High concentration of basidiolichens in a single family of agaricoid mushrooms (Basidiomycota: Agaricales: Hygrophoraceae)

Mycological Research

Volumn 113, Issue 10, 2009, Pages 1154-1171

  Lawrey, James D ^a   Lücking, Robert ^b   Sipman, Harrie J M ^c   Chaves, José L ^d   Redhead, Scott A ^e   Bungartz, Frank ^f   Sikaroodi, Masoumeh ^a   Gillevet, Patrick M ^a  

^a GEORGE MASON UNIVERSITY   (United States)

^b FIELD MUSEUM OF NATURAL HISTORY   (United States)

^c Botanisches Museum Berlin Dahlem   (Germany)

^d INSTITUTO NACIONAL DE BIODIVERSIDAD   (Costa Rica)

^e AGRICULTURE AND AGRI FOOD CANADA   (Canada)

^f Botany Department   (Ecuador)

Author keywords

Agaricomycetes; Basidiomycota; Lichens; Molecular phylogenetics; Symbiosis

Indexed keywords

FUNGAL PROTEIN;

ECTOMYCORRHIZA; LICHEN; MUSHROOM; NEW GENUS; NUTRITION; PARSIMONY ANALYSIS; PHYLOGENETICS; SPECIES DIVERSITY;

AGARICALES; AMINO ACID SEQUENCE; ARTICLE; BASIDIOMYCETES; CHEMISTRY; CLASSIFICATION; GENETICS; LICHENS; MOLECULAR EVOLUTION; MOLECULAR GENETICS; PHYLOGENY; SEQUENCE ALIGNMENT;

AGARICALES; AMINO ACID SEQUENCE; BASIDIOMYCOTA; EVOLUTION, MOLECULAR; FUNGAL PROTEINS; LICHENS; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ALIGNMENT;

ACANTHOLICHEN; AGARICALES; ARRHENIA; ATHELIA (BASIDIOMYCETE); BASIDIOMYCOTA; CYANOBACTERIA; DICTYONEMA; FUNGI; HYGROPHORACEAE; LICHENOMPHALIA;

EID: 70350755596     PISSN: 09537562     EISSN: 14698102     Source Type: Journal    
DOI: 10.1016/j.mycres.2009.07.016     Document Type: Article

References (74)

