Phylogenetic analysis of Phytophthora species based on ITS1 and ITS2 sequences of the ribosomal RNA gene repeat

Mycological Research

Volumn 101, Issue 6, 1997, Pages 667-677

  Cooke, David E L ^a   Duncan, James M ^a  

^a SCOTTISH CROP RESEARCH INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

AGAR; FUNGAL GENETICS; INTERNAL TRANSCRIBED SPACER REGION; PHYLOGENETIC ANALYSIS; POLYMERASE CHAIN REACTION; RIBOSOMAL RNA;

PHYTOPHTHORA CACTORUM; PHYTOPHTHORA CAMBIVORA; PHYTOPHTHORA CAPSICI; PHYTOPHTHORA CIFRICOLA; PHYTOPHTHORA CINNAMOMI; PHYTOPHTHORA CITRICOLA; PHYTOPHTHORA CITROPHTHORA; PHYTOPHTHORA CRYPTOGEA; PHYTOPHTHORA DRECHSLERI; PHYTOPHTHORA FRAGARIAE; PHYTOPHTHORA IDAEI; PHYTOPHTHORA INFESTANS; PHYTOPHTHORA MEGAKARYA; PHYTOPHTHORA MEGASPERMA; PHYTOPHTHORA NICOTIANAE; PHYTOPHTHORA PALMIVORA; PHYTOPHTHORA PSEUDOTSUGE;

EID: 0031462219     PISSN: 09537562     EISSN: None     Source Type: Journal    
DOI: 10.1017/S0953756296003218     Document Type: Article

References (46)

