A systematic, morphological and ecological overview of the clavariaceae (Agaricales)

Mycologia

Volumn 105, Issue 4, 2013, Pages 896-911

  Birkebak, Joshua M ^a   Mayor, Jordan R ^b   Martin Ryberg, K ^a   Brandon Matheny, P ^a  

^a UNIVERSITY OF TENNESSEE   (United States)

^b SMITHSONIAN TROPICAL RESEARCH INSTITUTE   (Panama)

Author keywords

Biotrophy; Evolution; Morphology; Nutritional mode; Taxonomy

Indexed keywords

ANCESTRY; CLADISTICS; EVOLUTIONARY BIOLOGY; MOLECULAR ANALYSIS; MORPHOLOGY; MUSHROOM; PHYLOGENY; TAXONOMY; TYPE SPECIMEN;

AGARICALES; ARTICLE; BIOTROPHY; CLASSIFICATION; CYTOLOGY; ECOLOGY; EVOLUTION; GENETICS; MORPHOLOGY; NUTRITIONAL MODE; PHYLOGENY; TAXONOMY;

BIOTROPHY; EVOLUTION; MORPHOLOGY; NUTRITIONAL MODE; TAXONOMY;

AGARICALES; ECOLOGY; PHYLOGENY;

EID: 84881343296     PISSN: 00275514     EISSN: 15572536     Source Type: Journal    
DOI: 10.3852/12-070     Document Type: Article

References (80)

