Taxonomic revision and examination of ecological transitions of the Lyophyllaceae (Basidiomycota, Agaricales) based on a multigene phylogeny

Cryptogamie, Mycologie

Volumn 35, Issue 4, 2014, Pages 399-425

  Hofstetter, Valérie ^a,f   Redhead, Scott Alan ^b,f   Kauff, Frank ^c,f   Moncalvo, Jean Marc ^d,f   Matheny, Patrick Brandon ^f   Vilgalys, Rytas ^e,f  

^a AGROSCOPE   (Switzerland)

^b OTTAWA RESEARCH AND DEVELOPMENT CENTRE   (Canada)

^c Rheinland Pfälzische Technische Universität Kaiserslautern Landau   (Germany)

^d UNIVERSITY OF TORONTO   (Canada)

^e UNIVERSITY OF TENNESSEE   (United States)

^f NONE

Author keywords

Bayesian; maximum likelihood; mitSSU; molecular clock; molecular systematics; multigene (ITS; nucLSU; relative rate tests; RPB1; RPB2; TEF1 )

Indexed keywords

AGARICALES; BASIDIOMYCOTA;

EID: 84921686341     PISSN: 01811584     EISSN: None     Source Type: Journal    
DOI: 10.7872/crym.v35.iss4.2014.399     Document Type: Article

References (134)