1. Binder M., Hibbett D.S., Larsson K.-H., Larsson E., Langer E., and Langer G. The phylogenetic distribution of resupinate forms across the major clades of mushroom-forming fungi (homobasidiomycetes). Systematics and Biodiversity 3 (2005) 113-157
2. Bodensteiner P., Binder M., Moncalvo J.-M., Agerer R., and Hibbett D.S. Phylogenetic relationships of cyphelloid homobasidiomycetes. Molecular Phylogenetics and Evolution 33 (2004) 501-515
3. Chaves J.L., Lücking R., Sipman H.J.M., Umaña L., and Navarro E. A first assessment of the Ticolichen biodiversity inventory in Costa Rica: the genus Dictyonema (Polyporales: Atheliaceae). Bryologist 107 (2004) 242-247
4. Christiansen M.P. Danish resupinate fungi. Part II. Homobasidiomycetes. Dansk Botanisk Arkiv 19 (1960) 56-388
5. Coppins B.J., and James P.W. A British species of Dictyonema. Lichenologist 11 (1979) 103-108
6. Cunningham C.W., Zhu H., and Hillis D.M. Best-fit maximum likelihood models for phylogenetic inference: empirical tests with known phylogenies. Evolution 52 (1998) 978-987
7. Diederich P. The lichenicolous heterobasidiomycetes. Bibliotheca Lichenologica 61 (1996) 1-198
8. Diederich P., and Lawrey J.D. New lichenicolous, muscicolous, corticolous and lignicolous taxa of Burgoa s.l. and Marchandiomyces s.l. (anamorphic Basidiomycota), a new genus for Omphalina foliacea, and a catalogue and a key to the non-lichenized, bulbilliferous basidiomycetes. Mycological Progress 6 (2007) 61-80
9. Eriksson J., and Ryvarden L. Aleurodiscus - Confertobasidium. The Corticiaceae of North Europe vol. 2 (1973), Fungiflora, Oslo
10. Ertz D., Lawrey J.D., Sikaroodi M., Gillevet P.M., Fischer E., Killmann D., and Sérusiaux E. A new lineage of lichenized basidiomycetes inferred from a two-gene phylogeny: the Lepidostromataceae with three species from the tropics. American Journal of Botany 95 (2008) 1548-1556
11. Felsenstein J. Inferring Phylogenies (2004), Sinauer Associates, Inc., Sunderland, Massachusetts
12. Fischer E., Ertz D., Killmann D., and Sérusiaux E. Two new species of Multiclavula (lichenized basidiomycetes) from savanna soils in Rwanda (East Africa). Botanical Journal of the Linnean Society 155 (2007) 457-465
13. Gargas A., DePriest P.T., Grube M., and Tehler A. Multiple origins of lichen symbioses in fungi suggested by SSU rDNA phylogeny. Science 268 (1995) 1492-1495
14. Gaya E., Navarro-Rosinés P., Llimona X., Hladun N., and Lutzoni F. Phylogenetic reassessment of the Teloschistaceae (lichen-forming Ascomycota, Lecanoromycetes). Mycological Research 112 (2008) 528-546
15. Geml J., Davis D.D., and Geiser D.M. Phylogenetic analyses reveal deeply divergent species lineages in the genus Sphaerobolus (Phallales: Basidiomycota). Molecular Phylogenetics and Evolution 35 (2005) 313-322
16. Goldman N., Anderson J.P., and Rodrigo A.G. Likelihood-based tests of topologies in phylogenetics. Systematic Biology 49 (2000) 652-670
17. Haugen P., Reeb V., Lutzoni F., and Bhattacharya D. The evolution of homing endonuclease genes and group I introns in nuclear rDNA. Molecular Biology and Evolution 21 (2004) 129-140
18. Hawksworth D.L. A new name for Dictyonema pavonium (Swartz) Parmasto. Lichenologist 20 (1988) 101
19. Hibbett D.S., Binder M., Bischoff J.F., Blackwell M., Cannon P.F., Eriksson O.E., Huhndorff S., et al. A higher-level phylogenetic classification of the Fungi. Mycological Research 111 (2007) 509-547
20. Hibbett D.S., Gilbert L.B., and Donoghue M.J. Evolutionary instability of ectomycorrhizal symbioses in basidiomycetes. Nature 407 (2000) 506-508
21. Hibbett D.S., Pine E.M., Langer E., Langer G., and Donoghue M.J. Evolution of gilled mushrooms and puffballs inferred from ribosomal DNA sequences. Proceedings of the National Academy of Sciences, USA 94 (1997) 12002-12006
22. Hibbett D.S., and Thorn R.G. Basidiomycota: Homobasidiomycetes. In: McLauglin D.J., McLauglin E.G., and Lemke P.A. (Eds). Systematics and Evolution. The Mycota vol. VII (part B) (2001), Springer-Verlag, Berlin, Germany 121-167
23. Jørgensen P.M. Acantholichen pannarioides, a new basidiolichen from South America. Bryologist 101 (1998) 444-447
24. Jülich W. Monographie der Athelieae (Corticiaceae, Basidiomycetes). Willdenowia Beiheft 7 (1972) 1-283
25. Kauff F., Miadlikowska J., and Lutzoni F. ARC - a program for ambiguous regions coding, distributed by the authors (2003), Dept. of Biology, Duke University, USA. http://www.lutzonilab.net/pages/download.shtml
