kryptogamer. Skog og landskap Ås/Bergen, rapport, Norway: 60-69.
42. Hallingbäck T, Aronsson G (eds). 1998. Ekologisk katalog över storsvampar och myxomyceter. ArtDatabanken, SLU, Sweden.
43. Harrower E, Ammirati JF, Cappuccino AA, et al. 2011. Cortinarius species diversity in British Columbia and molecular phylogenetic comparison with European specimen sequences. Botany 89: 799-810.
44. Henry R. 1933. Un nouveau Cortinaire du groupe des Scauri: C. dionysae (n. sp.). Bulletin de la Société Mycologique de France 49, 2: 230-240.
45. Henry R. 1939. Suite et complement à l'étude des Phlegmacia. Bulletin de la Société Mycologique de France 55, 1: 61-94.
46. Henry R. 1951. Les Scauri. Bulletin de la Société Mycologique de France 67, 3: 225-322.
47. Henry R. 1958. Suite à l'étude des Cortinaires. Bulletin de la Société Mycologique de France 74, 4: 365-422.
48. Henry R. 1981. Les Cortinaires. Bulletin de la Société Mycologique de France 97, 3: 157-279.
49. Henry R. 1985. Novelle étude de Cortinaires. Bulletin de la Société Mycologique de France 101, 1: 1-54.
50. Henry R. 1986. Suite à l'étude des Cortinaires. Bulletin de la Société Mycologique de France 102, 1: 19-96.
51. Høiland K. 1984. Cortinarius subgenus Dermocybe. Opera Botanica 71: 1-113.
52. Jeppesen TS, Frøslev TG, Brandrud TE. 2012. Subgen. Phlegmacium (Fr.) Trog. In: Knudsen H, Vesterholt J (eds), Funga Nordica, 2nd revised edition. Agaricoid, boletoid, clavarioid, cyphelloid and gastroid genera: 782-826. Nordsvamp, Denmark.
53. Kauffman CH. 1918. The Agaricaceae of Michigan. Cortinarius. Michigan Geological and Biological Survey, Publications 26, Biological Series 5, vol. 1: 314-442.
54. Kauffman CH. 1923. The mycological flora of the higher Rockies of Colorado. Papers from the Michigan Academy of Science, Arts and Letters 1: 101-150.
55. Kauffman CH. 1932. Cortinarius. North American Flora 10: 282-348.
56. Kirk PM, Cannon PF, Minter DW, Stalpers JA. 2008. Dictionary of the fungi. 10th ed. CAB International, UK.
57. Larsson E, Jacobsson S. 2004. Controversy over Hygrophorus cossus settled using ITS sequence data from 200 year-old type material. Mycological Research 108: 781-786.
58. Liu Y, Rogers SO, Ammirati JF. 1997. Phylogenetic relationships in Dermocybe and related taxa based on nuclear ribosomal DNA internal transcribed spacers. Canadian Journal of Botany 75: 519-532.
59. Matheny PB, Ammirati JF. 2006. Cortinarius lucorum (Fr.) Karst., a Populus associate from North America. Pacific Northwest Fungi 1, 4: 1-10.
60. Moser M. 1960. Die Gattung Phlegmacium (Schleimköpfe). Die Pilze Mitteleuropas, Band IV. Klinkhardt, Germany.
61. Moser M. 1969-1970. Cortinarius Fr., Untergattung Leprocybe subgenus nov. Die Rauhköpfe. Vorstudien zu einer Monographie. Zeitschrift für Pilzkunde 35, 3-4: 213-248; 36, 1-2: 19-39.
62. Moser M. 1983. Die Röhrlinge und Blätterpilze. In: Gams H (ed), Kleine Kryptogamenflora, Band II b/2, 5th ed. Fischer Verlag, Germany.
63. Moser M, Ammirati JF. 1996. Studies in North American Cortinarii II. Interesting and new species collected in the North Cascade Mountains, Washington. Mycotaxon 58: 387-412.
64. Moser M, Ammirati JF. 1999. Studies in North American Cortinarii V. New and interesting Phlegmacia from Wyoming and the Pacific Northwest. Mycotaxon 72: 289-321.
65. Moser M, Ammirati JF. 2000. Studies in North American Cortinarii VI. New and interesting taxa in subgenus Phlegmacium from the Pacific states of North America. Mycotaxon 74: 1-36.
66. Moser M, Horak E. 1975. Cortinarius Fr. und nahe verwandte Gattungen in Südamerika. Beihefte zur Nova Hedwigia 52: 1-628.
67. Moser M, McKnight KH, Ammirati JF. 1995. Studies on North American Cortinarii I. New and interesting taxa from the Greater Yellowstone area. Mycotaxon 60: 301-346.