1. AANEN D.K & EGGLETON P., 2005 - Fungus-growing termites originated in African rain forest. Current Biology 15(9): 851-5.
2. AANEN D.K., EGGLETON P., ROULAND-LEFÈVRE C., GULDBERG-FRØSLEV T., ROSENDAHL S. & BOOMSMA J. J., 2002 - The evolution of fungus-growing termites and their mutualistic fungal symbionts. Proceedings of the National Academy of Science of the United States of America 99(23): 14887-14892.
3. AGERER R. & BEENKEN L., 1998 - Lyophyllum decastes (Fr.) Sing. + Quercus robur L. Descriptions of Ectomycorrhizae 3: 43-47.
4. AHMADJIAN V., 1993 - The Lichen Symbiosis. John Wiley & Sons, Inc., New York, 278 pp.
5. ALFARO M.E., ZOLLER S. & LUTZONI F., 2003 - Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence. Molecular Biology and Evolution 20(2): 255-266.
6. ALVARADO P., MORENO G., VIZZINI A., CONSIGLIO G. & MANJÓ J. L., 2014 - Atractosporocybe, Leucocybe and Rhizocybe: three new clitocyboid genera in the Tricholomatoid clade (Agaricales) with notes on Clitocybe and Lepista. Mycologia in press. doi:10.3852/13-369.
7. ANDREASEN K. & BALDWIN B.G., 2001 - Unequal evolutionary rates between annual and perennial lineages of checker mallows (Sidalcea, Malvaceae): Evidence from 18S-26S rDNA internal and external transcribed spacers. Molecular Biology and Evolution 18: 936-944.
8. BARONI T.J., FRANCO-MOLANO A.E., LODGE D.J., CZEDERPILTZ D.L.L., HORAK E. & HOFSTETTER V., 2007 - Arthromyces and Blastosporella two new genera of conidia producing lyophylloid agarics (Agaricales, Basidiomycota) from the Neotropics. Mycological Research 111(5): 572-580.
9. BARONI T.J., HOFSTETTER V., LARGENT D. L. & VILGALYS R., 2011 - Entocybe is proposed as a new genus in the Entolomataceae (Agaricomycetes, Basidiomycota) based on morphological and molecular evidence. North American Fungi 6(12): 1-19.
10. BEVAN R.B., BRYANT D. & LANG B.F., 2007 - Accounting for gene rate heterogeneity in phylogenetic inference. Systematic Biology 56(2): 194-205.
11. BON M., 1999a - Tricholomatales (Marasmiaceae, Lyophyllaceae et Dermolomataceae). Documents Mycologiques 29(115): 33-34.
12. BRITTEN R. J., 1986 - Rates of DNA sequence evolution differ between taxonomic groups. Science 231: 1393-1398.
13. BROMHAM L., PENNY D., RAMBAUT A. & HENDY M. D., 2000 - The power of relative rate tests depends on the data. Journal of Molecular Evolution 50: 296-301.
14. BRUNS T.D. & SHEFFERSON R.P. 2004 - Evolutionary studies of ectomycorrhizal fungi: recent advances and future directions. Canadian Journal of Botany 82: 1122-1132.
15. BULLER A.H.R., 1924 - Researches on fungi. Vol. 3 The production and liberation of spores in Hymenomycetes and Uredineae. Longmans, Green, London.
16. CLARKE B., 1976 - The ecological genetics of host-parasite relationships. In A. E. R. Taylor & R. Muller, eds. Genetic aspects of host-parasite relationships. Blackwell Scientific Publications, Oxford, England, pp. 87-103.
17. CLÉMENÇON H., 1974 - Acid phosphatase activity in the basidia of Lyophyllum and Calocybe. Mycologia 66: 1055-1058.
18. CLÉMENÇON H., 1978 - Siderophilous granules in the basidia of Hymenomycetes. Persoonia 10: 83-96.
19. CLÉMENÇON H., 1984 - Siderophile Granulation in den Basidien von Termitomyces. Mycologia Helvetica 1: 267-270.
20. CLÉMENÇON H., 1986 - Computer aided taxonomy of the staining species of Lyophyllum (Agaricales, Baysidiomycetes). La famiglia delle Tricholomataceae. Atti del Convegno Internat. 10-15 settembre 1984, borgo Val di Taro, Italy. Centro Studi per la Flora Mediterrranea: 35-61.
