Phylogeny of the genus Agaricus inferred from restriction analysis of enzymatically amplified ribosomal DNA

Fungal Genetics and Biology

Volumn 20, Issue 4, 1996, Pages 243-253

  Bunyard, Britt A ^a   Nicholson, Michael S ^b   Royse, Daniel J ^c  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

^b GRAND VALLEY STATE UNIVERSITY   (United States)

^c PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

Mushrooms; Phylogeny; RFLPs; Ribosomal DNA

Indexed keywords

FUNGAL DNA; RIBOSOME DNA; RNA 5S;

AGARICALES; ARTICLE; CONTROLLED STUDY; EVOLUTION; GENE AMPLIFICATION; MOLECULAR GENETICS; MORPHOLOGY; NONHUMAN; PHYLOGENY; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RESTRICTION MAPPING; TAXONOMY;

EID: 0030424012     PISSN: 10871845     EISSN: None     Source Type: Journal    
DOI: 10.1006/fgbi.1996.0039     Document Type: Article

References (73)

1. Abler, B. S. B., Edwards, M. D., and Stuber, C. W. 1991. Isoenzyme identification of quantitative trait loci in crosses of elite maize inbreds. Crop Sci. 31: 267-274.
2. Alexopoulos, C. J., and Mims, C. W. 1979. Introductory Mycology. Wiley, New York.
3. Anderson, J. B. 1993. Molecular tools in breeding Agaricus. In Genetics and Breeding of Edible Mushrooms (S. T. Chang, J. A. Buswell, and P. G. Miles, Eds.), Gordon & Breach, Philadelphia.
4. Andersen, J. B., and Stasovski, E. 1992. Molecular phylogeny of northern hemisphere species of Armillaria. Mycologia 84: 505-516.
5. Avise, J. C., Bowen, B. W., Lamb, T., Meylan, A. B., and Bermingham, E. 1992. Mitochodrial DNA evolution at a turtle's pace: Evidence for low genetic variability and reduced microevolutionary rate in the Testudines. Mol. Biol. Evol. 9: 457-473.
6. Avise, J. C., Reeb, C. A., and Saunders, N. C. 1987. Geographic population structure and species differences in mitochondrial DNA of mouthbrooding marine catfishes (Ariidae) and demersal spawning toadfishes (Batrachoididae). Evolution 41: 991-1002.
7. Bermingham, E., and Avise, J. C. 1986. Molecular zoogeography of freshwater fishes in the southeastern United States. Genetics 113: 939-965.
8. Bruns, T. D., White, T. J., and Taylor, J. W. 1991. Fungal molecular systematics. Annu. Rev. Ecol. Syst. 22: 525-564.
9. Bunyard, B. A., Chaichuchote, S., Nicholson, M. S., and Royse, D. J. 1996. Ribosomal DNA analysis for resolution of genotypic classes of Pleurotus. Mycol. Res. 100: 143-150.
10. Bunyard, B. A., Nicholson, M. S., and Royse, D. J. 1994. A systematic assessment of Morchella using RFLP analysis of the 28S ribosomal RNA gene. Mycologia 86: 762-772.
11. Bunyard, B. A., Nicholson, M. S., and Royse, D. J. 1995. Phylogenetic resolution of Morchella, Verpa, and Disciotis [Pezizales: Morchellaceae] based on restriction enzyme analysis of the 28S ribosomal RNA gene. Exp. Mycol. 19: 223-233.
12. Callac, P., Billette, C., Imbernon, M., and Kerrigan, R. W. 1993. Morphological, genetic, and interfertility analyses reveal a novel, tetrasporic variety of Agaricus bisporus from the Sonoran Desert of California. Mycologia 85: 835-851.
13. Cassidy, J. R., Moore, D., Luc, B. C., and Pukkila, P. J. 1984. Unusual organization and lack of recombination in the ribosomal RNA genes of Coprinus cinereus. Curr. Genet. 8: 607-613.
