Genetic variability among strains of Phialocephala fortinii and phylogenetic analysis of the genus Phialocephala based on rDNA its sequence comparisons

Canadian Journal of Botany

Volumn 80, Issue 12, 2002, Pages 1239-1249

  Grünig, Christoph R ^a   Sieber, Thomas N ^a   Rogers, Scott O ^b   Holdenrieder, Ottmar ^a  

^a ETH ZURICH   (Switzerland)

^b BOWLING GREEN STATE UNIVERSITY   (United States)

Author keywords

DSE; Internal transcribed spacer; Phialocephala; Phylogenetic analysis

Indexed keywords

DNA; DNA SEQUENCES; MORPHOLOGY; PLANT CELL CULTURE;

GENETIC VARIABILITY;

GENETIC ENGINEERING;

GENETIC VARIATION; PHYLOGENY;

CADOPHORA FINLANDIA; DIMORPHOSPORA; EMBRYOPHYTA; HELOTIALES; HUMICOLA; HYPHOMYCETES; LEPTODONTIDIUM; LEPTODONTIDIUM ORCHIDICOLA; PHIALOCEPHALA; PHIALOCEPHALA COMPACTA; PHIALOCEPHALA DIMORPHOSPORA; PHIALOCEPHALA FORTINII; PHIALOCEPHALA FUSCA; PHIALOCEPHALA SCOPIFORMIS; PHIALOCEPHALA VIRENS; PHIALOCEPHALA XALAPENSIS; PHIALOPHORA; SPORENDOCLADIA; SPORENDOCLADIA FOLIICOLA;

EID: 0242585433     PISSN: 00084026     EISSN: None     Source Type: Journal    
DOI: 10.1139/b02-115     Document Type: Article

References (69)