26. Kranner I., and Lutzoni F. Evolutionary consequences of transition to a lichen symbiotic state and physiological adaptation to oxidative damage associated with poikilohydry. In: Lerner H.R. (Ed). Plant Responses to Environmental Stresses (1999), Marcel Dekker, Inc., New York, NY 22-109
27. Larkin M.A., Blackshields G., Brown N.P., Chenna R., McGettigan P.A., McWilliam H., Valentin F., Wallace I.M., Wilm A., Lopez R., Thompson J.D., Gibson T.J., and Higgins D.G. ClustalW and ClustalX version 2. Bioinformatics 23 (2007) 2947-2948
28. Larsson K.-H. Re-thinking the classification of corticioid fungi. Mycological Research 111 (2007) 1040-1063
29. Larsson K.-H., Parmasto E., Fischer M., Langer E., Nakasone K.K., and Redhead S.A. Hymenochaetales: a molecular phylogeny for the hymenochaetoid clade. Mycologia 98 (2006) 926-936
30. Lawrey J.D., Binder M., Diederich P., Molina M.C., Sikaroodi M., and Ertz D. Phylogenetic diversity of lichen-associated homobasidiomycetes. Molecular Phylogenetics and Evolution 44 (2007) 778-789
31. Lawrey J.D., Diederich P., Sikaroodi M., and Gillevet P.M. Remarkable nutritional diversity of basidiomycetes in the Corticiales, including a new foliicolous species of Marchandiomyces (anamorphic Basidiomycota, Corticiaceae) from Australia. American Journal of Botany 95 (2008) 816-823
32. Liò P., and Goldman N. Models of molecular evolution and phylogeny. Genome Research 8 (1998) 1233-1244
33. Lodge D.J., Matheny P.B., Cantrell S.A., Moncalvo J.-M., Vilgalys R., and Redhead S. Delineating the Hygrophoraceae: character myths vs. gene trees. Mycological Society of America Annual Meeting Abstracts. Inoculum 57 (2006) 27
34. Lücking R, 2008. Foliicolous Lichenized Fungi. Flora Neotropica Monograph 103 pp. 1-867.
35. Lücking R, Lawrey JD, Sikaroodi M, Gillevet PM, Chaves JL, Sipman HJM, Bungartz F, 2009. Do lichens domesticate photobionts like farmers domesticate crops? Evidence from a previously unrecognized lineage of filamentous cyanobacteria. American Journal of Botany 96: 1409-1418.
36. Lutzoni F. Phylogeny of lichen- and non-lichen-forming omphalinoid mushrooms and the utility of testing for combinability among multiple datasets. Systematic Biology 46 (1997) 373-406
37. Lutzoni F., and Vilgalys R. Omphalina (Basidiomycota, Agaricales) as a model system for the study of coevolution in lichens. Cryptogamic Botany 5 (1995) 71-81
38. Lutzoni F., Wagner P., Reeb V., and Zoller S. Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violating positional homology. Systematic Biology 49 (2000) 628-651
39. Lutzoni F., Pagel M., and Reeb V. Major fungal lineages are derived from lichen symbiotic ancestors. Nature 411 (2001) 937-940
40. Lutzoni F., Kauff F., Cox C.J., McLaughlin D., Celio G., Dentinger B., Padamsee M., et al. Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits. American Journal of Botany 91 (2004) 1446-1480
41. Maddison D.R., and Maddison W.P. MacClade 4.08: analysis of phylogeny and character evolution (2005), Sinauer Associates, Sunderland, Massachusetts
42. Maddison W.P., and Maddison D.R. Mesquite: a modular system for evolutionary analysis, version 2.5 (2008). http://mesquiteproject.org
43. Malloch D.W., Pirozynski K.A., and Raven P.H. Ecological and evolutionary significance of mycorrhizal symbioses in vascular plants (a review). Proceedings of the National Academy of Sciences, USA 77 (1980) 2113-2118
44. Marcano V., Morales Méndez A., Sipman H.J.M., and Calderon L. A first checklist of the lichen-forming fungi of the Venezuelan Andes. Tropical Bryology 12 (1996) 193-235
45. Matheny P.B., et al. Major clades of Agaricales: a multilocus phylogenetic overview. Mycologia 98 (2006) 982-995
46. Mason-Gamer R.J., and Kellogg E.A. Testing for phylogenetic conflict among molecular datasets in the tribe Triticeae (Gramineae). Systematic Biology 45 (1996) 524-545
47. Miadlikowska J., Lutzoni F., Goward T., Zoller S., and Posada D. New approach to an old problem: gap-rich regions from ITS and rDNA large-subunit are incorporated into phylogenetic analyses to resolve the Peltigera canina species complex. Mycologia 95 (2003) 1181-1203
48. Moncalvo J.-M., Lutzoni F., Rehner S.A., Johnson J., and Vilgalys R. Phylogenetic relationships of agaric fungi based on nuclear large subunit ribosomal DNA sequences. Systematic Biology 49 (2000) 278-305