14. Castle, A. J., Horgen, P. A., and Anderson, J. B. 1987. Restriction fragment length polymorphisms in the mushrooms Agaricus brunnescens and Agaricus bitorquis. Appl. Environ. Microbiol. 53: 816-822.
15. Castle, A. J., Horgen, P. A., and Anderson, J. B. 1988. Crosses among homokaryons from commercial and wild-collected strains of the mushroom Agaricus brunnescens (=A. bisporus). Appl. Environ. Microbiol. 54: 1643-1648.
16. Cubeta, M. A., Echandi, E., Abernathy, T., and Vilgalys, R. 1991. Characterization of anastomosis groups of binucleate Rhizoctonia species using restriction analysis of an amplified ribosomal RNA gene. Phytopathology 81: 1395-1400.
17. Elliott, T. J. 1972. Sex and the single spore. Mushroom Sci. 8: 11-18.
18. Evans, H. J. 1959. Nuclear behaviour in the cultivated mushroom. Chromosoma 10: 115-135.
19. Felsenstein, J. 1993. PHYLIP: Phylogeny Inference Package User's Guide. Frederick Biomedical Supercomputing Center, Frederick, MD.
20. Fritsche, G. 1981. Some remarks on the breeding, maintenance of strains and spawn of Agaricus bisporus and A. bitorquis. Mushroom Sci. 11: 367-385.
21. Georgiev, O. I., Nikolaev, N., Hadjiolov, A. A., Sdryabin, K. G., Zakharyev, V. M., and Bayev, A. A. 1981. The structure of the yeast ribosomal RNA genes. 4. Complete sequence of the 25 S rRNA gene from Saccharomyces cerevisiae. Nucleic Acids Res. 9: 6953-6958.
22. Hibbett, D. S., and Vilgalys, R. 1991. Evolutionary relationships of Lentinus to the polyporaceae: Evidence from restriction analysis of enzymatically amplified ribosomal DNA. Mycologia 83: 425-439.
23. Isaacs, B. F. 1967. Studies in the genus Agaricus. I. Agaricus cratecellus and its relationships. Mich. Bot. 6: 3-12.
24. Jiri, H. 1967. Zytologische studien über die gattung Agaricus. Mushroom Sci. 6: 77-81.
25. Johansen, S., Johansen, T., and Haugli, F. 1992. Extrachromosomal ribosomal DNA of Didymium iridis: Sequence analysis of the large subunit ribosomal RNA gene and subtelomeric region. Curr. Genet. 22: 305-312.
26. Jung, S. W., Gessner, R. V., Keudell, K. C., and Romano, M. A. 1993. Systematics of Morchella esculenta complex using enzyme-linked immunosorbent assay. Mycologia 85: 677-684.
27. Kerrigan, R. W. 1987. What's in a name?: The Chaetaceous case of the chaste champignon. In Cultivating Edible Fungi (P. J. Wuest, D. J. Royse, and R. B. Beelman, Eds.), pp. 141-154. Elsevier, Amsterdam.
28. Kerrigan, R. W. 1990. Evidence of genetic divergence in two populations of Agaricus bisporus. Mycol. Res. 94: 721-733.
29. Kerrigan, R. W., and Ross, I. K. 1989. Allozymes of a wild Agaricus bisporus population: New alleles, new genotypes. Mycologia 81: 433-443.
30. Kerrigan, R. W., Carvalho, B. B., Horgen, P. A., and Anderson, J. B. 1995. Indigenous and introduced populations of Agaricus bisporus, the cultivated button mushroom, in eastern and western Canada: Implications for population biology, resource management, and conservation of genetic diversity. Can. J. Bot. 73: 1925-1938.
31. Kerrigan, R. W., Horgen, P. A., and Anderson, J. B. 1991. A genetic linkage map for Agaricus bisporus. In Proceedings of the First International Seminar on Mushroom Science. Mushroom Experimental Station, Horst, the Netherlands, May 14-17, 1991.
32. Kerrigan, R. W., Royer, J. C. Baller, L. M., Kohli, Y., Horgen, P. A., and Anderson, J. B. 1993a. Meiotic behavior and linkage relationships in the secondarily homothallic fungus Agaricus bisporus. Genetics 133: 225-236.