1. Agerer R, Christan J, Mayr C, Hobbie E. 2012. Isotopic signatures and trophic status of Ramaria. Mycol Prog 11:47-59, doi:10.1007/s11557-010-0726-x
2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. J Mol Biol 215:403- 410.
3. Arnolds E. 1986. Notes on Hygrophoraceae IX. Camarophyllopsis Herink, an older name for Hygrotrama Sing. Mycotaxon 25:639-644.
4. Baldocchi DD, Bowling DR. 2003. Modeling the discrimination of 13CO2 above and within a temperate broadleaf forest canopy on hourly to seasonal time scales. Plant, Cell, Environ 26:231-244, doi:10.1046/ j.1365-3040.2003.00953.x
5. Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. 2011. GenBank. Nucleic Acids Res 39(suppl 1):D32-D37, doi:10.1093/nar/gkq1079
6. Bergero R, Perotto S, Girlanda M, Vidano G, Luppi AM. 2000. Ericoid mycorrhizal fungi are common root associates of a Mediterranean ectomycorrhizal plant (Quercus Ilex). Mol Ecol 9:1639-1649, doi:10.1046/ j.1365-294x.2000.01059.x
7. Binder M, Larsson K-H, Matheny PB, Hibbet DS. 2010. Amylocorticiales ord. nov. and Jaapiales ord. nov.: early-diverging clades of Agaricomycetidae dominated by corticioid forms. Mycologia 102: 865- 880, doi:10.3852/09-288
8. Boertmann D. 2002. Index Hygrocybearum. A catalogue to names and potential names in tribus Hygrocybeae Kühner (Tricholomatales, Fungi). Biblioth Mycol 192: 1-168.
9. Bowling DR, Pataki DE, Randerson JT. 2008. Carbon isotopes in terrestrial ecosystem pools and CO2 fluxes. New Phytol 178:24-40, doi:10.1111/j.1469-8137.2007. 02342.x
10. Brearley FQ, Scholes JD, See LS. 2005. Nitrogen nutrition and isotopic discrimination in tropical ectomycorrhizal fungi. Res Microbiol 156:184-190, doi:10.1016/j.resmic. 2004.09.003
11. Burke DJ, Martin KJ, Rygiewicz PT, Topa MA. 2005. Ectomycorrhizal fungi identification in single and pooled root samples: terminal restriction fragment length polymorphism (TRFLP) and morphotyping compared. Soil Biol Biochem 37: 1683- 1694, oi:10.1016/j.soilbio.2005.01.028
12. Burke DJ, Martin KJ, Rygiewicz PT, Topa MA. 2006. Relative abundance of ectomycorrhizas in a managed loblolly pine (Pinus taeda) genetics plantation as determined through terminal restriction fragment length polymorphism profiles. Can J Bot 84:924-932, doi:10.1139/b06-046
13. Corner EJH. 1950. A monograph of Clavaria and allied genera. Ann Bot Mem 1:1-750.
14. Corner EJH. 1970. A monograph of Clavaria and allied genera. (Suppl.) Beihefte Zur Nova Hedwigia 33:1-299.
15. Craine JM, Elmore AJ, Aidar MPM, Bustamante M, Dawson TE, Hobbie EA, Kahmen A, Mack MC, McLauchlan KK, Michelsen A, Nardoto GB, Pardo LH, Peñuelas J, Reich PB, Schuur EAG, Stock WD, Templer PH, Virginia RA, Welker JM, Wright IJ. 2009. Global patterns of foliar nitrogen isotopes and their relationships with climate, mycorrhizal fungi, foliar nutrient concentrations and nitrogen availability. New Phytol 183:980-992, doi:10.1111/j.1469-8137.2009.02917.x
16. Dentinger BTM, McLaughiln DJ. 2006. Reconstructing the Clavariaceae using nuclear large subunit rDNA sequences and a new genus segregated from Clavaria. Mycologia 98:946-962, doi:10.3852/mycologia.98.5.746
17. Dijkstra P, LaViolette CM, Coyle JS, Doucett RR, Schwartz E, Hart SC, Hungate BA. 2008. 15N enrichment as an integrator of the effects of C and N on microbial metabolism and ecosystem function. Ecol Lett 11:1-9, doi:10.1111/j.1461-0248.2008.01154.x
18. Dodd JL. 1972. The genus Clavicorona. Mycologia 64:737- 773, doi:10.2307/3757931
19. Donk MA. 1964. A conspectus of the families of Aphyllophorales. Persoonia 3:199-324.