49. Moncalvo J.-M., Vilgalys R., Redhead S.A., Johnson J.E., James T.Y., Aime M.C., Hofstetter V., Verduin A.J.W., Larsson E., Baroni T.J., Thorn R.G., Jacobsson S., Clémençon H., and Miller O.K. One hundred and seventeen clades of euagarics. Molecular Phylogenetics and Evolution 23 (2002) 357-400
50. Nelsen M.P., Lücking R., Umaña L., Trest M.T., Will-Wolf S., Chaves J.L., and Gargas A. Multiclavula ichthyoclavula (Fungi: Basidiomycota: Cantharellales: Clavulinaceae), a remarkable new basidiolichen from Costa Rica. American Journal of Botany 94 (2007) 1289-1296
51. Oberwinkler F. Primitive Basidiomyceten Revision einiger Formenkreise von Basidienpilzen mit plastischer Basidie. Sydowia (Sr. II) 19 (1965) 1-72
52. Oberwinkler F. Die Gattungen der Basidiolichenen. Berichte der Deutschen Botanischen Gesellschaft, Neue Folge 4 (1970) 139-169
53. Oberwinkler F. Fungus-alga interactions in basidiolichens. Nova Hedwigia 79 (1984) 739-774
54. Oberwinkler F. Evolution in functional groups in Basidiomycetes (Fungi). In: Schulze E.-D., and Mooney H.A. (Eds). Biodiversity and Ecosystem Function (1993), Springer-Verlag, New York 143-163
55. Oberwinkler F. Basidiolichens. In: Hock B. (Ed). Fungal Associations. The Mycota vol. IX (2001), Springer-Verlag, Berlin, Heidelberg, New York 211-225
56. Palice Z., Schmit I., and Lumbsch H.T. Molecular data confirm that Omphalina foliacea is a lichen-forming basidiomycete. Mycological Research 109 (2005) 447-451
57. Parmasto E. The genus Dictyonema ('Thelephorolichenes'). Nova Hedwigia 29 (1978) 99-144
58. Petersen R.H. Notes on clavarioid fungi. VII. Redefinition of the Clavaria vernalis-C. mucida complex. American Midland Naturalist 77 (1967) 205-221
59. Poelt J. Basidienflechten, eine in den Alpen bisher vollständing übersehene Pflanzengruppe. Verein zum Schutze der Alpenpflanze und Tiere 40 (1975) 1-16
60. Posada D., and Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
61. Redhead S.A. Parasitism of bryophytes by agarics. Canadian Journal of Botany 59 (1981) 63-67
62. Redhead S.A. Arrhenia and Rimbachia, expanded generic concepts, and a reevaluation of Leptoglossum with emphasis on muscicolous North American taxa. Canadian Journal of Botany 62 (1984) 865-892
63. Redhead S.A., and Kuyper T.W. Lichenized agarics: taxonomic and nomenclatural riddles. In: Laursen G.A., Ammirati J.F., and Redhead S.A. (Eds). Arctic and Alpine Mycology 2 (1987), Plenum Press, New York, NY 319-348
64. Redhead S.A., Lutzoni F., Moncalvo J.M., and Vilgalys R. Phylogeny of agarics: partial systematics solutions for core omphalinoid genera in the Agaricales (Euagarics). Mycotaxon 83 (2002) 19-57
65. Redhead S.A., Moncalvo J.-M., Vilgalys R., and Lutzoni F. Phylogeny of agarics: partial systematics solutions for bryophilous omphalinoid agarics outside of the Agaricales. Mycotaxon 82 (2002) 151-168
66. Reeb V., Haugen P., Bhattacharya D., and Lutzoni F. Evolution of Pleopsidium (lichenized Ascomycota) S943 group I introns and the phylogeography of an intron-encoded putative homing endonuclease. Journal of Molecular Evolution 64 (2007) 285-298
67. Rodríguez F., Oliver J.L., Marín A., and Medina J.R. The general stochastic model of nucleotide substitution. Journal of Theoretical Biology 142 (1990) 485-501
68. Ronquist F., and Huelsenbeck J.P. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19 (2003) 1572-1574
69. Schoch C., Sung G.-H., López-Giráldez F., Townsend J.P., Miadlikowska J., Hofstetter V., Robbertse B., et al. The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits. Systematic Biology 58 (2009) 224-239
70. Shimodaira H., and Hasegawa M. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 16 (1999) 114-116
71. Swofford D.L. PAUP*: phylogenetic analysis using parsimony (*and other methods), version 4.0b510 (2002), Sinauer Associates, Sunderland, Massachusetts
72. Vellinga E. Ecology and distribution of lepiotaceous fungi (Agaricaceae)-a review. Nova Hedwigia 78 (2004) 273-299
73. Yang Z., Goldman N., and Friday A. Comparison of models for nucleotide substitution used in maximum-likelihood phylogenetic estimation. Molecular Biology and Evolution 11 (1994) 316-324
74. Zwickl DJ, 2006. Genetic algorithm application for the phylogenetic analyses of large biological sequence datasets under maximum likelihood. Ph.D. dissertation, University of Texas at Austin, Texas.