21. CLÉMENÇON H., 1997 - Anatomie der Hymenomyceten. Eine Einführung in die Cytologie und Plectologie der Krustenpilze, Porlinge, Keulenpilze, Leistlinge, Blätterpilze und Röhrlinge. F. Flück-Wirth, Teufen.
22. CLÉMENÇON H. & SMITH A.H., 1983 - New species of Lyophyllum (Agaricales) from North America and a key to the known staining species. Mycotaxon 18: 379-437.
23. CO-DAVID D., LANGEVELD D. & NOORDELOOS M.E., 2009 - Molecular phylogeny and spore evolution of Entolomataceae. Persoonia 23: 147-176.
24. COLUCCI J.A. & GALLI R., 2010 - Lyophyllum praslinense, una nuova specie delle isole Seychelles. Rivista di Micologia 53(1): 43-55.
25. CONTU M., CURTI N. & PERRONE L., 2011 - Lyophyllum sabinum sp. nov. - Lyophyllum silanum Contu and Lavorato, seconda stazione di crescita. Bolletino dell'Associazione Mycologia ed Ecologica Romana 83: 9-17.
26. CORNER E.J.H., 1966 - A monograph of Cantharelloid fungi. Oxford Univ. Press, London. 255 pp.
27. COURTECUISSE R. & DUHEM B., 1995 - Mushrooms and toadstools of Britain and Europe. Harper Collins Publishers, London, 480 pp.
28. DÄHNCKE R.M., CONTU M. & VIZZINI A., 2010 - New taxa in the genus Lyophyllum s.l. from La Palma (Canary Islands, Spain). Mycotaxon 111: 323-330.
29. DÄHNCKE R.M., CONTU M. & VIZZINI A., 2011 - Two new species of Lyophyllum s.l. (Basidiomycota, Agaricomycetes) from La Palma (Canary Islands, Spain). Mycotaxon 115: 63-71.
30. DAVEY L. & CURRAH R.S., 2006 - Interactions between mosses (Bryophyta) and fungi. Canadian Journal of Botany 84(10): 1509-1519.
31. DE BARY A., 1859 - Zur Kentniss einiger Agaricinen. Botanische Zeitung 17: 385-388, 393-398, 401-404.
32. DE ROMAN M., CLAVERIA V. & DE MIGUEL A.M., 2005 - A revision of the descriptions of ectomycorrhizas published since 1961. Mycological Research 109: 1063-1104.
33. DONK M.A., 1962 - The generic names proposed for the Agaricaceae. Beihefte zur Nova Hedwigia 5: 1-320.
34. DROGE W., 2002 - Free radicals in the physiological control of cell function. Physiological Reviews 82: 47-95.
35. GULDBERG-FRØSLEV T., AANEN D.K., ROSENDAHL S. & LÆSSØE T.W., 2003 - Phylogenetic relationships of Termitomyces and related taxa. Mycological Research 107: 1277-1286.
36. HALE M.E.JR., 1983 - The biology of Lichens. Third edition. Edward Arnold Ltd, London, 181 pp.
37. HARRIER L.A., 2001 - The arbuscular mycorrhizal symbiosis : a molecular review of the fungal dimension. Journal of Experimental Botany 52: 469-478.
38. HASEGAWA M., KISHINO H. & YANO T. 1985 - Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22: 160-174.
39. HAWKSWORTH D.L., 1984 - Fungi in culture. Nature 310: 18.
40. HAWKSWORTH D.L., 2001 - The magnitude of fungal diversity: 1.5 million species estimate revisited. Mycological Research 109: 1422-1432.
41. HEATH T.A, HEDTKE S.M. & HILLIS D.M., 2008 - Taxon sampling and the accuracy of phylogenetic analyses. Journal of Systematics and Evolution 46(3): 239-257.
42. HEIM R., 1977 - Termites et Champignons: Les champignons termitophiles d'Afrique noire et d'Asie meridionale (Collection Faunes et flores actuelles). Boubée, Paris, 207 pp.
43. HIBBETT D.S., 2002 - When good relationships go bad. Nature (News and Views) 419: 345-346.
44. HIBBETT D.S., GILBERT L.-B. & DONOGHUE M.J., 2000 - Evolutionary instability of ectomycorrhizal symbioses in basidiomycetes. Nature 407: 506-508.
45. HOFSTETTER V, CLÉMENÇON H., VILGALYS R. & MONCALVO J.-M., 2002 - Phylogenetic analyses of the Lyophyllaceae (Agaricales, Basidiomycetes) based on nuclear and mitochondrial rDNA sequences. Mycological Research 106(9): 1043-1059.
