Rapid population analysis of Magnaporthe grisea by using rep-PCR and endogenous repetitive DNA sequences

Phytopathology

Volumn 88, Issue 3, 1998, Pages 223-229

  George, M L C ^a   Nelson, R J ^b   Zeigler, R S ^a   Leung, H ^a  

^a INTERNATIONAL RICE RESEARCH INSTITUTE   (Philippines)

^b INTERNATIONAL POTATO CENTER   (Peru)

Author keywords

Population genetics; Pyricularia grisea; Rice blast

Indexed keywords

CLUSTER ANALYSIS; DNA FRAGMENT; DNA FRINGERPRINTING; FUNGAL GENETICS; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION;

MAGNAPORTHE GRISEA; PYRICULARIA GRISEA;

EID: 0031960260     PISSN: 0031949X     EISSN: None     Source Type: Journal    
DOI: 10.1094/PHYTO.1998.88.3.223     Document Type: Article

References (36)

1. Bailey, N. T. J. 1961. Introduction to the Mathematical Theory of Genetic Linkage. Oxford University Press, London.
2. Bernardo, M. A., Naqvi, N., Leung, H., Zeigler, R. S., and Nelson, R. J. 1993. A rapid method for DNA fingerprinting of the rice blast fungus Pyricularia grisea. Intl. Rice Res. Notes 18(1):48-49.
3. Borromeo, E. S., Nelson, R. J., Bonman, J. M., and Leung, H. 1993. Genetic differentiation among isolates of Pyricularia infecting rice and weed hosts. Phytopathology 83:393-399.
4. Chen, D. H., Zeigler, R. S., Leung, H., and Nelson, R. J. 1995. Population structure of Pyricularia grisea at two screening sites in the Philippines. Phytopathology 85:1011-1020.
5. Daboussi, M. J., Langin, T., and Brygoo, Y. 1992. Fotl, a new family of fungal transposable elements. Mol. Gen. Genet. 232:12-16.
6. de Bruijn, F. J. 1992. Use of repetitive (Repetitive Extragenic Palindromic and Enterobacterial Intergeneric Consensus) sequences and the polymerase chain reaction to fingerprint the genomes of Rhizobium meliloti isolates and other soil bacteria. Appl. Environ. Microbiol. 58:2180-2187.
7. Dobinson K. F., Harris, R. E., and Hamer, J. E. 1993. Grasshopper, a long terminal repeat (LTR) retroelement in the phytopathogenic fungus Magnaporthe grisea. Mol. Plant-Microbe Interact. 6:114-126.
8. Edel, V, Steinberg, C., Avelange, I., Laguerre, G., and Alabouvette, C. 1995. Comparison of three molecular methods for the characterization of Fusarium oxysporum strains. Phytopathology 85:579-585.
9. Farman, M. L., Satoru, T., and Leong, S. A. 1996. The Magnaporthe grisea DNA fingerprinting probe MGR586 contains the 3' end of an inverted repeat transposon. Mol. Gen. Genet. 251:675-681.
10. Farman, M. L., Tosa, Y., Nitta, N., and Leong, S. A. 1996. MAGGY, a retrotransposon in the genome of the rice blast fungus Magnaporthe grisea. Mol. Gen. Genet. 251:665-674.
11. Felsenstein, J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39:783-791.
12. George, M. L. C., Bustamam, M., Cruz, W. T., Leach, J. E., and Nelson, R. J. 1997. Movement of Xanthomonas oryzae pv. oryzae in southeast Asia detected using PCR-based DNA fingerprinting. Phytopathology 87:302-309.
13. Gilson, E., Clement, J. M., Brutlag, D., and Hofnung, M. 1984. A family of dispersed repetitive extragenic palindromic DNA sequences in E. coli. EMBO J. 3:1417-1421.
14. Hamer, J. E., Farrall, L., Orbach, M. J., Valent, B., and Chumley, F. G. 1989. Host species-specific conservation of a family of repeated DNA sequences in the genome of a fungal plant pathogen. Proc. Natl. Acad. Sci. USA 86:9981-9985.
15. Hamer, J. E., and Givan, S. 1990. Genetic mapping with dispersed repeated sequences in the rice blast fungus: Mapping the SMO locus. Mol. Gen. Genet. 223:487-495.
16. Hulton, C. S. J., Higgins, C. F., and Sharp, P. M. 1991. ERIC sequences: A novel family of repetitive elements in the genomes of Escherichia coli, Salmonella typhimurium and other enterobacteria. Mol. Microbiol. 5:825-834.
17. Kachroo, P., Leong, S. A., and Chattoo, B. B. 1994. Pot2, an inverted repeat transposon from the rice blast fungus Magnaporthe grisea. Mol. Gen. Genet. 245:39-348.
18. Kumar, J., Nelson, R. J., and Zeigler, R. S. 1996. Population structure of Magnaporthe grisea in the traditional Himalayan rice system. Pages 963-969 in: Rice Genetics III. International Rice Research Institute, Los Baños, Philippines.
