Ribosomal DNA-targeted oligonucleotide probe and PCR assay specific for Fusarium oxysporum

Mycological Research

Volumn 104, Issue 5, 2000, Pages 518-526

  Edel, V ^a   Steinberg, C ^a   Gautheron, N ^a   Alabouvette, C ^a  

^a CEMAGREF   (France)

Author keywords

[No Author keywords available]

Indexed keywords

DOT HYBRIDIZATION; FUNGAL DNA; FUNGUS IDENTIFICATION; OLIGONUCLEOTIDE PROBE; POLYMERASE CHAIN REACTION; PRIMER DNA; RIBOSOMAL DNA;

FUSARIUM OXYSPORUM;

EID: 0034126751     PISSN: 09537562     EISSN: None     Source Type: Journal    
DOI: 10.1017/S0953756299001896     Document Type: Article

References (56)

1. Alabouvette, C., Lemanceau, P. & Steinberg, C. (1993) Recent advances in biological control of Fusarium wilts. Pesticide Sciences 37: 365-373.
2. Amann, R. I. (1995) Fluorescently labelled, rRNA-targeted oligonucleotide probes in the study of microbial ecology. Molecular Ecology 4: 543-554.
3. Appel, D. J. & Gordon, T. R. (1994) Local and regional variation in populations of Fusarium oxysporum from agricultural field soils. Phytopathology 84: 786-791.
4. Arganoza, M. T. & Akins, R. A. (1995) A modified colony-filter-hybridization protocol for filamentous fungi. Trends in Genetics 11: 381-382.
5. Assmus, B., Hutzler, P., Kirchhof, G., Amann, R., Lawrence, J. R. & Hartmann, A. (1995) In situ localization of Azospirillum brasiliense in the rhizosphere of wheat with fluorescently labeled, rRNA-targeted oligonucleotide probes and scanning confocal laser microscopy. Applied and Environmental Microbiology 61: 1013-1019.
6. Baayen, R. P., van Dreven, F., Krijger, M. C. & Waalwijk, C. (1997) Genetic diversity in Fusarium oxysporum f. sp. dianthi and Fusarium redolens f. sp. dianthi. European Journal of Plant Pathology 103: 395-408.
7. Bateman, G. L., Kwasna, H. & Ward, E. (1996) Relationships among Fusarium spp. estimated by comparing restriction fragment length polymorphisms in polymerase chain reaction-amplified nuclear DNA. Canadian Journal of Microbiology 42: 1232-1240.
8. Beck, J. J. & Ligon, J. M. (1995). Polymerase chain reaction assays for the detection of Stagonospora nodorum and Septoria tritici in wheat. Phytopathology 85: 319-324.
9. Burgess, L. W. & Trimboli, D. (1986) Characterization and distribution of Fusarium nygamai, sp. nov. Mycologia 78: 223-229.
10. Cha, R. S. & Thilly, W. G. (1993) Specificity, efficiency, and fidelity of PCR. PCK Methods and Applications 3: S18-S29.
11. Dieffenbach, C. W., Lowe, T. M. J. & Dveksler, G. S. (1993) General concepts for PCR primer design. PCR Methods and Applications 3: S30-S37.
12. Donaldson, G. C., Ball, L. A., Axelrood, P. E. & Glass, N. L. (1995) Primer sets developed to amplify conserved genes from filamentous ascomycetes are useful in differentiating Fusarium species associated with conifers. Applied and Environmental Microbiology 61: 1331-1340.
13. Doohan, F. M., Parry, D. W., Jenkinson, P. & Nicholson, P. (1998) The use of species-specific PCR-based assays to analyse Fusarium ear blight of wheat. Plant Pathology 47: 197-205.
14. Edel, V. (1999) Développement de méthodes d'identification et de caractérisation moléculaire pour l'étude de l'écologie de Fusarium oxysporum. Thèse de Doctorat, Université de Bourgogne, Dijon, France.
15. Edel, V., Steinberg, C., Avelange, I., Laguerre, G. & Alabouvette, C. (1995) Comparison of three molecular methods for the characterization of Fusarium oxysporum strains. Phytopathology 85: 579-585.
16. Edel, V., Steinberg, C., Gautheron, N. & Alabouvette, C. (1977a). Evaluation of restriction analysis of polymerase chain reaction (PCR)-amplified ribosomal DNA for the identification of Fusarium species. Mycological Research 101: 179-187.