20. Englander L, Hull RJ. 1980. Reciprocal transfer of nutrients between ericaceous plants and a Clavaria sp. New Phytol 84:661-667, doi:10.1111/j.1469-8137.1980. tb04779.x
21. García-Sandoval R, Cifuentes J, De Luna E, Estrada-Torres A, Villegas M. 2005. A phylogeny of Ramariopsis and allied taxa. Mycotaxon 94:265-292.
22. Gebauer G, Dietrich P. 1993. Nitrogen isotope ratios in different compartments of a mixed stand of spruce, larch and beech trees and of understorey vegetation including fungi. Isotopes Environ Health Stud 29:35- 44, doi:10.1080/10256019308046133
23. Gleixner G, Danier HJ, Werner RA, Schmidt HL. 1993. Correlations between the 13 C content of primary and secondary plant products in different cell compartments and that in decomposing basidiomycetes. Plant Physiol 102:1287-1290.
24. Griffith GW, Easton GL, Jones AW. 2002. Ecology and diversity of waxcaps (Hygrocybe spp.) fungi. Bot J Scot 54:7-22, doi:10.1080/03746600208685025
25. Harrison KA. 1972. Pistillaria fusiformis. Mycologia 64:208- 212, doi:10.2307/3758029
26. Heath TA, Hedtke SM, Hillis DM. 2008. Taxon sampling and the accuracy of phylogenetic analyses. J Syst Evol 46:239-257.
27. Helser LR, Smith AH. 1963. North American species of Hygrophorus. Knoxville: Univ. Tennessee Press. 416 p.
28. Henn MR, Chapela IH. 2001. Ecophysiology of 13C and 15N isotopic fractionation in forest fungi and the roots of the saprotrophic-mycorrhizal divide. Oecologia 128: 480-487, doi:10.1007/s004420100680
29. Hjortstam K, Larsson K-H. 1995. A new species of Hyphodontiella. Mycotaxon 56:473-478.
30. Hobbie EA, Agerer R. 2009. Nitrogen isotopes in ectomycorrhizal sporocarps correspond to belowground exploration types. Plant Soil 327:71-83, doi:10.1007/ s11104-009-0032-z
31. Hobbie EA, Colpaert JV, White MW, Ouimette AP, Macko SA. 2008. Nitrogen form, availability, and mycorrhizal colonization affect biomass and nitrogen isotope patterns in Pinus sylvestris. Plant Soil 310:121-136, doi:10.1007/s11104-008-9637-x
32. Hobbie EA, Jumpponen A, Trappe J. 2005. Foliar and fungal 15N; 14N ratios reflect development of mycorrhizae and nitrogen supply during primary succession: testing analytical models. Oecologia 146:258-268, doi:10.1007/ s00442-005-0208-z
33. Hobbie EA, Macko SA, Shugart HH. 1999. Insights into nitrogen and carbon dynamics of ectomycorrhizal and saprotrophic fungi from isotopic evidence. Oecologia 118:353-360, doi:10.1007/s004420050736
34. Hobbie JE, Hobbie EA. 2006. 15N in symbiotic fungi and plants estimates nitrogen and carbon flux rates in Arctic tundra. Ecology 87:816-822, doi:10.1890/0012- 9658(2006)87[816:NISFAP]2.0.CO;2
35. Högberg P, Högberg MN, Quist ME, Ekblad A, Nasholm T. 1999a. Nitrogen isotope fractionation during nitrogen uptake by ectomycorrhizal and non-mycorrhizal Pinus sylvestris. New Phytol 142:569-576, doi:10.1046/j.1469- 8137.1999.00404.x
36. Högberg P, Plamboeck AH, Taylor AFS, Fransson PMA. 1999b. Natural 13C abundance reveals trophic status of fungi and host-origin of carbon in mycorrhizal fungi in mixed forests. PNAS, USA 96:8534-8539, doi:10.1073/ pnas.96.15.8534
37. Jameson A. 1973. Characterization of the pigments of Clavulinopsis fusiformis [master's thesis]. Knoxville: Univ. Tennessee Press. 51 p.
38. Jü lich W. 1981. Higher taxa of Basidiomycetes. Bibl Mycol 85:1-485.
39. Jü lich W. 1985. Bemerkungen zu Clavulinopsis und Ramariopsis. Intern J Mycol Lichenol 2:119-122.
40. Kirk PM, Cannon PF, Minter DW, Staplers JA. 2008. Dictionary of the Fungi. 10th ed. Wallingford, UK: CAB International. 784 p.
