PCR amplification of ribosomal DNA for species identification in the plant pathogen genus Phytophthora

Applied and Environmental Microbiology

Volumn 64, Issue 3, 1998, Pages 948-954

  Ristaino, Jean B ^a   Madritch, Michael ^a   Trout, Carol L ^a   Parra, Gregory ^a  

^a NORTH CAROLINA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

RIBOSOME DNA;

AGRICULTURE; ARTICLE; BACTERIUM IDENTIFICATION; GENE AMPLIFICATION; NONHUMAN; NUCLEOTIDE SEQUENCE; OOMYCETES; PHYTOPHTHORA CAPSICI; PHYTOPHTHORA INFESTANS; POLYMERASE CHAIN REACTION; RESTRICTION FRAGMENT;

PHYTOPHTHORA;

EID: 0031934217     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.64.3.948-954.1998     Document Type: Article

References (46)

1. Benson, D. M. 1991. Detection of Phytophthora cinnamomi in azalea with commercial serological assay kits. Plant Dis. 75:478-482.
2. Bruns, T. D., T. J. White, and J. W. Taylor. 1991. Fungal molecular systematics. Annu. Rev. Ecol. Syst. 22:525-564.
3. Cooke, D. E. L., and J. M. Duncan. 1997. Phylogenetic analysis of Phytophthora species based on ITS 1 and 2 sequences of the rDNA gene repeat. Mycol. Res. 101:667-677.
4. Duncan, J. 1995. Fungal and bacterial diseases. Report of the Scottish Crops research Institute, Dundee, Scotland.
5. Ersek, T., J. E. Schoeltz, and J. T. English. 1994. PCR amplification of species-specific DNA sequences can distinguish among Phytophthora species. Appl. Environ. Microbiol. 60:2616-2621.
6. Farr, D. F., G. F. Bill, G. P. Chamuris, and A. Y. Rossman. 1989. Fungi on plants and plant products in the United States. American Phytopathological Society Press, St. Paul, Minn.
7. Forster, H., T. G. Kinscherf, S. A. Leong, and D. P. Maxwell. 1989. Restriction fragment length polymorphism of the mitochondrial DNA of Phytophthora megasperma isolated from soybean, alfalfa, and fruit trees. Can. J. Bot. 67:529-537.
8. Forster, H., P. Oudemans, and M. D. Coffey. 1990. Mitochondrial and nuclear DNA diversity within six species of Phytophthora. Exp. Mycol. 14:18-31.
9. Forster, H., M. Coffey, H. Elwood, and M. L. Sogin. 1990. Sequence analysis of the small subunit ribosomal RNA's of three zoosporic fungi and implications for fungal evolution. Mycologia 82:306-312.
10. Forster, H., and M. D. Coffey. 1993. Molecular taxonomy of Phytophthora megasperma based on mitochondrial and nuclear DNA polymorphisms. Mycol. Res. 97:1101-1112.
11. Forster, H., G. Learn, and M. D. Coffey. 1995. Towards a better understanding of the evolutionary history of the species of the genus Phytophthora using isozymes, DNA RFLP's, and rDNA spacer sequences, p. 42-54. In L. J. Dowley, E. Bannon, L. R. Cooke, T. Keane, and E. O'Sullivan (ed.), Phytophthora 150. European Association for Potato Research. Boole, Ltd., Dublin, Ireland.
12. Galindo, A. J., and H. R. Hohl. 1985. Phytophthora mirabilis a new species of Phytophthora. Sydowia 38:87-96.
13. Goodwin, P. H., B. C. Kirkpatrick, and J. M. Duniway. 1989. Cloned DNA probes for identification of P. parasitica. Phytopathology 79:716-721.
14. Goodwin, P. H., B. C. Kirkpatrick, and J. M. Duniway. 1990. Identification of Phytophthora citrophthora with cloned DNA probes. Appl. Environ. Microbiol. 56:669-674.
15. 14a. Graham, J. Personal communication.
16. Hall, G. 1993. An integrated approach to the analysis of variation in Phytophthora nicotianae and a redescription of the species. Mycol. Res. 97:559-574.
17. Hansen, E. M., C. M. Braiser, D. S. Shaw, and P. B. Hamm. 1986. The taxonomic structure of Phytophthora megasperma: evidence for emerging biological species groups. Trans. Br. Mycol. Soc. 87:557-573.
18. Hansen, E. M., and D. P. Maxwell. 1991. Species of the Phytophthora megasperma complex. Mycologia 83:376-381.
19. Higgins, D. G., and P. M. Sharp. 1989. Fast and sensitive multiple sequence alignments on a microcomputer. CABIOS 5:151-153.
20. Innis, M. A, D. H. Gelfand, J. J. Sninsky, and T. J. White. 1990. PCR protocols: a guide to methods and applications. Academic Press, Inc., New York, N.Y.
21. Kannwischer, M. E., and D. J. Mitchell. 1978. The influence of a fungicide on the epidemiology of black shank of tobacco. Phytopathology 68:1760-1765.
22. Lee, S. B., and J. W. Taylor. 1992. Phylogeny of five fungus-like protoctistan Phytophthora species, inferred from internal transcribed spacers of ribosomal DNA. Mol. Biol. Evol. 9:636-653.
