A phylogenetic analysis of the SSU rRNA from members of the Plasmodiophorida and Phagomyxida

Protist

Volumn 152, Issue 1, 2001, Pages 43-51

  Bulman, Simon R ^a   Kühn, Stefanie F ^b   Marshall, John W ^a   Schnepf, Eberhard ^c  

^a THE NEW ZEALAND INSTITUTE FOR PLANT AND FOOD RESEARCH LIMITED   (New Zealand)

^b UNIVERSITY OF BREMEN   (Germany)

^c UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMALIA; EUKARYOTA; FUNGI; PLASMODIOPHORIDA; PROTOZOA; RHIZOPODA;

EID: 0035339336     PISSN: 14344610     EISSN: None     Source Type: Journal    
DOI: 10.1078/1434-4610-00042     Document Type: Article

References (33)

1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215: 403-410
2. Barr DJS (1992) Evolution and kingdoms of organisms from the perspective of a mycologist. Mycologia 84: 1-11
3. Braselton JP (1988) Karyology and Systematics of Plasmodiophoromycetes. In Cooper JI, Ascher MJC (eds) Viruses with Fungal Vectors, The Association of Applied Biologists, Wellesbourne, Warwick, UK 1988, pp 139-152
4. Braselton JP (1995) Current status of the Plasmodiophorids. Crit Rev Microbiol 21: 263-275
5. Bulman SR, Marshall JW (1998) Detection of Spongospora subterranea in potato tuber lesions using the polymerase chain reaction (PCR). Plant Pathol 47: 759-766
6. Castlebury LA, Domier LL (1998) Small subunit ribosomal RNA phylogeny of Plasmodiophora brassicae. Mycologia 90: 102-107
7. Cavalier-Smith T (1996/97) Amoeboflagellates and mitochondrial cristae in eukaryote evolution: megasystems of the new protozoan subkingdoms Eozoa and Neozoa. Arch Protistenkd 147: 237-257
8. Cavalier-Smith T (1998) Neomonada and the Origin of Animals and Fungi. In Coombs GH, Vickerman K, Sleigh MA, Warren A (eds) Evolutionary Relationships Among Protozoa. Kluwer, London, pp 375-407
9. Cavalier-Smith T (2000) Flagellate Megaevolution: the Basis for Eukaryote Diversification. In Green JR, Leadbeater BSC (eds) The Flagellates. Taylor and Francis, London, pp 361-390
10. Cavalier-Smith T, Chao EE (1996/97) Sarcomonad ribosomal RNA sequences, rhizopod phylogeny, and the origin of euglyphid amoebae. Arch Protistenkd 147: 227-236
11. Dylewski DP (1990) Phylum Plasmodiophoromycota. In Margulis L, Corliss JO, Melkonian M, Chapman DJ (eds) Handbook of Protoctista. Jones and Bartlett Publ, Boston, pp 399-416
12. Faggian R, Bulman SR, Lawrie AC, Porter IJ (1999) Specific polymerase chain reaction primers for the detection of Plasmodiophora brassicae in soil and water. Phytopathology 89: 392-397
13. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791
14. Hasegawa M, Kishino H, Yano T (1985) Dating the human-ape split by a molecular clock of mitochondrial DNA. J Mol Evol 22: 160-174
15. Jones RA, Harrison BD (1969) The behaviour of potato mop-top virus in soil, and evidence for its transmission by Spongospora subterranea (Wallr.) Lagerh. Ann Appl Biol 63: 1-17
16. Karling JS (1944) Phagomyxa algarum n. gen. n. sp., an unusual parasite with plasmodiophoralean and protomyxean characteristics. Am J Bot 31: 38-52
17. nd Ed. Hafner Publishing Company, New York
18. Kühn S, Lange M, Medlin LK (2000) Phylogenetic position of Cryothecomonas inferred from nuclear-encoded small subunit ribosomal RNA. Protist 151: 337-345
19. Lake JA (1994) Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances. Proc Natl Acad Sci USA 91: 1455-1459
20. Lockhart PJ, Steel MA, Hendy MD, Penny D (1994) Recovering evolutionary trees under a more realistic model of sequence evolution. Mol Biol Evol 11: 605-612
21. Maier I, Parodi E, Westermeier R, Muller DG (2000) Maullinia ectocarpii gen. et sp. nov. (Plasmodiophorea), an intracellular parasite in Ectocarpus siliculosus (Ectocarpales, Phaeophyceae) and other filamentous brown algae. Protist 151: 225-238
22. Saitou N, Nei M (1987) The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425
23. Schnepf E (1994) A Phagomyxa-like endoparasite of the centric marine diatom Bellerochea malleus: a phagotrophic Plasmodiophoromycete. Bot Acta 107: 374-382
24. Schnepf E, Kühn S, Bulman S (2000) Phagomyxa bellerocheae sp. nov. and Phagomyxa odontellae sp. nov., plasmodiophoromycetes feeding on marine diatoms. Helgol Mar Res 54: 237-241
25. Swofford DL (2000) PAUP* Phylogenetic Analysis Using Parsimony (*and other methods). Sinauer Associates, Sunderland, Massachusetts
26. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-4680
27. Van de Peer Y, De Wachter, R (1994) TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput Appl Biosci 10: 569-570
28. Van de Peer Y, De Wachter R (1997) Evolutionary relationships among the eukaryotic crown taxa taking into account site to site rate variation in 18S rRNA. J Mol Evol 45: 619-630
29. Van de Peer Y, Van der Auwera G, De Wachter R (1996) The evolution of stramenopiles and alveolates as derived by "substitution rate calibration" of small ribosomal subunit RNA. J Mol Evol 42: 201-210
30. Van de Peer Y, Baldauf S, Doolittle WF, Meyer AA (2000) An updated and comprehensive phylogeny of the rRNA crown eukaryotes based on rate calibrated evolutionary distances. J Mol Evol 51: 565-76
31. Van de Peer Y, De Rijk P, Wuyts J, Winkelmans T, De Wachter R (2000) The European Small Subunit Ribosomal RNA database. Nucleic Acids Res 28: 175-176
32. Ward E, Adams MJ (1998) Analysis of ribosomal DNA sequences of Polymyxa species and related fungi and the development of genus-and species-specific PCR primers. Mycol Res 102: 965-974
33. White TJ, Bruns T, Lee S, Taylor J (1990) Amplification and Direct Sequencing of Fungal Ribosomal RNA Genes for Phylogenetics. In Innes MA, Gelfard DH, Sninsky JJ, White TJ (eds) PCR Protocols. A Guide to Methods and Applications. Academic Press, San Diego, pp 315-322