41. Kohzu A, Tateishi T, Yamada A, Koba K, Wada E. 2000. Nitrogen isotope fractionation during nitrogen transport from ectomycorrhizal fungi, Suillus granulatus, to the host plant, Pinus densiflora. Jap Soc Soil Sci Plant Nutrition 46:733-739, doi:10.1080/00380768.2000. 10409138
42. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG. 2007. Clustal W and Clustal X. Version 2.0. Bioinformatics 23: 2947-2948, doi:10.1093/bioinformatics/btm404
43. Larsson K-H. 2007. Re-thinking the classification of corticioid fungi. Mycol Res 111:1040-1063, doi:10.1016/ j.mycres.2007.08.001
44. Larsson K-H, Læssøe T, Yorou NS, Ryvarden L. 2011. The phylogenetic position of Hydnodon and Scytinopogon. Mycological Society of American meeting, Fairbanks, Alaska, 2-5 Aug 2011 (abstract).
45. Larsson K-H, Larsson E, Kõljalg U. 2004. High phylogenetic diversity among corticioid homobasidiomycetes. Mycol Res 108:983-1002, doi:10.1017/S0953756204000851
46. Lickey EB, Hughes KW, Petersen RH. 2003. Phylogenetic and taxonomic studies in Artomyces and Clavicorona (Homobasidiomycetes: Auriscalpiaceae). Sydowia 55: 118-254.
47. Lilleskov EA, Hobbie EA, Fahey TJ. 2002. Ectomycorrhizal fungal taxa differing in response to nitrogen deposition also differ in pure culture organic nitrogen use and natural abundance of nitrogen isotopes. New Phytol 154:219-231, doi:10.1046/j.1469-8137.2002. 00367.x
48. Lindahl BD, Ihrmark K, Boberg J, Trumbore SE, Hogberg P, Stenlid J, Finlay RD. 2007. Spatial separation of litter decomposition and mycorrhizal nitrogen uptake in a boreal forest. New Phytol 173:611-620, doi:10.1111/ j.1469-8137.2006.01936.x
49. Maddison DR, Maddison WP. 2005. MacClade 4: analysis of phylogeny and character evolution. Version 4.08 for OS X. Sunderland, Massachusetts: Sinauer Associates.
50. Maddison WP, Maddison DR. 2011. Mesquite 2.75: a modular system for evolutionary analysis. http:// mesquiteproject.org
51. Marshal JD, Brooks JR, Lajtha K. 2007. Sources of variation in the stable isotopic composition of plants. In: Michener R, ed. Stable isotopes in ecology and environmental science. 2nd ed. Hoboken, New Jersey: Wiley-Blackwell Publishing. p 22-60.
52. Matheny PB, Curtis JM, Hofstetter V, Aime MC, Moncalvo JM, Ge ZW, Yang ZL, Slot JC, Ammirati JF, Baroni TJ, Bougher NL, Hughes KW, Lodge DJ, Kerrigan RW, Seidl MT, Aanen DK, DeNitis M, Daniele G, Desjardin DE, Kropp BR, Norvell LL, Parker A, Vellinga EC, Vilgalys R, Hibbett DS. 2006. Major clades of Agaricales: a multilocus phylogenetic overview. Mycologia 98:982- 995, doi:10.3852/mycologia.98.6.982
53. Matheny PB, Kropp BR. 2001. A revision of the Inocybe lanuginosa group and allied species in North America. Sydowia 53:93-139.
54. Mayor JR, Schuur EAG, Henkel TW. 2009. Elucidating the nutritional dynamics of fungi using stable isotopes. Ecol Lett 12:171-183, doi:10.1111/j.1461-0248.2008. 01265.x
55. Nilsson RH, Kristiansson E, Ryberg M, Larsson KH. 2005. Approaching the taxonomic affiliation of unidentified sequences in public databases-an example from the mycorrhizal fungi. BMC Bioinformatics 6.
56. Nilsson RH, Ryberg M, Sjö kvist E, Abarenkov K. 2011. Rethinking taxon sampling in the light of environmental sequencing. Cladistics 27:197-203, doi:10.1111/j.1096- 0031.2010.00336.x
57. Pegler DN, Young TWK. 1985. Basidiospore structure in Ramariopsis (Clavariaceae). Trans Br Mycol Soc 84: 207-214, doi:10.1016/S0007-1536(85)80071-1
58. Petersen RH. 1966. Notes on Clavarioid fungi V. Emendation and additions to Ramariopsis. Mycologia 58:201- 207, doi:10.2307/3756960
59. Petersen RH. 1967. Notes on Clavarioid fungi VII. Redefinition of the Clavaria vernalis-C. mucida complex. Am Midl Nat 77:205-221, doi:10.2307/2423440