17. Edel, V., Steinberg, C., Gautheron, N. & Alabouvette, C. (1997b) Populations of nonpathogenic Fusarium oxysporum associated with roots of four plant species compared to soilborne populations. Phytopathology 87: 693-697.
18. Fisher, N. L., Burgess, L. W., Toussoun, T. A. & Nelson, P. E. (1982) Carnation leaves as a substrate and for preserving cultures of Fusarium species. Phytopathology 72: 151-153.
19. Gams, W. (1971) Cephalosporium - artige Schimmelpilze (Hyphomycetes). Gustav Fischer, Stuttgart.
20. Gardes, M., White, T. J., Fortin, J. A., Bruns, T. D. & Taylor, J. W. (1991) Identification of indigenous and introduced symbiotic fungi in ectomycorrhizae by amplification of nuclear and mitochondrial ribosomal DNA. Canadian Journal of Botany 69: 180-190.
21. Gerlach, W. & Nirenberg, H. (1982) The Genus Fusarium - a Pictorial Atlas. Biologische Bundesanstalt für Land-und Forstwirtschaft, Berlin.
22. Gordon, T. R. & Okamoto, D. (1992) Variation within and between populations of Fusarium oxysporum based on vegetative compatibility and mitochondrial DNA. Canadian Journal of Botany 70: 1211-1217.
23. Guadet, J., Julien, J., Lafay, J. F. & Brygoo, Y. (1989) Phylogeny of some Fusarium species as determined by large-subunit rRNA sequence comparison. Molecular Biology and Evolution 6: 227-242.
24. Kabir, M. M., Faure, D., Haurat, J., Normand, P., Jacoud, C., Wadoux, P. & Bally, R. (1995) Oligonucleotide probes based on 16S rRNA sequences for the identification of four Azospirillum species. Canadian Journal of Microbiology 41: 1081-1087.
25. Keller, K. O., Engel, B. & Heinrich, K. (1995) Specific detection of Gaeumannomyces graminis in soil using polymerase chain reaction. Mycological Research 99: 1385-1390.
26. Kinsey, J. A. (1989). A simple colony blot procedure for Neurospora. Fungal Genetics Newsletter 36: 45-46.
27. Kistler, H. C. (1997) Genetic diversity in the plant-pathogenic fungus Fusarium oxysporum. Phytopathology 87: 474-479.
28. Komada, H. (1975) Development of a selective medium for quantitative isolation of Fusarium oxysporum from natural soil. Review of Plant Protection Research 8: 114-124.
29. Lathe, R. (1985) Synthetic oligonucleotide probes deduced from amino acid sequence data. Theoretical and practical considerations. Journal of Molecular Biology 183: 1-12.
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. Lévesque, C. A., Harlton, C. E. & de Cock, A. W. A. M. (1998) Identification of some oomycetes by reverse dot blot hybridization. Phytopathology 88: 213-222.
32. Li, K.-N., Rouse, D. I. & German, T. L. (1994) PCR primers that allow intergeneric differentiation of ascomycetes and their application to Verticillium spp. Applied and Environmental Microbiology 60: 4324-4331.
33. Li, S., Cullen, D., Hjort, M., Spear, R. & Andrews, J. H. (1996) Development of an oligonucleotide probe for Aureobasidimn pullulans based on the small-subunit rRNA gene. Applied and Environmental Microbiology 62: 1514-1518.
34. Logrieco, A., Peterson, S. W. & Bottalico, A. (1995) Phylogenetic relationship within Fusarium sambucinum Fuckel sensu lato, determined from ribosomal RNA sequences. Mycopathologia 129: 153-158.
35. Manz, W., Amann, R., Ludwig, W., Wagner, M. & Schleifer, K.-H. (1992) Phylogenetic olideoxynucleotide probes for the major subclasses of proteobacteria: problems and solutions. Systematic and Applied Microbiology 15: 593-600.
36. Marasas, W. F. O., Nelson, P. E. & Toussoun, T. A. (1985) Fusarium dlamini, a new species from southern Africa. Mycologia 77: 971-975.
37. Marasas, W. F. O., Rabie, C. J., Lübben, A., Nelson, P. E., Toussoun, T. A. & Van Wyk, P. S. (1987) Fusarium napiforme, a new species from millet and sorghum in southern Africa. Mycologia 79: 910-914.