1. Addy, H.D., Hambleton, S., and Currah, R.S. 2000. Distribution and molecular characterization of the root endophyte Phialocephala fortinii along an environmental gradient in the boreal forest of Alberta. Mycol. Res. 104: 1213-1221.
2. Ahlich, K., and Sieber, T.N. 1996. The profusion of dark septate endophytic fungi in non-ectomycorrhizal fine roots of forest trees and shrubs. New Phytol. 132: 259-270.
3. Ahlich-Schlegel, K. 1997. Vorkommen und Charakterisierung von dunklen, septierten Hyphomyceten (DSH) in Gehölzwurzeln. Ph.D. thesis, Swiss Federal Institute of Technology, Zürich, Switzerland.
4. Altschul, S.F., Madden, T.L., Schäffer, A.A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D.J. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25: 3389-3402.
5. Anagnost, S.E., Mark, R.E., and Hanna, R.B. 2000. Utilization of soft-rot cavity orientation for the determination of microfibril angle. Part I. Wood Fiber Sci. 32: 81-87.
6. Barklund, P., and Kowalski, T. 1996. Endophytic fungi in branches of Norway spruce with particular reference to Tryblidiopsis pinastri. Can. J. Bot. 74: 673-678.
7. Bloomberg, W.J. 1966. The occurrence of endophytic fungi in Douglas-fir seedlings and seed. Can. J. Bot. 44: 413-420.
8. Bruns, T.D., White, J.F., and Taylor, J.W. 1991. Fungal molecular systematics. Ann. Rev. Ecol. Syst. 22: 525-564.
9. Currah, R.S., Sigler, L., and Hambleton, S. 1987. New records and new taxa of fungi from mycorrhizae of terrestrial orchids of Alberta. Can. J. Bot. 65: 2473-2482.
10. Currah, R.S., Smreciu, A.E., and Hambleton, S. 1990. Mycorrhizae and mycorrhizal fungi of boreal species of Platanthera and Coeloglossum (Orchidaceae). Can. J. Bot. 68: 1171-1181.
11. Currah, R.S., Tsuneda, A., and Murakami, S. 1993. Morphology and ecology of Phialocephala fortinii in roots of Rhododendron brachycarpum. Can. J. Bot. 71: 1639-1644.
12. Danielson, R.M., and Visser, S. 1990. The mycorrhizal and nodulation status of container-grown trees and shrubs reared in commercial nurseries. Can. J. For. Res. 20: 609-614.
13. de Los Angeles Vinuesa, M., Sanches-Puelles, J.M., and Tibell, L. 2001. Intraspecific variation in Mycocalicium subtile (Mycocaliciaceae) elucidated by morphology and the sequence of the ITS1-5.8S-ITS2 region of rDNA. Mycol. Res. 105: 323-330.
14. Gardes, M., and Bruns, T.D. 1993. ITS primers with enhanced specificity for basidiomycetes - application to the identification of mycorrhizae and rusts. Mol. Ecol. 2: 113-118.
15. Gernandt, D.S., Platt, J.L., Stone, J.K., Spatafora, J.W., Holst-Jensen, A., Hamelin, R.C., and Kohn, L.M. 2001. Phylogenetics of Helotiales and Rhytismatales based on partial small subunit nuclear ribosomal DNA sequences. Mycologia, 93: 915-933.
16. Goldman, N., Anderson, J.P., and Rodrigo, A.G. 2000. Likelihood-based tests of topologies in phylogenetics. Syst. Biol. 49: 652-670.
17. Greenacre, M.J. 1993. Correspondence analysis in practice. Academic Press, London.
18. Grünig, C.R., Sieber, T.N., and Holdenrieder, O. 2001. Characterisation of dark septate endophytic fungi (DSE) using inter-simple-sequence-repeat-anchored polymerase chain reaction (ISSR-PCR) amplification. Mycol. Res. 105: 24-32.
19. Grünig, C.R., Sieber, T.N., Rogers, S.O., and Holdenrieder, O. 2002. Spatial distribution of dark septate endophytes in a confined forest plot. Mycol. Res. 106: 832-840.
20. Harney, S.K., Rogers, S.O., and Wang, C.J.K. 1997. Molecular characterization of dematiaceous root endophytes. Mycol. Res. 101: 1397-1404.
21. Hausner, G., Reid, J., and Klassen, G.R. 2000. On the phylogeny of members of Ceratocystis s.s., and Ophiostoma that possess different anamorphic states, with emphasis on the anamorph genus Leptographium, based on partial ribosomal DNA sequences. Can. J. Bot. 78: 903-916.
22. Holdenrieder, O., and Sieber, T.N. 1992. Fungal associations of serially washed healthy non-mycorrhizal roots of Picea abies. Mycol. Res. 96: 151-156.