46. HOLEC J. & KOLARÍK M., 2013 - Ossicaulis lachnopus (Agaricales, Lyophyllaceae), a species similar to Ossicaulis lignatilis, is verified by morphological and molecular methods. Mycological Progress 12: 589-597.
47. HUELSENBECK J.P. & RONQUIST F., 2001 - MrBayes: Bayesian inference of phylogeny. Bioinformatics 17: 754-755.
48. HUGHES K.W., PETERSEN R.H., JOHNSON J.E., MONCALVO J-M., VILGALYS R., REDHEAD S.A., THOMAS T. & MCGHEE L.L., 2001 - Infrageneric phylogeny of Collybia s. str. based on sequences of ribosomal ITS and LSU regions. Mycological Research 105: 164-172.
49. HUTCHISON L.J., 1992 - Host range, geographical distribution and probable ecological status of Catathelasma imperiale in North America. Mycologia 84(3): 472-475.
50. HUTSON W. & LAW R., 1981 - Evolution of recombination in populations experiencing frequencydependent selection with a time delay. Proceedings of the Royal Society B: Biological Sciences 213: 345-359.
51. JAMES T.Y., KAUFF F., SCHOCH C., MATHENY P.B., HOFSTETTER V., COX C.J., CELIO G., GUIEDAN C., FRAKER E., MIADLIKOWSKA J., LUMBSCH T., RAUHUT A., REEB V., ARNOLD A.E., AMTOFT A., STAJICH J.E., HOSAKA K., SUNG G.-H., JOHNSON D., O'ROURKE B., BINDER M., CURTIS J.M., SLOT J.C., WANG Z., WILSON A.W., SCHÜßLER A., LONGCORE J.E., O'DONNELL K., MOZLEYSTANDRIDGE S., PORTER D., LETCHER P.M., POWELL M.J., TAYLOR J.W., WHITE M.M., GRIFFITH G.W., DAVIES D.R., SUGIYAMA J., ROSSMAN A.Y., ROGERS J.D., PFISTER D.H., HEWITT D., HANSEN K., HAMBLETON S., SHOEMAKER R.A., KOHLMEYER J., VOLKMANN-KOHLMEYER B., SPOTTS R.A., SERDANI M., CROUS P.W., HUGHES K.W., MATSUURA K., LANGER E., LANGER G., UNTEREINER W.A., LÜCKING R., BÜDEL B., GEISER D.M., APTROOT A., BUCK W.R., COLE M.S., DIEDERICH P., HILLIS D.M., PRINTZEN C., SCHMITT I., SCHULTZ M., YAHR R., ZAVARZIN A., HIBBETT D.S., LUTZONI F., MCLAUGHLIN D.J., SPATAFORA J.W. & VILGALYS R., 2006 - Reconstructing the early evolution of the fungi using a six gene phylogeny. Nature 443: 818-822.
52. JOHNSON R.A., THOMAS R.J., WOOD T.G. & SWIFT M.J., 1981 - The inoculation of the fungus comb in newly founded colonies of some species of the Macrotermitinae (Isoptera) from Nigeria. Journal of Natural History 15: 751-756.
53. JÜLICH W., 1981 - Higher taxa of basidiomycetes. Bibliotheca Mycologica 85: 5-485.
54. KALAMEES K., 1992 - Tricholomella, a new genus, with the distribution data of Tricholomella constrictum, comb. Nov. in east Europe and Asia. Persoonia 14(4): 445-447.
55. KALAMEES K., 2004 - Palearctic Lyophyllaceae (Tricholomatales) in northern and eastern Europe and Asia. Scripta Mycologica 18, Tartu.
56. KOBAYASHI H., DEGAWA Y. & YAMADA A., 2003 - Two new records of entolomatoid fungi associated with rosaceous plants from Japan. Mycoscience 44: 331-333.
57. KOBAYASHI H., YAMADA A., TOKUMASU S. & KAKISHIMA M., 2005 - Mycorrhizal morphology in Rosaceae and Ulmaceae produced by entolomatoid fungi in Japan. Abstract from the Mycological Society of American and Mycological Society of Japan Joint Meeting, Hilo, Hawaii, 30 Jul-5 Aug 2005, 144 pp.
58. KOSAKOVSKI S.L. & MUSE S.V., 2000 - HYPHY: hypothesis testing using phylogenies. Beta 1.7. Program in Statistical Genetics, Department of Statistics, North Carolina State University, Raleigh.
59. KÜHNER R., 1938 - Utilisation du carmin acétique dans la classification des agarics leucosporés. Bulletin Mensuel de la Société Linnéenne de Lyon 7: 204-211.
60. KÜHNER R., 1980 - Les Hyménomycètes agaricoïdes: Agaricales, Tricholomatales, Pluteales, Russulales : étude générale et classification. Bulletin Mensuel de la Société Linnéenne de Lyon 49 (num. spéc.), 1027 pp.