19. Leung, H., Borromeo, E. S., Bernardo, M. A., and Notteghem, J. L. 1988. Genetic analysis of virulence in the rice blast fungus Magnaporthe grisea. Phytopathology 78:1227-1233.
20. Levy, M., Romao, J., Marchetti, M. A., and Hamer, J. E. 1991. DNA fingerprinting with a dispersed repeated sequence resolves pathotype diversity in the rice blast fungus. Plant Cell 3:95-102.
21. Louws, F. J., Fulbright, D. W., Stephens, C. T., and de Bruijn, F. J. 1994. Pathovar-specific genomic fingerprints of phytopathogenic Xanthomonas and Pseudomonas strains generated with repetitive sequences and the polymerase chain reaction (rep-PCR). Appl. Environ. Microbiol. 60:2286-2295.
22. Martin, B., Humbert, O., Camara, M., Guenzi, E., Walker, J., Mitchell, T., Andrew, P., Prudhomme, M., Alloing, G., Hakenbeck, R., Morrison, D. A., Boulnois, G. J., and Claverys, J. P. 1992. A highly conserved repeated DNA element located in the chromosome of Streptococcus pneumoniae. Nucleic Acids Res. 20:3479-3483.
23. Nelson, R. J., Baraoidan, M., Vera Cruz, C. M., Yap, I. V., Leach, J. E., Mew, T. W., and Leung, H. 1994. Relationship between phylogeny and pathotype for the bacterial blight pathogen of rice. Appl. Environ. Microbiol. 60:3275-3283.
24. Romao, J., and Hamer, J. E. 1992. Genetic organization of a repeated DNA sequence family tree in the rice blast fungus. Proc. Natl. Acad. Sci. USA 89:5316-5320.
25. Scott, R. P., Zeigler, R. S., and Nelson, R. J. 1993. A procedure for miniscale preparation of Pyricularia grisea DNA. Intl. Rice Res. Notes 18(1):47-48.
26. Shull, V., and Hamer, J. E. 1996. Genetic differentiation in the rice blast fungus revealed by the distribution of the Fosbury retrotransposon. Fungal Genet. Biol. 20:59-69.
27. Skinner, D. Z, Budde, A. D., Farman, M. L., Smith, J. R., Leung, H., and Leong, S. A. 1993. Genome organization of Magnaporthe grisea: Genetic map, electrophoretic karyotype, and occurrence of repeated DNAs. Theor. Appl. Genet. 87:545-557.
28. Valent, B., Farrall, L., and Chumley, F. G. 1991. Magnaporthe grisea genes for pathogenicity and virulence identified through a series of backcrosses. Genetics 127:87-101.
29. Van Etten, J. L., and Daly, J. M. 1980. Production of host-specific toxins by Helminthosporium victoriae and H. maydis in liquid shake culture. Phytopathology 70:727-729.
30. Vera Cruz, C. M., Ardales, E. Y, Skinner, D. Z., Talag, J., Nelson, R. J., Louws, F. J., Leung, H., Mew, T. W., and Leach, J. E. 1996. Measurement of haplotypic variation in Xanthomonas oryzae pv. oryzae within a single field by rep-PCR and RFLP analyses. Phytopathology 86:1352-1359.
31. Versalovic, J., Schneider, M., de Bruijn, F. J., and Lupski, J. R. 1994. Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction. Methods Mol. Cell. Biol. 5:25-40.
32. Weir, B. S. 1996. Genetic Data Analysis II. Sinauer Associates, Sunderland, MA.
33. Xia, J. Q., Corell, J. C., Lee, F. N., Marchetti, M. A., and Rhoads, D. D. 1993. DNA fingerprinting to examine microgeographic variation in the Magnaporthe grisea (Pyricularia grisea) population in two fields in Arkansas. Phytopathology 83:1029-1035.
34. Yap, I., and Nelson, R. J. 1996. WlNBOOT: A program for performing bootstrap analysis of binary data to determine the confidence limits of UPGMA-based dendrograms. Discuss. Pap. Ser. 14. International Rice Research Institute, Manila, Philippines.
35. Zeigler, R. S., Cuoc, L. X., Scott, R. P., Bemardo, M. A., Chen, D. H., Valent, B., and Nelson, R. J. 1995. The relationship between lineage and virulence in Pyricularia grisea in the Philippines. Phytopathology 85: 443-451.
36. Zeigler, R. S., Tohme, J., Nelson, R., Levy, M., and Correa, F. 1994. Linking blast population analysis to resistance breeding: A proposed strategy for durable resistance. Pages 267-292 in: Rice Blast Disease. R. S. Zeigler, S. Leong, and P. S. Teng, eds. Commonwealth Agricultural Bureaux International, Wallingford, England.