38. Mes, J. J., Weststeijn, E. A., Herlaar, F., Lambalk, J. J. M., Wijbrandi, J., Haring, M. A. & Cornelissen, B. J. C. (1999) Biological and molecular characterization of Fusarium oxysporum f. sp. lycopersici divides race 1 isolates into separate virulence groups. Phytopathology 89: 156-160.
39. Moukhamedov, R., Hu, X., Nazar, R. N. & Robb, J. (1994) Use of polymerase chain reaction-amplified ribosomal intergenic sequences for the diagnosis of Verticillium tricorpus. Phytopathology 84: 256-259.
40. Murillo, I., Cavallarin, L. & San Segundo, B. (1998) The development of a rapid PCR assay for detection of Fusarium moniliforme. European Journal of Plant Pathology 104: 301-311.
41. Nelson, P. E., Toussoun, T. A. & Cook, R. J. (1981) Fusarium: Diseases, Biology and Taxonomy. The Pennsylvania State University Press, University Park and London.
42. Nelson, P. E., Toussoun, T. A. & Marasas, W. F. O. (1983) Fusarium species. An Illustrated Manual for Identification. The Pennsylvania State University Press, University Park and London.
43. O'Donnell, K. (1993) Fusarium and its near relatives. In The Fungal Holomorph: Mitotic, Meiotic and Pleomorphic Speciation in Fungal systematic (D. R. Reynolds & J. W. Taylor, eds): 225-233. CAB International, Wallingford.
44. O'Donnell, K. & Cigelnik, E. (1997) Two divergent intragenomic rDNA ITS2 types within a monophyletic lineage of the fungus Fusarium are nonorthologous. Molecular Phylogenetics and Evolution 7: 103-116.
45. O'Donnell, K., Cigelnik, E. & Nirenberg, H. I. (1998) Molecular systematics and phylogeography of the Gibberella fujikuroi species complex. Mycologia 90: 465-493.
46. Parry, D. W. & Nicholson, P. (1996) Development of a PCR assay to detect Fusarium poae in wheat. Plant Pathology 45: 383-391.
47. Rönner, S. G. E. & Stackenbrandt, E. (1994) Development of 23S rDNA-oligonucleotide probes for the identification of Salmonella species. Systematic and Applied Microbiology 17: 257-264.
48. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989) Molecular Cloning. A Laboratory Manual. Cold Spring Harbor Laboratory Press, New York.
49. Schilling, A. G., Möller, E. M. & Geiger, H. H. (1996) Polymerase chain reaction-based assays for species-specific detection of Fusarium culmorum, F. graminearum, and F. avenaceum. Phytopathology 86: 515-522.
50. Schmitz, G. G., Walter, T., Seibl, R. & Kessler, C. (1991) Nonradioactive labeling of oligonucleotides in vitro with the hapten digoxigenin by tailing with terminal transferase. Analytical Biochemistry 192: 222-231.
51. Stahl, D. A. & Amann, R. (1991) Development and application of nucleic acid probes. In Nucleic acid techniques in bacterial systematics (E. Stackenbrandt & M. Goodfellow, eds): 205-248. Wiley J. & Sons Ltd, Chichester, UK.
52. Turner, A. S., Lees, A. K., Rezanoor, H. N. & Nicholson, P. (1998) Refinement of PCR-detection of Fusarium avenaceum and evidence from DNA marker studies for phenetic relatedness to Fusarium tricinctum. Plant Pathology 47: 278-288.
53. Vakalounakis, D. J. & Fragkiadakis, G. A. (1999) Genetic diversity of Fusarium oxysporum isolates from cucumber: differentiation by pathogenicity, vegetative compatibility, and RAPD fingerprinting. Phytopathology 89: 161-168.
54. Waalwijk, C., de Koning, J. R. A., Baayen, R. P. & Gams, W. (1996) Discordant groupings of Fusarium spp. from sections Elegans, Liseola and Dlaminia based on ribosomal ITS1 and ITS2 sequences. Mycologia 88: 361-368.
55. Wang, G. C.-Y. & Wang, Y. (1995) Rapid differentiation of bacterial species with multiple probes of different lengths in a single slot blot hybridization. Applied and Environmental Microbiology 61: 4269-4273.
56. 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 (M. A. Innis, D. H. Gelfand, J. J. Sninsky & T. J. White): 315-322. Academic Press, San Diego.