33. Kerrigan, R. W., Horgen, P. A., and Anderson, J. B. 1993b. The California population of Agaricus bisporus comprises at least two ancestral elements. Syst. Bot. 18: 123-136.
34. Kerrigan, R. W., Imbernon, M., Callac, P., Billette, C., and Olivier, J.-M. 1994. The heterothallic life cycle of Agaricus bisporus var. burnettii and the inheritance of its tetrasporic trait. Exp. Mycol. 18: 193-210.
35. Kligman, A. M. 1943. Some cultural and genetic problems in the cultivation of the mushroom, Agaricus campestris. Am. J. Bot. 30: 745-763.
36. Kohn, L. M., Petsche, D. M., Bailey, S. R., Novak, L. A., and Anderson, J. B. 1988. Restriction fragment length polymorphisms in nuclear and mitochondrial DNA of Sclerotinia species. Phytopathology 78: 1047-1051.
37. Laguerre, G., Allard, M.-R., Revoy, F., and Amarger, N. 1994. Rapid identification of rhizobia by restriction fragment length polymorphism analysis of PCR-amplified 16S rRNA genes. Appl. Environ. Microbiol. 60: 56-63.
38. Malloch, D. 1976. Agaricus brunnescens: The cultivated mushroom. Mycologia 68: 910-919.
39. Malloch, D., Castle, A., and Hintz, W. 1987. Further evidence for Agaricus brunnescens Peck as the preferred name for the cultivated Agaricus bisporus. Mycologia 79: 839-846.
40. Magee, B. B., D'Souza, T. M., and Magee, P. T. 1987. Strain and species identification by restriction fragment length polymorphisms in the ribosomal DNA repeat of Candida species. J. Bacteriol. 169: 1639-1643.
41. Martin, F. N. 1990. Variation in the ribosomal DNA repeat unit within single-oospore isolates of the genus Pythium. Genome 33: 585-591.
42. May, B., and Royse, D. J. 1982. Genetic variation and joint segregation of biochemical loci in the common meadow mushroom, Agaricus Campestris. Biochem. Genet. 20: 1165-1173.
43. Medlin, L., Elwood, H. J., Stickel, S., and Sogin, M. L. 1988. The characterization of enzymatically amplified eukaryotic 16S-like rRNA-coding regions. Gene 71: 491-499.
44. Moser, M. 1983. In Keys to Agarics and Boleti, pp. 230-238. English translation from the 4th ed., Phillips, London.
45. Mullis, K. B., and Faloona, F. A. 1987. Specific synthesis of DNA in vitro via a polymerase-catalyzed chain reaction. Methods Enzymol. 155: 335-350.
46. Nei, M. 1987. In Molecular Evolutionary Genetics, pp. 64-107. Columbia Univ. Press, New York.
47. Nei, M., and Li, W. H. 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. USA 76: 5269-5273.
48. Nei, M., and Miller, J. C. 1990. A simple method for estimating average numbers of nucleotide substitutions within and between populations from restriction data. Genetics 125: 873-879.
49. Pelham, J. 1967. Techniques for mushroom genetics. Mushroom Sci. 6: 49-64.
50. Petes, T. D., and Botstein, D. 1977. Simple Mendelian inheritance of reiterated ribosomal DNA of yeast. Proc. Natl. Acad. Sci. USA 74: 5091-5095.
51. Raeder, U., and Broda, P. 1984. Comparison of lignin degrading white rot fungi Phanerochaete chrysosporium and Sporotrichum pulverulentum at the DNA level. Curr. Genet. 8: 499-506.
52. Raper, C. A., Raper, J. R., and Miller, R. E. 1972. Genetic analysis of the life cycle of Agaricus bisporus. Mycologia 64: 1088-1117.