61. KÜHNER R. & ROMAGNESI H., 1978 - Flore analytique des champignons supérieurs, first ed., Masson, Paris, 554 pp.
62. KUO M., 2010 - Lyophyllum decastes. http://www.mushroomexpert.com/lyophyllum-decastes.html.
63. LANGE M. & SIVERTSEN S., 1966 - Some species of Lyophyllum, Rhodocybe, and Fayodia with rough spores. Nomenclature and taxonomic position. Botanisk Tidsskrift 62: 197-211.
64. LAROCHE J. & BOUSQUET J., 1999 - Evolution of the mitochondrial rps3 intron in perennial and annual angiosperms and homology to nad5 intron. Molecular Biology and Evolution 16: 441-452.
65. LARSSON E. & SUNDBERG H., 2011 - Lyophyllum shimeji, a species associated with lichen pine forest in northern Fennoscandia. Mycoscience 52: 289-295.
66. LAW R. & LEWIS D.H., 1983 - Biotic environements and the maintenance of sex - some evidence for mutualistic symbioses. Biological Journal of The Linnean Society 20: 249-276.
67. LIMPENS J., RAYMAKERS J.T.A.G., BAAR J., BERENDSE F. & ZIJLSTRA, J.D., 2003 - The interaction between epiphytic algae, a parasitic fungus and Sphagnum as affected by N and P. Oikos 103: 59-68.
68. LIU Y.J. & HALL B.D., 2004 - Body plan evolution of ascomycetes, as inferred from an RNA polymerase II phylogeny. Proceedings of the National Academy of Science of the United States of America 101: 4507-4512.
69. LUTZONI F. & PAGEL M., 1997 - Accelerated evolution as a consequence of transitions to mutualism. Proceedings of the National Academy of Science of the United States of America 94: 11422-11427.
70. LUTZONI F., PAGEL M. & REEB V., 2001 - Major fungal lineages are derived from lichen symbiotic ancestors. Nature 411: 937-940.
71. MADDISON W.P. & MADDISON D.R., 2003 - Mesquite: a modular system for evolutionary analysis. Version 1.0 Program. http://mesquiteproject.org
72. MASON-GAMER R.J. & KELLOGG E.A., 1996 - Testing for phylogenetic conflict among molecular data sets in the tribe Triticeae (Gramineae). Systematic Biology 45(4): 524-545.
73. MATHENY P.B., CURTIS J.M., HOFSTETTER V., AIME M.C., MONCALVO J.-M., GE Z-W., YANG Z-L., SLOT J.C., AMMIRATI J.F., BARONI T.J., BOUGHER N.L., HUGHES K.W., LODGE D.J., KERRIGAN R.W., SEIDL M.T., AANEN D.K., DENITIS M., DANIELE G.M., DESJARDIN D.E., KROPP B.R., NORVELL L.L., PARKER A., VELLINGA E.C., VILGALYS R. & HIBBETT D.S., 2006 - Major clades of Agaricales: a multi-locus phylogenetic overview. Mycologia 98(6): 984-997.
74. MATHENY P.B., LIU Y.J., AMMIRATI J.F. & HALL B.D., 2002 - Using RPB1 sequences to improve phylogeneic inference among mushrooms (Inocybe, Agaricales). American Journal of Botany 89(4): 688-698.
75. MATHENY P.B., WANG Z., BINDER M., CURTIS J. M., LIM Y.W., NILSSON R. H., HUGHES K.W., PETERSEN R.H., HOFSTETTER, V., AMMIRATI J. F., SCHOCH C., LANGER G. E., MCLAUGHLIN D. J., WILSON A.W., CRANE P.E., FRØSLEV T., GE1 Z-W., KERRIGAN R. W., SLOT J.C., VELLINGA E.C., YANG Z-L, AIME M.C., BARONI T.J., FISCHER M., HOSAKA K., MATSUURA K., SEIDL M.T., VAURAS J. & HIBBETT D.S., 2007 - Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi). Molecular Phylogenetics and Evolution 43(2): 430-451.
76. MIADLIKOWSKA J., KAUFF F., HOFSTETTER V., FRAKER E., GRUBE M., HAFELLNER J., REEB V., HODKINSON B.P., KUKWA M., LÜCKING R., HESTMARK G., OTALORA M.A.G., RAUHUT A., BÜDEL B., SCHEIDEGGER C., TIMDAL I., STENROOS S., BRODO I., PERLMUTTER G., ERTZ D., DIEDERICH P., LENDEMER J.C., SCHOCH C., TRIPP E., YAHR R., MAY P., GUEIDAN C., ARNOLD A.E., ROBERTSON C. & LUTZONI F., 2006 - New insights into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota) from phylogenetic analyses of three ribosomal RNA- and two protein-coding genes. Mycologia 98: 1090-1103.
