High diversity and widespread occurrence of mitotic spore mats in ectomycorrhizal Pezizales

Molecular Ecology

Volumn 22, Issue 6, 2013, Pages 1717-1732

  Healy, R A ^a   Smith, M E ^b   Bonito, G M ^c   Pfister, D H ^d   Ge, Z W ^b,e   Guevara, G G ^f   Williams, G ^c   Stafford, K ^c   Kumar, L ^a   Lee, T ^a   Hobart, C ^g   Trappe, J ^h   Vilgalys, R ^c   McLaughlin, D J ^a  

^a UNIVERSITY OF MINNESOTA   (United States)

^b UNIVERSITY OF FLORIDA   (United States)

^c DUKE UNIVERSITY   (United States)

^d Harvard University   (United States)

^e KUNMING INSTITUTE OF BOTANY   (China)

^f Instituto Tecnológico de Cd   (Mexico)

^g UNIVERSITY OF SHEFFIELD   (United Kingdom)

^h OREGON STATE UNIVERSITY   (United States)

Author keywords

cryptic diversity; ectomycorrhizal Pezizales; environmental sequencing; mitospore; truffle

Indexed keywords

FUNGAL DNA; RIBOSOMAL SPACER DNA;

ARTICLE; ASCOMYCETES; CLASSIFICATION; DNA SEQUENCE; FUNGUS SPORE; GENETICS; MICROBIOLOGY; MOLECULAR GENETICS; MYCORRHIZA; NUCLEOTIDE SEQUENCE; OAK; PHYLOGENY; PINE; PLANT ROOT; POPULUS; STATISTICAL MODEL;

ASCOMYCOTA; DNA, FUNGAL; DNA, RIBOSOMAL SPACER; LIKELIHOOD FUNCTIONS; MOLECULAR SEQUENCE DATA; MYCORRHIZAE; PHYLOGENY; PINUS; PLANT ROOTS; POPULUS; QUERCUS; SEQUENCE ANALYSIS, DNA; SPORES, FUNGAL;

BACTERIA (MICROORGANISMS); FUNGI; OTUS; PEZIZALES; POPULUS; QUERCUS; TUBER (TRUFFLE);

EID: 84875135796     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/mec.12135     Document Type: Article

References (67)