1. Auwera, G., Chapelle, S. & Wachter, R. (1994). Structure of the large ribosomal subunit RNA of Phytophthora megasperma, and phylogeny of the oomycetes. FEBS Letters 338, 133-136.
2. Berbee, M. L. & Taylor, J. W. (1992). Dating the evolutionary radiations of the true fungi. Canadian Journal of Botany 71, 1114-1127.
3. Brasier, C. M. & Hansen, E. M. (1992). Evolutionary biology of Phytophthora. Part II: Phylogeny, speciation and population structure. Annual Review of Phytopathology 30, 173-200.
4. Brasier, C. M., Hamm, P. B. & Hansen, E. M. (1993). Cultural characters, protein patterns and unusual mating behaviour of Phytophthora gonapodyides isolates from Britain and North America. Mycological Research 97, 1287-1298.
5. Briard, M., Dutertre, M., Rouxel, F. & Brygoo, Y. (1995). Ribosomal RNA sequence divergence within the Pythiaceae. Mycological Research 99, 1119-1127.
6. Carter, D. A., Archer, S. A., Buck, K. W., Shaw, D. S. & Shattock, R. C. (1990). Restriction fragment length polymorphisms of mitochondrial DNA of Phytophthora infestans. Mycological Research 94, 1123-1128.
7. Converse, R. H. & Schwartze, K. K. (1960). A root rot of red raspberry caused by Phytophthora erythroseptica. Phytopathology 58, 56-59.
8. Cooke, D. E. L., Duncan, J. M. & Unkles, S. E. (1995). Diagnosis and detection of Phytophthora fragariae in raspberry and strawberry. OEPP/EPPO Bulletin 25, 95-98.
9. Cooke, D. E. L., Kennedy, D. M., Guy, D. C., Russell, J., Unkies, S. E. & Duncan, J. M. (1996). Relatedness of Group I species of Phytophthora as assessed by RAPDs and sequences of ribosomal DNA. Mycological Research 100, 297-303.
10. Cooke, D. E. L., Duncan, J. M. & Lacourt, I. (1995). PCR-based detection of Phytophthora species in horticultural crops. In BCPC Symposium Proceedings No. 63. Integrated Crop Protection - Towards Sustainability, 159-163.
11. Devereux, J., Haeberli, P. & Smithies, O. (1984). A comprehensive set of sequence-analysis programmes for the VAX. Nucleic Acids Research 12, 387-395.
12. Drechsler, C. (1931). A crown rot of hollyhock caused by Phytophthora megasperma n. sp. Journal of Washington Academic Science 21, 513-526.
13. Duncan, J. M., Kennedy, D. M. & Seemüller, E. (1987). Identities and pathogenicities of Phytophthora spp. causing root rot of raspberry. Plant Pathology 36, 276-289.
14. Elliott, C. G., Hendrie, M. R. & Knights, B. A. (1966). The sterol requirement of Phytophthora cactorum. Journal of General Microbiology 42, 425-435.
15. Felsenstein, J. (1993). PHYLIP: Phylogeny inference package (version 3.5c). Distributed by the author, Department of Genetics, University of Washington, Seattle, U.S.A.
16. Förster, H. & Coffey, M. D. (1992). Molecular characterization of Phytophthora isolates with non-papillate sporangia causing root rot of raspberry using mtDNA restriction fragment length polymorphisms. Mycological Research 96, 571-577.
17. Förster, H. & Coffey, M. D. (1993). Molecular taxonomy of Phytophthora megasperma based on mitochondrial and nuclear DNA polymorphisms. Mycological Research 97, 1101-1112.
18. Förster, H., Learn, G. & Coffey, M. D. (1995). Towards a better understanding of the evolutionary history of species of the genus Phytophthora using isozymes, DNA RFLPs and ribosomal spacer sequences. In Proceedings of the European Association for Potato Research Conference: Phytophthora infestans 150 (ed. L. J. Dowley, E. Bannon, L. R. Cooke, T. Keane & E. O'Sullivan), pp. 42-54. Boole Press Ltd: Dublin, Ireland.
19. Gaümann, E. A. & Wynd, F. L. (1952). The Fungi. Hafner, New York.
20. Gray, M. W., Sankoff, D. & Cedergreen, R. J. (1984). On the evolutionary descent of organisms and organelles: a global phylogeny based on a highly conserved structural core in the small subunit ribosomal RNA. Nucleic Acids Research 12, 5834-5852.
21. Hamm, P. B. & Hansen, E. M. (1981). Host specificity of Phytophthora megasperma from Douglas fir, soybean, and alfalfa. Phytopathology 71, 65-68.
22. Hansen, E. M. & Maxwell, D. P. (1991). Species of the Phytophthora megasperma complex. Mycologia 83, 376-381.
23. Hansen, E. M., Brasier, C. M., Shaw, D. S. & Hamm, P. B. (1986). The taxonomic structure of Phytophthora megasperma: evidence for emerging biological species groups. Transactions of the British Mycological Society 87, 557-573.
24. Hickman, C. J. (1940). The red core root disease of strawberry caused by Phytophthora fragariae, n. sp. Journal of Pomology and Horticultural Science 18, 89-118.
25. Higgins, D. G., Bleasby, A. J. & Fuchs, R. (1992). ClustalV - Improved software for multiple sequence alignment. Computer Applications in the Biosciences 8, 189-191.