68. Moser M, Peintner U. 2002. The species complex Cortinarius scaurus-Cortinarius herpeticus based on morphological and molecular data. Micologia e Vegetation Mediterranea 17: 3-17.
69. Niskanen T, Kytövuori I, Bendiksen E, et al. 2012a. Cortinarius (Pers.) Gray. In: Knudsen H, Vesterholt J (eds), Funga Nordica, 2nd revised edition. Agaricoid, boletoid, clavarioid, cyphelloid and gastroid genera: 762-763. Nordsvamp, Denmark.
70. Niskanen T, Kytövuori I, Liimatainen K. 2009. Cortinarius sect. Brunnei (Basidiomycota, Agaricales) in North Europe. Mycological Research 113: 182-206.
71. Niskanen T, Kytövuori I, Liimatainen K. 2011a. Cortinarius sect. Armillati in northern Europe. Mycologia 103, 5: 1080-1101.
72. Niskanen T, Kytövuori I, Liimatainen K, et al. 2013a. Cortinarius section Bovini (Agaricales, Basidiomycota) in northern Europe, conifer associated species. Mycologia 105: 977-993.
73. Niskanen T, Laine S, Liimatainen K, et al. 2012b. Cortinarius sanguineus and equally red species in Europe with an emphasis on northern European material. Mycologia 104, 1: 242-253.
74. Niskanen T, Liimatainen K, Ammirati JF. 2013b. Five new Telamonia species (Cortinarius, Agaricales) from western North America. Botany 91: 478-485.
75. Niskanen T, Liimatainen K, Ammirati JF, et al. 2013c. Cortinarius section Sanguinei in North America. Mycologia 105: 344-356.
76. Niskanen T, Liimatainen K, Ammirati JF, et al. 2011b. Diversity of Cortinarius in boreal North America and Europe. MSA abstracts. Inoculum 62, 3: 35.
77. Niskanen T, Liimatainen K, Kytövuori I, et al. 2012c. New Cortinarius species from conifer dominated forests of North America and Europe. Botany 90: 743-754.
78. Ortega A, Suárez-Santiago VN, Reyes JD. 2008. Morphological and ITS identification of Cortinarius species (section Calochroi) collected in Mediterranean Quercus woodlands. Fungal Diversity 29: 73-88.
79. Orton PD. 1955. The genus Cortinarius I. Myxacium and Phlegmacium. Naturalist (July-Sept): 1-80.
80. Orton PD. 1958. The genus Cortinarius II. Inoloma and Dermocybe. Naturalist (Suppl.): 81-149.
81. Peck CH. 1873. Report of the Botanist Annual Report on the New York State Museum of Natural History 23: 27-135.
82. Peintner U, Moncalvo J-M, Vilgalys R. 2004. Towards a better understanding of the infrageneric relationships in Cortinarius (Agaricales, Basidiomycota). Mycologia 96: 1042-1058.
83. Posada D. 2008. jModelTest: phylogenetic model averaging. Molecular Biology and Evolution 25: 1253-1256.
84. Ronquist F, Huelsenbeck JP. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
85. Schmit JP, Mueller GM. 2007. An estimate of the lower limit of global fungal diversity. Biodiversity and Conservation 16: 99-111.
86. Schoch CL, Seifert KA, Huhndorf A, et al. 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proceedings of the National Academy of Sciences USA 109: 6241-6246.
87. Smith AH. 1939. Studies in the genus Cortinarius I. Contributions from the University of Michigan Herbarium 2: 4-42, 12 plt.
88. Smith AH. 1942. New and unusual Cortinarii from Michigan with a key to the North American species of genus Bulbopodium. Bulletin of the Torrey Botanical Club 69: 44-64.
89. Smith AH. 1944. New and interesting Cortinarii from North America. Lloydia 7: 163-235.
90. Suárez-Santiago VN, Ortega A, Peintner U, et al. 2009. Study on Cortinarius subgenus Telamonia section Hydrocybe in Europe, with especial emphasis on Mediterranean taxa. Mycological Research 113: 1070-1090.
91. Thiers B. 2013. Index Herbariorum: A global directory of public herbaria and associated staff. New York Botanical Garden's Virtual Herbarium. http://sweetgum. nybg. org/ih/.
92. Vesterholt J. 1991. Knold-slørhatte (Cortinarius underslaegt Phlegmacium) som indikatorarter for en type vaerdifulde løvskovslokaliteter. Svampe 24: 27-48.
93. White TJ, Bruns T, Lee S, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Michael AJ, Gelfand DH, Sninsky JJ, et al. (eds), PCR protocols: a guide to the methods and applications: 315-322. Academic Press, USA.