1. Agerer R, ed. (1987 -2002) Colour Atlas of Ectomycorrhizae, 1st-12th del., Einhorn-Verlag, Schwäbisch Gmünd.
2. Ashkannejhad S, Horton T, (2006) Ectomycorrhizal ecology under primary succession on coastal sand dunes: interactions involving Pinus contorta, suilloid fungi and deer. New Phytologist, 169, 345-354.
3. Baxter JW, Dighton J, (2001) Ectomycorrhizal diversity alters growth and nutrient acquisition of grey birch (Betula populifolia) seedlings in host-symbiont culture conditions. New Phytologist, 152, 139-149.
4. Bonito G, (2009) Fast DNA- based identification of the black truffle Tuber melanosporum with direct PCR and species-specific primers. FEMS Microbiology Letters, 301, 171-175.
5. Bonito GM, Gryganskyi AP, Trappe JM, Vilgalys R, (2010) A global meta-analysis of Tuber ITS rDNA sequences: species diversity, host associations and long-distance dispersal. Molecular Ecology, 19, 4994-5008.
6. Bonito G, Brenneman T, Vilgalys R, (2011) Ectomycorrhizal fungal diversity in orchards of cultivated pecan (Carya illinoinensis; Juglandaceae). Mycorrhiza, 21, 601-612.
7. Castresana J, (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Molecular Biology and Evolution, 17, 540-552.
8. Dickie IA, Reich PB, (2005) Ectomycorrhizal fungal communities at forest edges. Journal of Ecology, 93, 244-255.
9. Dodge C, (1937) The conidial stage of Peziza pustulata. Mycologia, 24, 651-655.
10. Egger KN, (1986) Substrate hydrolysis patterns of post-fire ascomycetes (Pezizales). Mycologia, 78, 771-780.
11. Fujimura K, Smith J, Horton T, Weber N, (2005) Pezizalean mycorrhizas and sporocarps in ponderosa pine (Pinus ponderosa) after prescribed fires in eastern Oregon, USA. Mycorrhiza, 15, 79-86.
12. García-Montero LG, Díaz P, Martín-Fernández S, Casermeiro MA, (2008) Soil factors that favour the production of Tuber melanosporum carpophores over other truffle species: a multivariate statistical approach. Acta Agriculturae Scandinavica Section B Soil and Plant Science, 58, 322-329.
13. Gardes M, Bruns TD, (1993) ITS primers with enhanced specificity for basidiomycetes-application to the identification of mycorrhizae and rusts. Molecular Ecology, 2, 113-118.
14. Gehring C, Theimer T, Whitham T, Keim P, (1998) Ectomycorrhizal fungal community structure of pinyon pines growing in two environmental extremes. Ecology, 79, 1562-1572.
15. Glenn TC, Schable NA, (2005) Isolating microsatellite DNA loci. Methods in Enzymology, 395, 202-222.
16. Guevara G, Bonito G, Cazares E, et al,. (2012) New North American truffles (Tuber spp.) and their ectomycorrhizal associations. Mycologia, doi: 10.3852/12-087.
17. Hansen K, Pfister D, (2006) Systematics of the Pezizomycetes-the operculate discomycetes. Mycologia, 98, 1029-1040.
18. Hennebert GL, (1973) Botrytis and Botrytis-like genera. Persoonia, 7, 183-204.
19. Hennebert GL, Korf RP, (1975) The peat mould, Chromelosporium ollare, conidial state of Peziza ostracoderma, and its misapplied names, Botrytis crystallina, Botrytis spectabilis, Ostracoderma epigaeum and Peziza atrovinosa. Mycologia, 67, 214-240.
20. Huelsenbeck JP, Ronquist FR, (2001) Mr. Bayes: Baysian inference of phylogenetic trees. Biometrics, 17, 754-755.
21. Hutchison L, (1989) Absence of conidia as a morphological character in ectomycorrhizal fungi. Mycologia, 81, 587-594.
22. Iotti M, Lancellotti E, Hall I, Zambonelli A, (2010) The ectomycorrhizal community in natural Tuber borchii grounds. FEMS Microbiology Ecology, 72, 153-310.
23. James TY, Kauff F, Schoch CL, et al,. (2006) Reconstructing the early evolution of fungi using a six-gene phylogeny. Nature, 443, 818-822.
24. Katoh K, Toh H, (2010) Parallelization of the MAFFT multiple sequence alignment program. Bioinformatics, 26, 1899-1900.
25. Kendrick B, DiCosmo F, (1979) Teleomorph-anamorph connections in Ascomycetes. In: The Whole Fungus (ed., Kendrick B,), pp. 283-359. National Museums of Canada, Ottawa.
26. Kohn LM, (1993) What do we need to know about discomycetous anamorphs? In: The Fungal Holomorph: Mitotic, Meiotic and Pleomorphic Speciation in Fungal Systematics (eds, Reynolds DR, &, Taylor JW,), pp. 129-139. CAB International, Wallingford.
27. Kumar TKA, Healy R, Spatafora JW, et al,. (2012) Orbilia ultrastructure, character evolution, and phylogeny of Pezizomycotina. Mycologia, 104, 462-476.
28. Læssøe T, Hansen K, (2007) Truffle trouble: what happened to the Tuberales? Mycological Research, 111, 1075-1099.
29. Malençon G, (1964) Le Glischroderma cinctum Fuck., sa structure et ses affinitiés. Bulletin Trimestriel de la Societe Mycologique de France, 80, 197-211.
30. Miller MA, Pfeiffer W, Schwartz T, (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. Proceedings of the Gateway Computing Environments Workshop (GCE): 14 Nov 2010, New Orleans, 1-8. http://www.ngbw.org/ee/index.php/portal/cite-us.
31. Moncalvo JM, Vilgalys R, Redhead SA, et al,. (2002) One hundred and seventeen clades of euagarics. Molecular Phylogenetics and Evolution, 23, 357-400.
32. Morris MH, Pérez-Pérez MA, Smith ME, Bledsoe CS, (2009) Influence of host species on ectomycorrhizal communities associated with two co-occurring oaks (Quercus spp.) in a tropical cloud forest. Fems Microbiology Ecology, 69, 274-287.
33. Nara K, (2006) Ectomycorrhizal networks and seedling establishment during early primary succession. New Phytologist, 169, 169-178.