23. Lee, S. B., T. J. White, and J. W. Taylor. 1993. Detection of Phytophthora species by oligonucleotide hybridization to amplified ribosomal DNA spacers. Phytopathology 83:177-181.
24. MacDonald, J. D., J. Stites, and J. Kabashima. 1990. Comparison of serological and culture plate methods for detection of Phytophthora species. Plant Dis. 74:655-659.
25. Milholland, R. D. 1994. A monograph of Phytophthora fragariae and the red stele disease of strawberry. North Carolina Agricultural Research Service technical bulletin 306. North Carolina Agricultural Research Service, Raleigh.
26. Mircetich, S. M., G. T. Browne, W. Krueger, and W. Schreader. 1985. Phytophthora species isolated from surface water irrigation sources in California. Phytopathology 75:1346-1347.
27. Moller, E. M., A. W. A. M. De Cock, and H. H. Prell. 1993. Mitochondrial and nuclear DNA restriction enzyme analysis of the closely related Phytophthora species, P. infestans, P. mirabilis, and P. phaseoli. J. Phytopathol. 139: 309-321.
28. Newhook, F. J., G. M. Waterhouse, and O. J. Stamps. 1976. Tabular key to the species of Phytophthora. Mycotaxon 32:199-217.
29. Oudemans, P., and M. D. Coffey. 1991. A revised systematics of twelve papillate Phytophthora species based on isozyme analysis. Mycol. Res. 95: 1025-1046.
30. Oudemans, P., H. Forster, and M. D. Coffey. 1994. Evidence for distinct isozyme subgroups within Phytophthora citricola and close relationships with P. capsici and P. citrophthora. Mycol. Res. 98:189-199.
31. Panabieres, F., A. Marais, F. Trentin, P. Bonnet, and P. Ricci. 1989. Repetitive DNA polymorphism analysis as a tool for identifying Phytophthora species. Phytopathology 79:1105-1109.
32. Redecker, D., H. Thierfelder, C. Walker, and D. Werner. 1997. Restriction analysis of PCR-amplified internal transcribed spacers of ribosomal DNA as a tool for species identification in different genera of the order Glomales. Appl. Environ. Microbiol. 63:1756-1761.
33. Rhodes, D. D., and D. J. Roufa. 1989. SEQAID II. University of Kansas, Manhattan.
34. Stammler, G., and E. Seemuller. 1993. Specific and sensitive detection of Phytophthora fragariae var. rubi in raspberry roots by PCR amplification. J. Plant Dis. Prot. 100:394-400.
35. Stammler, G., E. Seemuller, and J. M. Duncan. 1993. Taxonomic characterization of Phytophthora fragariae by DNA hybridization and restriction fragment length polymorphism analysis. Mycol. Res. 97:150-156.
36. Stamps, D. J., G. M. Waterhouse, F. J. Newhook, and G. S. Hall. 1990. Revised tabular key to the species of Phytophthora. Mycology papers no. 162. C.A.B. International Mycological Institute, Egham, England.
37. Tooley, P. W., M. M. Carras, and K. F. Falkenstein. 1996. Relationships among group IV Phytophthora species inferred by restriction analysis of ITS 2 region. J. Phytopathol. 144:363-369.
38. Tooley, P. W., B. A. Bunyard, M. M. Carras, and E. Hatziloukas. 1997. Development of PCR primers from internal transcribed spacer region 2 for detection of Phytophthora species infecting potatoes. Appl. Environ. Microbiol. 63:1467-1475.
39. Trout, C. L., J. B. Ristaino, M. Madritch, and T. Wangsoomboondee. 1997. Rapid detection of Phytophthora infestans in late blight infected potatoes and tomatoes using PCR. Plant Dis. 81:1042-1048.
40. Wang, H., M. Qi, and A. J. Cutler. 1993. A simple method of preparing plant samples for PCR. Nucleic Acids Res. 21:4153-4154.
41. Waterhouse, G. M. 1963. Key to the species of Phytophthora de Bary. Mycological Papers 92. Commonwealth Mycological Institute, Kew, Surrey, England.
42. White, T. J., T. Bruns, S. Lee, and J. Taylor. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics, p. 315-322. In M. A. Innis, D. H. Gelfand, J. J. Sninsky, and T. J. White (ed.). PCR protocols: a guide to methods and applications. Academic Press, Inc., New York, N.Y.
43. Whiteside, J. O., S. M Garnsey, and L. W. Timmer. 1988. Compendium of citrus diseases. American Phytopathological Society Press, St. Paul, Minn.
44. 42a. Wilcox, W. F. Personal communication.
45. Wilcox, W. F. 1989. Identity, virulence and isolation frequency of seven Phytophthora species causing root rot of raspberry in New York. Phytopathology 79:93-101.
46. Wilcox, W. F., and J. Mircetich. 1987. Lack of host specificity among isolates of P. megasperma. Phytopathology 77:1132-1137.