23. Hutchison, L.J. 1999. Wood-inhabiting microfungi isolated from Populus tremuloides from Alberta and northeastern British Columbia. Can. J. Bot. 77: 898-905.
24. Jacobs, K., Wingfield, M.J., Jacobs, A., and Wingfield, B.D. 2001. A taxonomic re-evaluation of Phialocephala phycomyces. Can. J. Bot. 79: 110-117.
25. Jong, S.C., and Davis, E.E. 1972. Phialocephala humicola, a new hyphomycete. Mycologia, 64: 1351-1356.
26. Jumpponen, A., and Trappe, J.M. 1998. Dark septate endophytes: a review of facultative biotrophic root-colonizing fungi. New Phytol. 140: 295-310.
27. Jumpponen, A., Mattson, K.G., and Trappe, J.M. 1998. Mycorrhizal functioning of Phialocephala fortinii with Pinus contorta on glacier forefront soil: interactions with soil nitrogen and organic matter. Mycorrhiza, 7: 261-265.
28. Kendrick, W.B. 1961. The Leptographium complex. Phialocephala gen. nov. Can. J. Bot. 39: 1079-1085.
29. Kendrick, W.B. 1963. The Leptographium complex. Two new species of Phialocephala. Can. J. Bot. 41: 1015-1023.
30. Kendrick, W.B. 1964. The Leptographium complex. Hantzschia Auerswald. Can. J. Bot. 42: 1291-1295.
31. Kimura, M. 1980. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16: 111-120.
32. Kirk, P.M. 1985. New or interesting microfungi. XIV. Dematiaceous hyphomycetes from Kenya. Mycotaxon, 23: 305-352.
33. Kowalski, T., and Bartnik, C. 1995. Cryptosporiopsis radicicola sp. nov. from roots of Quercus robur. Mycol. Res. 99: 663-666.
34. Kowalski, T., and Kehr, R.D. 1992. Endophytic fungal colonization of branch bases in several forest tree species. Sydowia, 43: 137-168.
35. Kowalski, T., and Kehr, R.D. 1995. Two new species of Phialocephala occurring on Picea and Alnus. Can. J. Bot. 73: 26-32.
36. Kües, U. 2000. Life history and developmental processes in the basidiomycete Coprinus cinereus. Microbiol. Mol. Biol. Rev. 64: 316-353.
37. LoBuglio, K.F., Berbee, M.L., and Taylor, J.W. 1996. Phylogenetic origins of the asexual mycorrhizal symbiont Cenococcum geophilum Fr., and other mycorrhizal fungi among the ascomycetes. Mol. Phylogenet. Evol. 6: 287-294.
38. Lumbsch, H.T. 2000. Phylogeny of filamentous ascomycetes. Naturwissenschaften, 87: 335-342.
39. Luque, J., Parlade, J., and Pera, J. 2000. Pathogenicity of fungi isolated from Quercus suber in Catalonia (NE Spain). For. Path. 30: 247-263.
40. Maggi, O., and Persiani, A.M. 1984. Codinaea coffae and Phialocephala xalapensis, two new hyphomycetes from Mexico. Mycotaxon, 20: 251-258.
41. Melin, E. 1923. Experimentelle Untersuchungen über die Konstitution und Ökologie der Mycorrhizen von Pinus silvestris L. und Picea abies (L.) Karst. Falk. Mykol. Unters. 2: 73-331.
42. Posada, D., and Crandall, K.A. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics, 14: 817-818.
43. Rambaut, A., and Grassly, N.C. 1997. Seq-Gen: An application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees. Comput. Appl. Biosci. 13: 235-238.
44. Read, D.J., and Haselwandter, K. 1981. Observation on the mycorrhizal status of some alpine plant communities. New Phytol. 88: 341-352.
45. Risède, J.-M., and Simoneau, P. 2001. Typing Cylindrocladium species by analysis of ribosomal DNA spacers polymorphism: Application to field isolates from banana rhizosphere. Mycologia, 93: 494-504.
46. Rodríguez, F., Oliver, J.F., Marín, A., and Medina, J.R. 1990. The general stochastic model of nucleotide substitution. J. Theor. Biol. 142: 485-501.
47. Rogers, S.O., and Bendich, A.J. 1994. Extraction of total cellular DNA from plants, algae and fungi. In Plant Molecular Biology Manual. Edited by S.B. Gelvin, and R.A. Schilperoort. Kluwer Academic Press, Dordrecht. pp. D1: 1-8.
48. Rogers, S.O., Rehner, S., Bledsoe, C., Mueller, G., and Ammirati, J.F. 1989. Extraction of DNA from basidiomycetes for ribosomal DNA hybridizations. Can. J. Bot. 67: 1235-1243.
