Amplification of mitochondrial small subunit ribosomal DNA of polypores and its potential for phylogenetic analysis

Mycologia

Volumn 94, Issue 5, 2002, Pages 823-833

  Hong, Soon Gyu ^a   Jeong, Wonjin ^a   Jung, Hack Sung ^b  

^a Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^b Seoul National University   (South Korea)

Author keywords

Ganoderma; Hymenomycetes; Information content; Universal primers

Indexed keywords

FUNGUS; GENE; MITOCHONDRIAL DNA; PHYLOGENETICS;

ADUSTA; AGROCYBE AEGERITA; BJERKANDERA; BJERKANDERA ADUSTA; FUNGI; GANODERMA; GANODERRAA LUCIDUM; HYMENOMYCETES; MYXOGASTRIA; PHELLINUS; PHELLINUS LAEVIGATUS; PHLEBIOPSIS GIGANTEA;

EID: 0036767963     PISSN: 00275514     EISSN: None     Source Type: Journal    
DOI: 10.1080/15572536.2003.11833176     Document Type: Article

References (33)

1. Alexopoulos CJ, Mims CW, Blackwell M. 1996. Introductory mycology. 4th ed. New York: John Wiley & Sons, Inc. 868 p.
2. Bruns TD, Szaro TM. 1992. Rate and mode differences between nuclear and mitochondrial small-subunit rRNA genes in mushrooms. Mol Biol Evol 9:836-855.
3. _, Vilgalys R, Barns SM, Gonzalez D, Hibbett DS, Lane DJ, Simon L, Stickel S, Szaro TM, Weisburg WG, Sogin ML. 1992. Evolutionary relationships within the fungi: analyses of nuclear small subunit rRNA sequences. Mol Phylogenet Evol 1:231-241.
4. _, White TJ, Taylor JW. 1991. Fungal molecular systematics. Annu Rev Myco Syst 22:525-564.
5. Carranza S, Giribet G, Ribera C, Baguna J, Riutort M. 1996. Evidence that two types of 18S rDNA coexist in the genome of Dugesia (Schmidtea) mediterranea (Platyhelminthes, Turbellaria, Tricladida). Mol Biol Evol 13:824-832.
6. Chun J. 1995. Computer-assisted classification and identification of actinomycetes [PhD Thesis]. Newcastle, UK: University of Newcastle upon Tyne. 416 p.
7. Donk MA. 1964. A conspectus of the families of Aphyllophorales. Persoonia 3:199-324.
8. Fatehi J, Bridge P. 1998. Detection of multiple rRNA-ITS regions in isolates of Ascochyta. Mycol Res 102:762-766.
9. Gilbertson RL, Ryvarden L. 1987. North American polypores. Vol. 2. Megasporoporia-Wrightoporia. Oslo, Norway: Fungiflora. 451 p.
10. Gonzalez P, Barroso G, Labarere J. 1997. DNA sequence and secondary structure of the mitochondrial small subunit ribosomal RNA coding region including a group-IC2 intron from the cultivated basidiomycete Agrocybe aegerita. Gene 184:55-63.
11. _, Labarere J. 1998. Sequence and secondary structure of the mitochondrial small-subunit rRNA V4, V6, and V9 domains reveal highly species-specific variations within the genus Agrocybe. Appl Environ Microbiol 64:4149-4160.
12. Hibbett DS, Donoghue MJ. 1995. Progress toward a phylogenetic classification of the Polyporaceae through parsimony analysis of mitochondrial ribosomal DNA sequences. Can J Bot 73(Suppl 1):S853-S861.
13. _, Pine EM, Langer E, Langer G, Donoghue MJ. 1997. Evolution of gilled mushrooms and puffballs inferred from ribosomal DNA sequences. Proc Natl Acad Sci USA 94:12002-12006.
14. Hillis DM, Dixon MT. 1991. Ribosomal DNA: molecular evolution and phylogenetic inference. Q Rev Biol 64:411-453.
15. _, Huelsenbeck JP. 1992. Signal, noise, and reliability in molecular phylogenetic analyses. J Hered 83:189-195.
16. Hong SG, Kang YW, Jung HS. 1993. Sequence analysis of the small subunit ribosomal RNA gene of Trimorphomyces papilionaceus mitochondria. Kor J Microbiol 31:471-477.
17. Jeong WJ, Hong SG, Kang YW, Jung HS. 1995. Restriction and transcription maps of mitochondrial DNA of Trimorphomyces papilionaceus. J Microbiol 33:149-153.
18. Lecellier G, Silar P. 1994. Rapid methods for nucleic acids extraction from Petri dish-grown mycelia. Curr Genet 25:122-123.
19. Mitchell JI, Roberts PJ, Moss ST. 1995. Sequence or structure?: a short review on the application of nucleic acid sequence information to fungal taxonomy. Mycologist 9:67-75.
20. Moncalvo JM, Wang HF, Hseu RS. 1995a. Gene phylogeny of the Ganoderma lucidum complex based on ribosomal DNA sequences. Comparison with traditional taxonomic characters. Mycol Res 99:1489-1499.
21. _, _, _. 1995b. Phylogenetic relationships in Ganoderma inferred from the internal transcribed spacers and 25S ribosomal DNA sequences. Mycologia 87:223-238.
22. Neefs JM, Van de Peer Y, De Rijk P, Chapelle S, De Wachter R. 1993. Compilation of small ribosomal subunit RNA structures. Nucl Acids Res 21:3025-3049.
23. O'Donnell K, Cigelnik E. 1997. Two divergent intragenomic rDNA ITS2 types within a monophyletic lineage of the fungus Fusarium are nonorthologous. Mol Phylogenet Evol 7:103-116.
24. Raeder U, Broda P. 1985. Rapid preparation of DNA from filamentous fungi. Letters Appl Microbiol 1:17-20.
25. Ryvarden L. 1991. Genera of polypores: nomenclature and taxonomy. Syn Fung 5:1-363.
26. Sanger F, Nicklen S, Coulson AR. 1977. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 74:5463-5467.
27. Swann EC, Taylor JW. 1993. Higher taxa of basidiomycetes: an 18S rRNA gene perspective. Mycologia 85:923-936.
28. Swofford DL. 1998. PAUP*. Phylogenetic analysis using parsimony (*and other methods). Version 4. Sunderland, Massachusetts: Sinauer Associates.
29. Tang J, Toè L, Back C, Unnasch TR. 1996. Intra-specific heterogeneity of the rDNA internal transcribed spacer in the Simulium damnosum (Diptera: Simuliidae) complex. Mol Biol Evol 13:244-252.
30. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl Acids Res 25:4876-4882.
31. White TJ, Bruns T, Lee S, Taylor J. 1989. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis M, Gelfand DH, Sninsky JJ, White TJ, eds. PCR protocols: a guide to methods and applications. San Diego, California: Academic Press Inc. p 315-322.
32. Wilmotte A, van de Peer Y, Goris A, Chapelle S, de Baere R, Nelissen B, Neefs JM, Hennebert GL, de Wachter R. 1993. Evolutionary relationships among higher fungi inferred from small ribosomal subunit RNA sequence analysis. System Appl Microbiol 16:436-444.
33. Yan ZH, Rogers SO, Wang CJK. 1995. Assessment of Phialophora species based on ribosomal DNA internal transcribed spacers and morphology. Mycologia 87:72-83.