77. MONCALVO J.M., 1991 - Analyse multivariée du complexe Lyophyllum decastes (Agaricales, Basidiomycètes) et révision de la section Difformia du genre Lyophyllum. Thèse de doctorat, Université de Lausanne, 197 pp.
78. MONCALO J.M., REHNER S.R. & VILGALYS R., 1993 - Systematics of Lyophyllum section Difformia based on evidence from culture studies and ribosomal DNA sequences. Mycologia 85: 788-794.
79. MONCALVO J.-M., VILGALYS R., REDHEAD S.A., JOHNSON J.E., JAMES T.Y., AIME M.C., HOFSTETTER V., VERDUIN S., LARSEN E., BARONI T.J., THORN R.G., JACOBSSON S., CLÉMENÇON H. & MILLER O.K., 2002 - One hundred and seventeen clades of euagarics. Molecular Phylogenetics and Evolution 23: 357-400.
80. MOREHOUSE E.A., JAMES T.Y., GANLEY A.R.D., VILGALYS R., BERGER L., MURPHY P.J. & LONGCORE J.E., 2003 - Multilocus sequence typing suggests the chytrid pathogen of amphibians is a recently emerged clone. Molecular Ecology 12: 395-403.
81. MOREIRA D. & PHILIPPE H., 2000 - Molecular phylogeny: pitfalls and progress. International Microbiology 3: 9-16.
82. MOSER M., 1978 - Die Röhrlinge und Blätterpilze. 4th ed. xiii, Gustav Fischer Verlag, Stuttgart, 532 pp.
83. NAKAGAWA S., 2004 - A farewell to Bonferroni: the problems of low statistical power and publication bias. Behavioral Ecology 15(6): 1044-1045.
84. NOBRE T. & AANEN D.K., 2010 - Dispersion and colonisation by fungus-growing termites. Vertical transmission of the symbiont helps, but then⋯? Communicative & Integrative Biology 3(3): 248-250.
85. NOBRE T., EGGLETON P. & AANEN D.K., 2010 - Vertical transmission as the key to the colonization of Madagascar by fungus-growing termites? Proceedings of the Royal Society B: Biological Sciences 277(1680): 359-65.
86. NOORDELOOS M.E., 2004 - Entoloma s. l. Funghi Europaei vol. 5a. Edizione Candusso, Italy.
87. OHTA A., 1994a - Some cultural characteristics of mycelia of a mycorrhizal fungus, Lyophyllum shimeji. Mycoscience 35: 83-87.
88. OHTA A., 1994b - Production of fruit-bodies of a mycorrhizal fungus, Lyophyllum shimeji, in pure culture. Mycoscience 35: 147-151.
89. PAGEL M., 1999 - The maximum likelihood approach to reconstructing ancestral character states of discrete characters on phylogenies. Systematic Biology 48: 612-622.
90. PEAY K.G., 2014 - Back to the future: natural history and the way forward in modern fungal ecology, Fungal Ecology, http://dx.doi.org/10.1016/j.funeco.2014.06.001
91. PEGLER D. N., 1977 - A preliminary agaric flora of East Africa. Kew Bulletin Additional Series 6: 1-615.
92. PERA J. & ALVAREZ I.F., 1995 - Ectomycorrhizal fungi of Pinus pinaster. Mycorrhiza 5: 193-200.
93. PIROZYNSKI K.A. & MALLOCH D.W., 1975 - The origin of land plants: a matter of mycotrophism. Biosystems 6: 153-164.
94. RAMBAUT A. & BROMHAM L., 1998 - Estimating divergence dates from molecular sequences. Molecular Biology and Evolution 15(4): 442-448.
95. REDECKER D., KODNER R. & GRAHAM L.E., 2000 - Glomalean fungi from the Ordovician. Science 289: 1920-1921.
96. REDHEAD S.A., 1981 - Parasitism of bryophytes by agarics. Canadian Journal of Botany 59: 63-67.
97. REDHEAD S.A., 1984 - Mycological observations 13-14: on Hypsizygus and Tricholoma. Transactions of the Mycological Society of Japan 25: 1-9.
98. REDHEAD S.A., 2012 - Nomenclatural novelties. Index Fungorum 8: 1.
99. REDHEAD S.A., 2014 - Nomenclatural novelties. Index Fungorum 202: 1.
100. REDHEAD S.A., AMMIRATI J.F., WALKER G.R., NORVELL L.L. & PUCCIO M.B., 1994 - Squamanita contortipes, the Rosetta Stone of a mycoparasitic agaric genus. Canadian Journal of Botany 72(12): 1812-1824.