49. Seifert, K.A. 1993. Integrating anamorphic fungi into the fungal system. In The fungal holomorph: mitotic, meiotic and pleomorphic speciation in fungal systematics. Edited by D.R. Reynolds, and J.W. Taylor. CAB International, Wallingford. pp. 79-85.
50. Seifert, K.A., and Gams, W. 2001. The taxonomy of anamorphic fungi. In The Mycota VII part A: systematics and evolution. Edited by D.J. McLaughlin, E.G. McLaughlin, and P.A. Lemke. Springer-Verlag, Berlin, pp. 307-347.
51. Shearer, C.A., Crane, J.L., and Miller, M.A. 1976. Illinois fungi. 6. Two new species of wood-inhabiting hyphomycetes from freshwater. Mycologia, 68: 184-189.
52. Sieber, T.N. 2002. Fungal root endophytes. In Plant roots: the hidden half. Edited by Y. Waisel, A. Eshel, and U. Kafkafi. Marcel Dekker, New York. pp. 887-917.
53. Sieber, T.N., Petrini, O., and Greenacre, M.J. 1998. Correspondence analysis as a tool in fungal taxonomy. Syst. Appl. Microbiol. 21: 433-441.
54. Smith, D.R., and Stanosz, G.R. 2001. Molecular and morphological differentiation of Botryosphaeria dothidea (anamorph Fusicoccum aesculi) from some other fungi with Fusicoccum anamorphs. Mycologia, 93: 505-515.
55. Stoyke, G., Egger, K.N., and Currah, R.S. 1992. Characterization of sterile endophytic fungi from the mycorrhizae of subalpine plants. Can. J. Bot. 70: 2009-2016.
56. Strydom, R.C., Wingfield, B.D., and Wingfield, M.J. 1997. Ribosomal DNA sequence comparison of Leptographium lundbergii and L. truncatum and neotypification of L. lundbergii. Syst. Appl. Microbiol. 20: 295-300.
57. Swofford, D.L. 1998. PAUP* 4.00: Phylogenetic analysis using parsimony (and other methods). Sinauer Associates, Sunderland, Mass.
58. Swofford, D.L., Olsen, G.J., Waddell, P.J., and Hillis, D.M. 1996. Phylogenetic inference. In Molecular Systematics. Edited by D.M. Hillis, C. Moritz, and B.K. Mable. Sinauer Associates, Sunderland, Mass. pp. 407-509.
59. Vrålstad, T., Fossheim, T., and Schumacher, T. 2000. Piceirhiza bicolorata - the ectomycorrhizal expression of the Hymenoscyphus ericae aggregate? New Phytol. 145: 549-563.
60. Vrälstad, T., Schumacher, T., and Taylor, A.F.S. 2002. Mycorrhizal synthesis between fungal strains of the Hymenoscyphus ericae aggregate and potential ectomycorrhizal and ericoid hosts. New Phytol. 153: 143-152.
61. Vujanovic, V., St-Arnaud, M., Barabé, D., and Thibeault, G. 2000. Phialocephala victorinii sp. nov., endophyte of Cypripedium parviflorum. Mycologia, 92: 571-576.
62. Wang, C.J.K., and Wilcox, H.E. 1985. New species of ectendomycorrhizal and pseudomycorrhizal fungi: Phialophora finlandia, Chloridium paucisporum, and Phialocephala fortinii. Mycologia, 77: 951-958.
63. White, T.J., Bruns, T.D., Lee, S., and Taylor, J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR protocols: a guide to methods and applications. Edited by M.A. Innis, D.H. Gelfand, J.J. Sninsky, and T.J. White. Academic Press, New York. pp. 315-322.
64. Wilcox, H.E., and Wang, C.J.K. 1987a. Ectomycorrhizal and ectendomycorrhizal associations of Phialophora finlandia with Pinus resinosa, Picea rubens, and Betula alleghaniensis. Can. J. For. Res. 17: 976-990.
65. Wilcox, H.E., and Wang, C.J.K. 1987b. Mycorrhizal and pathological associations of dematiaceous fungi in roots of 7-month-old tree seedlings. Can. J. For. Res. 17: 884-899.
66. Wingfield, M.J. 1987. A new name for Phialocephala illini. Mycotaxon, 30: 149-156.
67. Wingfield, M.J., Van Wyk, P.S., and Wingfield, B.D. 1987. Reclassification of Phialocephala, based on conidial development. Trans. Br. Mycol. Soc. 89: 509-520.
68. Yan, Z.H., Rogers, S.O., and Wang, C.J.K. 1995. Assessment of Phialophora species based on ribosomal DNA internal transcribed spacers and morphology. Mycologia, 87: 72-83.
69. Yu, T., Nassuth, A., and Peterson, R.L. 2001. Characterization of the interaction between the dark septate fungus Phialocephala fortinii and Asparagus officinalis roots. Can. J. Microbiol. 47: 741-753.