60. Petersen RH. 1978. Notes on Clavarioid fungi XV. Reorganization of Clavaria, Clavulinopsis and Ramariopsis. Mycologia 70:660-671, doi:10.2307/3759402
61. Petersen RH. 1986. Notes on Clavarioid fungi XIX. Colored illustrations of selected taxa, with comments on Cantharellus. Nova Hedwigia 42:151-160.
62. Petersen RH. 1988. The clavarioid fungi of New Zealand. Wellington: DSIR Bull 236. 170 p.
63. Pine EM, Hibbett DS, Donoghue MJ. 1999. Phylogenetic relationships of cantharelloid and clavarioid Homobasidiomycetes based on mitochondrial and nuclear rDNA sequences. Mycologia 91:944-963, doi:10.2307/ 3761626
64. Posada D. 2008. jModelTest: Phylogenetic model averaging. Mol Biol Evol 25:1253-1256, doi:10.1093/molbev/ msn083
65. Rea C. 1922. British Basidiomycetaceae. A handbook of the larger British fungi. Cambridge, UL: Cambridge Univ. Press. 799 p.
66. Read DJ, Perez-Moreno J. 2002. Mycorrhizas and nutrient cycling in ecosystems-a journey toward relevance? New Phytol 157:475-492, doi:10.1046/j.1469-8137. 2003.00704.x
67. Rinaldi AC, Comandini O, Kuyper TW. 2008. Ectomycorrhizal fungal diversity: separating the wheat from the chaff. Fungal Divers 33:1-45.
68. Ryberg M, Kristiansson E, Sjö kvist E, Nilsson RH. 2009. An outlook on the fungal internal transcribed spacer sequences in GenBank and the introduction of a web-based tool for the exploration of fungal diversity. New Phytol 181:471-477, doi:10.1111/j.1469-8137.2008. 02667.x
69. Ryberg M, Nilsson RH, Kristiansson E, Topel M, Jacobsson S, Larsson E. 2008. Mining metadata from unidentified ITS sequences in GenBank: a case study in Inocybe (Basidiomycota). BMC Evol Biol 8:50, doi:10.1186/ 1471-2148-8-50
70. Seitzman BH, Ouimette A, Mixon RL, Hobbie EA, Hibbett DS. 2011. Conservation of biotrophy in Hygrophoraceae inferred from combined stable isotope and phylogenetic analyses. Mycologia 103:280-290, doi:10.3852/10-195
71. Seviour RJ, Willing RR, Chilvers GA. 1973. Basidiocarps associated with ericoid mycorrhizas. New Phytol 72: 381-385, doi:10.1111/j.1469-8137.1973.tb02045.x
72. Shimodaira H, Hasegawa M. 1999. Multiple comparisons of log likelihoods with applications to phylogenetic inference. Mol Biol Evol 16:1114-1116, doi:10.1093/ oxfordjournals.molbev.a026201
73. Stamatakis A, Hoover P, Rougemont J. 2008. A rapid bootstrap algorithm for the RAxML web-servers. Syst Biol 75:758-771, doi:10.1080/10635150802429642
74. Stebbins ME, Robbins WJ. 1949. Mineral oil and preservation of fungus cultures. Mycologia 41:632-636, doi:10.2307/3755019
75. 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. Philos Trans R Soc Lond B Biol Sci 361:1947-1963, doi:10.1098/rstb.2006.1923
76. Tedersoo L, May TW, Smith ME. 2010. Ectomycorrhizal lifestyle in fungi: global biodiversity, distribution and evolution of phylogenetic lineages. Mycorrhiza 20:217- 263, doi:10.1007/s00572-009-0274-x
77. Thiers B. [continuously updated]. Index herbariorum: a global directory of public herbaria and associated staff. New York Botanical Garden's virtual herbarium. http://sweetgum.nybg.org/ih/(accessed Oct 2012)
78. Trappe JM. 1962. Fungus associates of ectotrophic mycorrhizae. Bot Rev 28:538-606, doi:10.1007/BF02868758
79. van Overeem C. 1923. Ueber Javanische Clavariaceae. Bull Jard Bot Buitenzorg III 5:254-280.
80. White TJ, Bruns TD, Lee SB, Taylor JW. 1990. Amplification and direct sequencing of fungal ribosomal RNA Genes for phylogenetics. In: Innis N, Gelfand D, Sninsky J, White T, eds. PCR: protocols and applications-a laboratory manual. New York: Academic Press. p 315- 322.