101. REDHEAD S.A. & GINNS J.H., 1985 - A reappraisal of agaric genera associated with brown rots of wood. Transactions of the Mycological Society of Japan 26: 349-381.
102. REDHEAD S.A., HOFSTETTER V., CLÉMENÇON H., MONCALVO J.-M. & VILGALYS R., 2006 - Proposal to conserve a new type for Lyophyllum P. Karst. (Fungi, Basidiomycota, Agaricales). Taxon 55: 1034-1036.
103. REDHEAD S.A., LUTZONI F., MONCALVO J.-M. & VILGALYS R., 2002a - Phylogeny of agarics: partial systematics solutions for core omphalinoid genera in the Agaricales (euagarics). Mycotaxon 82: 151-168.
104. REDHEAD S.A., MONCALVO J-M., VILGALYS R. & LUTZONI F., 2002b - Phylogeny of agarics: partial systematics solutions for bryophilous omphalinoid agarics outside of the Agaricales (euagarics). Mycotaxon 83: 19-57.
105. REDHEAD S.A. & SEIFERT K.A., 2001 - Asterophora Ditmar ex Link 1809 versus Nyctalis Fries 1825, and the status of Ugola Adanson 1763. Taxon 50: 243-268.
106. ROKAS A., WILLIAMS B.L., KING N. & CARROLL S.B., 2003 - Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 423: 798-803.
107. ROULAND-LEFÈVRE C., DIOUF M. N., BRAUMAN A. & NEYRA M., 2002 - Phylogenetic relationships in Termitomyces (Family Agaricaceae) based on the nucleotide sequence of ITS: a first approach to elucidate the evolutionary history of the symbiosis between fungusgrowing termites and their fungi. Molecular Phylogenetics and Evolution 22: 423-429.
108. SAGARA N., 1973 - Proteophilous fungi and fireplace fungi. Transactions of the Mycological Society of Japan 14: 41-46.
109. SAGARA N., 1975 - Ammonia fungi - a chemoecological grouping of terrestrial fungi. Contributions of the Biology Laboratory of Kyoto University 24: 205-276.
110. SAITO T. & TANAKA N., 1999 - Cloning and sequence analysis of the glyceraldehyde-3-phosphate dehydrogenase gene from the ectomycorrhizal basidiomycete Lyophyllum shimeji. Mycoscience 40(6): 517-523.
111. SÁNCHEZ-GARCÍA M., MATHENY P.B., PALFNER G. & LODGE D.J. - Deconstructing the Tricholomataceae (Agaricales) and introduction of the new genera Albomagister, Corneriella, Pogonoloma and Pseudotricholoma. Taxon 63(5): 993-1007
112. SCHOCH C.L., SUNG G.-H., LÓPEZ-GIRÁLDEZ F., TOWNSEND J.P., MIADLIKOWSKA J., HOFSTETTER V., ROBBERTSE B., MATHENY P.B., KAUFF F., WANG Z., GUEIDAN C., ANDRIE R.M., TRIPPE K., CIUFETTI L.M., WYNNS A., FRAKER E., HODKINSON B.P., BONITO G., YAHR R., GROENEWALD J.Z., ARZANLOU M., DE HOOG G.S., CROUS P.W., HEWITT D., PFISTER D.H., PETERSON K., GRYZENHOUT M., WINGFIELD M. J., APTROOT A., SUH S.-O., BLACKWELL M., HILLIS D.M., GRIFFITH G.W., CASTLEBURY L.A., ROSSMAN A.Y., LUMBSCH H.T., LÜCKING R., BÜDEL B., RAUHUT A., DIEDERICH P., ERTZ D., GEISER D.M., HOSAKA K., INDERBITZIN P., KOHLMEYER J., VOLKMANNKOHLMEYER B., MOSTERT L., O'DONNELL K., SIPMAN H., ROGERS J.D., SHOEMAKER R.A., SUGIYAMA J., SUMMERBELL R.C., UNTEREINER W., JOHNSTON P., STENROOS S., ZUCCARO A., DYER P., CRITTENDEN P., COLE M.S., HANSEN K., TRAPPE J. M., LUTZONI F. & SPATAFORA, J.W., 2009 - The Ascomycota tree of life: A phylum wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits. Systematic Biology 58(2): 224-239.
113. SIMON E., 1987 - Lyophyllum palustre, a parasite on Sphagnum. Acta Biologica Hungarica 35: 165-174.
114. SINGER R., 1947 - New genera of fungi III. Mycologia 39(1): 77-79.
115. th ed. Koenigstein, Germany: Koeltz Scientific Books. 981 pp.