53. Royer, J. C., and Horgen, P. A. 1991. Towards a transformation system for Agaricus bisporus. In Genetics and Breeding of Agaricus (L. J. L. D. van Griensven, Ed.), pp. 129-134. Pudoe, Wageningen.
54. Royse, D. J., and May, B. 1982a. Use of isozyme variation to identify genotypic classes of Agaricus brunnescens. Mycologia 74: 93-102.
55. Royse, D. J., and May, B. 1982b. Genetic relatedness and its application in selective breeding of Agaricus brunnescens. Mycologia 74: 569-575.
56. Royse, D. J., and May, B. 1990. Interspecific allozyme variation among Morchella spp. and its inferences for systematics within the genus. Biochem. Syst. Ecol. 18: 475-479.
57. Royse, D. J., Bunyard, B. A., and Nicholson, M. S. 1993. Molecular genetic analysis of diversity in populations of edible mushrooms. In Mushroom Biology and Mushroom Products (S. Chang, J. A. Buswell, and S. Chiu, Eds.). Chinese Univ. Press, Shatin, Hong Kong.
58. Royse, D. J., Spear, M. C., and May, B. 1983. Single and joint segregation of marker loci in the shiitake mushroom, Lentinus edodes. J. Gen. Appl. Microbiol. 29: 217-222.
59. Saitou, N., and Nei, M. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
60. Singer, R. 1984. Agaricus brunnescens Peck and Agaricus bisporus (Lange) Imbach. Mycotaxon 20: 479-482.
61. Singer, R. 1986. In The Agaricales in Modern Taxonomy, pp. 483-488. Koeltz, Koenigstein, Germany.
62. Smith, A. H. 1978. Morphology and classification. In The Biology and Cultivation of Edible Mushrooms (S. T. Chang and W. A. Hayes, Eds.), pp. 3-33. Academic Press, New York.
63. Sogin, M. L. 1990. Amplification of ribosomal RNA genes for molecular evolution studies. In PCR Protocols: A Guide to Methods and Applications (M. A. Innis, D. H. Gelfand, J. J. Sninsky, and T. J. White, Eds.), pp. 307-314. Academic Press, New York.
64. Spear, M. C., Royse, D. J., and May, B. 1983. Atypical meiosis and joint segregation of biochemical loci in Agaricus brunnescens. J. Hered. 74: 417-420.
65. Summerbell, R. C., Castle, A. J., Horgen, P. A., and Anderson, J. B. 1989. Inheritance of restriction fragment length polymorphisms in Agaricus brunnescens. Genetics 123: 293-300.
66. Vilgalys, R., and Gonzalez, D. 1990. Organization of ribosomal DNA in the Basidiomycete Thanatephorus praticola. Curr. Genet. 18: 277-280.
67. Walker, W. F., and Doolittle, W. F. 1982. Redividing the basidiomycetes on the basis of 5S rRNA sequences. Nature 299: 723-724.
68. Ward, E., and Akrofi, A. Y. 1994. Identification of fungi in the Gaeumannomyces-Phialophora complex by RFLPs of PCR-amplifted ribosomal DNAs. Mycol. Res. 98: 219-224.
69. White, T. J., Bruns, T., 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 (M. A. Innis, D. H. Gelfand, J. J. Sninsky, and T. J. White, Eds.), pp. 315-322. Academic Press, New York.
70. Woese, C. R., and Olsen, G. J. 1986. Archaebacterial phylogeny: Perspectives on the urkingdoms. Syst. Appl. Microbiol. 7: 161-177.
71. Yoon, C., Gessner, R. V., and Romano, M. A. 1990. Population genetics and systematics of the Morchella esculenta complex Mycologia 82: 227-235.
72. Zervakis, G., Sourdis, J., and Balis, C. 1994. Genetic variability and systematics of eleven Pleurotus ostreatus species based on isozyme analysis. Mycol. Res. 98: 329-341.
73. Zolan, M. E., and Pukkila, P. J. 1986. Inheritance of DNA methylation in Coprinus cinereus. Mol. Cell Biol. 6: 195-200.