26. Jasalavich, C. A., Morales, V. M., Pelcher, L. E. & Seguin-Swartz, G. (1995). Comparison of nuclear ribosomal DNA sequences from Alternaria species pathogenic to crucifers. Mycological Research 99, 604-614.
27. Lacourt, I., Panabieres, F., Marais, A., Venard, P. & Ricci, P. (1994). Intraspecific polymorphism of Phytophthora parasitica revealed by analysis of mitochondrial-DNA restriction fragment length polymorphism. Mycological Research 98, 562-568.
28. Latorre, B. A., Perez, G. F., Wilcox, W. F. & Torres, R. (1995). Comparative protein electrophoretic and isoenzymic patterns of Phytophthora cryptogea isolates from Chilean kiwifruit and North American deciduous fruits. Plant Disease 79, 703-708.
29. Lee, S. B. & Taylor, J. W. (1992). Phylogeny of five fungus-like protoctistan Phytophthora species, inferred from the internal transcribed spacers of ribosomal DNA. Journal of Molecular Biology and Evolution 9, 636-653.
30. Lee, S. B., White, T. J. & Taylor, J. W. (1993). Detection of Phytophthora species by oligonucleotide hybridization to amplified ribosomal DNA spacers. Phytopathology 83, 177-181.
31. Mills, S. D., Förster, H. & Coffey, M. D. (1991). Taxonomic structure of Phytophthora cryptogea and P. drechsleri based on isozyme and mitochondrial DNA analyses. Mycological Research 95, 31-48.
32. Newhook, F. J., Waterhouse, G. M. & Stamps, D. J. (1978). Tabular key to the species of Phytophthora de Bary. Mycological Papers, Commonwealth Mycological Institute 143, 1-20.
33. Nues, R. W., Rientjes, J. M. J., van der Sande, C. A. F. M., Shuraila, F. Z., Sluiter, C., Venema, J., Planta, R. J. & Raué, H. A. (1994). Separate structural elements within internal transcribed spacer 1 of Saccharomyces cerevisiae precursor ribosomal RNA direct the formation of 17S and 26S rRNA. Nucleic Acids Research 22, 912-919.
34. Oudemans, P. & Coffey, M. D. (1991a). Isozyme comparison within and among worldwide sources of three morphologically distinct species of Phytophthora. Mycological Research 95, 19-30.
35. Oudemans, P. & Coffey, M. D. (1991b). A revised systematics of 12 papillate Phytophthora species based on isozyme analysis. Mycological Research 95, 1025-1046.
36. Oudemans, P., Förster, H. & Coffey, M. D. (1994). Evidence for distinct isozyme subgroups within Phytophthora citricola and close relationships with P. capsici and P. citrophthora. Mycological Research 98, 189-199.
37. Sherriff, C., Whelan, M. J., Arnold, G. M., Lafay, J.-F., Brygoo, Y. & Bailey, J. A. (1994). Ribosomal DNA sequence analysis reveals new species groupings in the genus Colletotrichum. Experimental Mycology 18, 121-138.
38. Stammler, G. (1992). Untersuchungen zur molekulargenetischen Differenzierung und zum Nachweis von an Himbeere vorkommenden Phytophthora- Arten unter besonderer Berücksichtigung von Phytophthora fragariae var. rubi. Doctorate Thesis, University of Heidelberg, Germany.
39. Stammler, G., Seemüller, E. & Duncan, J. M. (1993). Taxonomic characterisation of Phytophthora fragariae var. fragariae and P. fragariae var. rubi by DNA hybridization and restriction fragment length polymorphism analysis. Mycological Research 97, 150-156.
40. Stamps, D. J., Waterhouse, G. M., Newhook, F. J, & Hall, G. S. (1990). Revised tabular key to the species of Phytophthora, 2nd ed. Mycological Papers No. 162, CAB International Mycological Institute: Wallingford, Oxfordshire, England.
41. Tomkins, C. M., Tucker, C. M. & Gardner, M. W. (1936). Phytophthora root rot of cauliflower. Journal of Agricultural Research 53, 685-692.
42. Tucker, C. M. (1931). Taxonomy of the genus Phytophthora de Bary. Missouri Agricultural Experimental Station Research Bulletin No. 153, 208 pp.
43. Waterhouse, G. M. (1970). The genus Phytophthora de Bary. Mycological Papers 122, Commonwealth Mycological Institute, Kew, Surrey, England.
44. White, T. J., Bruns, T., Lee, S. & Taylor, J. (1990). Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR Protocols: A guide to Methods and Applications (ed. M. A. Innis, D. H. Gelfand, J. J. Sninsky & T. J. White), pp. 315-322. Academic Press: San Diego, U.S.A.
45. Wilcox, W. F., Scott, P. H., Kennedy, D. M., Duncan, J. M., Hamm, P. B., Brasier, C. & Hansen, E. M. (1992). Affinities of a Phytophthora species attacking raspberry in Europe and N. America. Mycological Research 97, 817-831.
46. Zambino, P. J. & Szabo, L. J. (1993). Phylogenetic relationships of selected cereal and grass rusts based on rDNA sequence analysis. Mycologia 85, 401-414.