116. SPATAFORA J.W., SUNG G-H., JOHNSON D., O'ROURKE B., SERDANI M., SPOTTS R., LUTZONI F., HOFSTETTER V., MIADLIKOWSKA J., REEB V., GUEIDAN C., FRAKER E., LUMBSCH T., LÜCKING R., SCHMITT I., HOSAKA K., APTROOT A., ROUX C., MILLER A., GEISER D., HAFELLNER J., HESTMARK G., ARNOLD A.E., BÜDEL B., RAUHUT A., UNTEREINER W.A., COLE M.S., SCHEIDEGGER C., SCHULTZ M., SIPMAN H., SCHOCH C., 2006 - A five-gene phylogeny of Pezizomycotina. Mycologia 98: 1020-1030.
117. STAMATAKIS A., 2006 - RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics Application Note 22(21): 2688-2690.
118. SWOFFORD D.L., 2002 - PAUP∗. Phylogenetic Analysis Using Parsimony (∗and other methods). Version 4. Sinauer Associates, Sunderland, MA.
119. TEDERSOO L, MAY T.W. & MATTHEW E.S., 2010 - Ectomycorrhizal lifestyle in fungi: global diversity, distribution, and evolution of phylogenetic lineages. Mycorrhiza 20: 217-263.
120. THORN R.G., MONCALVO J.-M., VILGALYS R. & REDDY C.A., 2000 - Phylogenetic analyses and the distribution of nematophagy support a monophyletic Pleurotaceae within the polyphyletic pleurotoid-lentinoid fungi. Mycologia 92: 141-152.
121. UNTIEDT E. & MUELLER K., 1985 - Colonization of Sphagnum cells by Lyophyllum palustre. Canadian Journal of Botany 63: 757-761.
122. VISNOVSKY S.B., CUMMINGS N., GUERIN-LAGUETTE A., WANG Y., YAMADA A., KOBAYASHI H., KAWAI M. & PITMAN A.R., 2014 - Detection of the edible ectomycorrhizal fungus Lyophyllum shimeji colonising seedlings of cultivated conifer species in New Zealand. Mycorrhiza 24(6): 453-63.
123. VIZZINI A., 2014 - Nomenclatural novelties. Index Fungorum 200: 1.
124. VIZZINI A. & CONTU M., 2010 - Lyophyllum rosae-mariae sp. nov. (Basidiomycota, Agaricomycetes) from La Palma (Canary Islands, Spain). Mycosphere 1: 83-86.
125. VIZZINI A., CONTU M., ERCOLE E. & VOYRON S., 2012 - Rivaluazione e delimitazione del genere Aspidella (Agaricales, Amanitaceae), nuovamente separato da Amanita. Micologia e Vegetazione Mediterranea 27(2): 75-90.
126. VIZZINI A. & ERCOLE E., 2012 - Paralepistopsis gen. nov. and Paralepista (Basidiomycota, Agaricales). Mycotaxon 120: 253-267.
127. VIZZINI A., MUSUMECI E. & MURAT C., 2010 - Trichocybe, a new genus for Clitocybe puberula (Agaricomycetes, Agaricales). Fungal Diversity 42: 97-105.
128. WEI T.Z., TANG B.-H., YAO Y.-J. & PEGLER D.N., 2006 - A revision of Sinotermitomyces, a synonym of Termitomyces (Agaricales). Fungal Diversity 21: 225-237.
129. WEI Y.H. & LEE H.C., 2002 - Oxidative stress, mitochondrial DNA mutation, and impairment of antioxidant enzymes in aging. Experimental Biology and Medicine 227: 671-82.
130. WOLFE B.E., TULLOSS R.E. & PRINGLE A., 2012 - The irreversible loss of a decomposition pathway marks the single origin of an ectomycorrhizal symbiosis. PLoS ONE 7(7): e39597. DOI:10.1371/journal.pone.0039597
131. YAMADA A., 2008 - Commercial cultivation of Lyophyllum shimeji. Proceedings of the Sixth International Conference on Mushroom Biology and Mushroom Products, Bonn, Germany, 29 September-3 October, 2008: 197-202.
132. YAMADA A., OGURA T. & OHMASA M., 2001a - Cultivation of mushrooms of edible ectomycorrhizal fungi associated with Pinus densiflora by in vitro mycorrhizal synthesis: I. Primordium and basidiocarp formation in open-pot culture. Mycorrhiza 11(2): 59-66.
133. YAMADA A., OGURA T. & OHMASA M., 2001b - Cultivation of mushrooms of edible ectomycorrhizal fungi associated with Pinus densiflora by in vitro mycorrhizal synthesis: II. Morphology of mycorrhizas in open-pot soil. Mycorrhiza 11(2): 67-81.
134. YU X.-D., DENG H. & YAO Y.-J., 2011 - Leucocalocybe, a new genus for Tricholoma mongolicum (Agaricales, Basidiomycota). African Journal of Microbiology Research 5(31): 5750-5756.