34. Nilsson RH, Kristiansson E, Ryberg M, Larsson K-H, (2005) Approaching the taxonomic affiliation of unidentified sequences in public databases-an examle from the mycorrhizal fungi. BMC Bioinformatics, 6, 178.
35. Nobles MK, (1958) Cultural Characters as a guide to the Taxonomy and Phylogeny of the Polyporaceae. Canadian Journal of Botany, 36, 883-926.
36. Norman JE, Egger KN, (1999) Phylogenetic analysis of Peziza and related genera. Mycologia, 91, 820-829.
37. Palmer JM, Lindner DL, Volk TJ, (2008) Ectomycorrhizal characterization of an American chestnut (Castanea dentata)-dominated community in western Wisconsin. Mycorrhiza, 19, 27-36.
38. Perry BA, Hansen K, Pfister DH, (2007) A phylogenetic overview of the family Pyronemataceae (Ascomycota, Pezizales). Mycological Research, 111, 549-571.
39. Petersen PM, (1985) The ecology of Danish soil inhabiting Pezizales with emphasis on edaphic conditions. Opera Bot, 77, 1-38.
40. Posada D, (2008) jModelTest: Phylogenetic Model Averaging. Molecular Biology and Evolution, 25, 1253-1256.
41. Rambaut A, (2007) Se-Al: Sequence Alignment Editor, Available from http://tree.bio.ed.ac.uk/software/seal/.
42. Rambaut A, Drummond AJ, (2007) Tracer v1.4: Available from http://beast.bio.ed.ac.uk/Tracer.
43. Rasband WS, (2011) ImageJ. U. S. National Institutes of Health, Bethesda, Maryland, USA, Available from http://imagej.nih.gov/ij/.
44. Riccioni C, Belfiori B, Rubini A, et al,. (2008) Tuber melanosporum outcrosses: analysis of the genetic diversity within and among its natural populations under this new scenario. New Phytologist, 180, 466-478.
45. Rinaldi AC, Comandini O, Kuyper TW, (2008) Ectomycorrhizal fungal diversity: separating the wheat from the chaff. Fungal Diversity, 33, 1-45.
46. Ryberg M, Kristiansson E, Sjökvist 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 Phytologist, 181, 471-477.
47. Schoch CL, Seifert KA, Huhndorf S, et al,. Fungal Barcoding Consortium (2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proceedings of the National Academy of Science of United States of America, 109, 6241-6246.
48. Shenoy BD, Jeewon R, Hyde KD, (2007) Impact of DNA sequence-data on the taxonomy of anamorphic fungi. Fungal Diversity, 26, 1-54.
49. Smith M, Douhan G, Rizzo D, (2007a) Intra-specific and intra-sporocarp ITS variation of ectomycorrhizal fungi as assessed by rDNA sequencing of sporocarps and pooled ectomycorrhizal roots from a Quercus woodland. Mycorrhiza, 18, 15-22.
50. Smith M, Douhan GW, Rizzo DM, (2007b) Ectomycorrhizal community structure in a xeric Quercus woodland based on rDNA sequence analysis of sporocarps and pooled roots. New Phytologist, 174, 847-863.
51. Stamatakis A, (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics, 22, 2688-2690.
52. Stamatakis A, Hoover P, Rougemont J, (2008) A rapid bootstrap algorithm for the RAxML web servers. Systematic Biology, 57, 758-771.
53. Talavera G, Castresana J, (2007) Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Systematic Biology, 56, 564-577.
54. Taylor JW, Jacobson DJ, Fisher MC, (1999) The evolution of asexual fungi: reproduction, speciation and classification. Annual Review of Phytopathology, 37, 197-246.
55. Tedersoo L, Hansen K, Perry B, Kjøller R, (2006a) Molecular and morphological diversity of pezizalean ectomycorrhiza. New Phytologist, 170, 581-596.
56. Tedersoo L, Suvi T, Larsson E, Koljalg U, (2006b) Diversity and community structure of ectomycorrhizal fungi in a wooded meadow. Mycological Research, 110, 734-748.
57. Tedersoo L, Jairus T, Horton BM, et al,. (2008) Strong host preference of ectomycorrhizal fungi in a Tasmanian wet sclerophyll forest as revealed by DNA barcoding and taxon-specific primers. New Phytologist, 180, 479-490.
58. Tedersoo L, May T, Smith M, (2010) Ectomycorrhizal lifestyle in fungi: global diversity, distribution, and evolution of phylogenetic lineages. Mycorrhiza, 20, 217-263.
59. Urban A, Neuner-Plattner I, Krisai-Greilhuber I, Haselwandter K, (2004) Molecular studies on terricolous microfungi reveal novel anamorphs of two Tuber species. Mycological Research, 108, 749-758.
60. Vilgalys R, Hester M, (1990) Rapid genetic identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species. Journal of Bacteriology, 172, 4238-4246.
61. Walker J, Miller O, Horton J, (2005) Hyperdiversity of ectomycorrhizal fungus assemblages on oak seedlings in mixed forests in the southern Appalachian Mountains. Molecular Ecology, 14, 829-838.
62. Walther G, Garnica S, Weiss M, (2005) The systematic relevance of conidiogenesis modes in the gilled Agaricales. Mycological Research, 109, 525-544.
63. Warcup JH, Talbot PHB, (1989) Muciturbo: a new genus of hypogeous ectomycorrhizal Ascomycetes. Mycological Research, 92, 95-100.
64. Warren JM, Brooks JR, Meinzer FC, Eberhart JL, (2008) Hydraulic redistribution of water from Pinus ponderosa trees to seedlings: evidence for an ectomycorrhizal pathway. New Phytologist, 178, 382-394.
65. White TM, Bruns T, Lee S, Taylor J, (1990) Amplification and direct sequencing of fungal ribosomal RNA for phylogenetics. In: PCR Protocols: A Guide to Methods and Applications (eds, Innis MA, Gelfand DH, Sninsky JJ, &, White TJ,), pp. 315-321. Academic Press, San Diego.
66. Yang CS, Korf RP, (1985a) A monograph of the genus Tricharina and of a new, segregate genus, Wilcoxina (Pezizales). Mycotaxon, 24, 467-531.
67. Yang CS, Korf RP, (1985b) Ascorhizoctonia gen. nov. and Complexipes emend., two genera for anamorphs of species assigned to Tricharina (discomycetes). Mycotaxon, 23, 457-481.