Intra-isolate heterogeneity of the ITS region of rDNA in Pythium helicoides

Mycological Research

Volumn 111, Issue 4, 2007, Pages 416-423

  Kageyama, Koji ^a   Senda, Masako ^a   Asano, Takahiro ^a,b   Suga, Haruhisa ^a   Ishiguro, Kiyoshi ^c  

^a GIFU UNIVERSITY   (Japan)

^b INSTITUTE OF RESEARCH AND INNOVATION   (Japan)

^c NATIONAL AGRICULTURAL RESEARCH CENTER FOR TOHOKU REGION   (Japan)

Author keywords

Cytochrome oxidase II gene; Phylogeny; Plant pathology; Pythium ultimum; Root rot

Indexed keywords

CYTOCHROME C OXIDASE; FUNGAL DNA; RIBOSOMAL SPACER DNA; RIBOSOME DNA;

DNA; ENZYME; FUNGUS; HETEROGENEITY; INTRASPECIFIC VARIATION; MORPHOLOGY; PATHOGEN; PHYLOGENETICS; ROOT ROT;

ARTICLE; DNA SEQUENCE; FUNGAL GENE; GENETIC VARIABILITY; GENETICS; MICROBIOLOGY; PHYLOGENY; PLANT DISEASE; PLANT ROOT; PYTHIUM; RESTRICTION FRAGMENT LENGTH POLYMORPHISM;

DNA, FUNGAL; DNA, RIBOSOMAL; DNA, RIBOSOMAL SPACER; ELECTRON TRANSPORT COMPLEX IV; GENES, FUNGAL; PHYLOGENY; PLANT DISEASES; PLANT ROOTS; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; PYTHIUM; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS);

PYTHIUM; PYTHIUM CHAMAEHYPHON; PYTHIUM HELICOIDES; PYTHIUM OEDOCHILUM; PYTHIUM OSTRACODES; PYTHIUM ULTIMUM;

EID: 34249650217     PISSN: 09537562     EISSN: 14698102     Source Type: Journal    
DOI: 10.1016/j.mycres.2007.01.019     Document Type: Article

References (37)

1. Buchko J., and Klassen G.R. Detection of length heterogeneity in the ribosomal DNA of Pythium ultimum by PCR amplification of the intergenic region. Current Genetics 18 (1990) 203-205
2. Charlesworth B., Sniegowski P., and Stephan W. The evolutionary dynamics of repetitive DNA in eukaryotes. Nature 371 (1994) 215-220
3. Chellemi D.O., Mitchell D.J., Kannwischer-Mitchell M.E., Rayside P.A., and Rosskopf E.N. Pythium spp. associated with bell pepper production in Florida. Plant Disease 84 (2000) 1271-1274
4. Chen W., Hoy J.W., and Schneider R.W. Species-specific polymorphisms in transcribed ribosomal DNA of five Pythium species. Experimental Mycology 16 (1992) 22-34
5. Chen W., and Hoy J.W. Molecular and morphological comparison of Pythium arrhenomanes and P. graminicola. Mycological Research 97 (1993) 1371-1378
6. Francis D.M., and St. Clair D.A. Outcrossing in the homothallic oomycete, Pythium ultimum, detected with molecular markers. Current Genetics 24 (1993) 100-106
7. Francis D.M., Gehlen M.F., and St. Clair D.A. Genetic variation in homothallic and hyphal swelling isolates of Pythium ultimum var. ultimum and P. ultimum var. sporangiferum. Molcular Plant-Microbe Interaction 7 (1994) 766-775
8. Harris D.J., and Crandall K.A. Intragenomic variation within ITS1 and ITS2 of freshwater crayfishes (Decapoda: Cambaridae): implications for phylogenetic and microsatellite studies. Molecular Biology and Evolution 17 (2000) 284-291
9. Kageyama K., Aoyagi T., Sunouchi R., and Fukui H. Root rot of miniature roses caused by Pythium helicoides. Journal of General Plant Pathology 68 (2002) 15-20
10. Kageyama K., Komatsu T., and Suga H. Refined PCR protocol for detection of plant pathogens in soil. Journal of General Plant Pathology 69 (2003) 153-160
11. Kageyama K., Suzuki M., Priyatmojo A., Oto Y., Ishiguro K., Suga H., Aoyagi T., and Fukui H. Characterization and identification of asexual strains of Pythium associated with root rot of rose in Japan. Journal of Phytopathology 151 (2003) 485-491
12. Kageyama K., Nakashima A., Kajihara Y., Suga H., and Nelson E.B. Phylogenetic and morphological analysis of Pythium graminicola and related species. Journal of General Plant Pathology 71 (2005) 174-182
13. Kageyama K., Ohyama A., and Hyakumachi M. Detection of Pythium ultimum using polymerase chain reaction with species-specific primers. Plant Disease 81 (1997) 1155-1160
14. Kageyama K., Uchino H., and Hyakumachi M. Characterization of the hyphal swelling group of Pythium: DNA polymorphisms and cultural and morphological characteristics. Plant Disease 82 (1998) 218-222
15. Klassen G.R., and Buchko J. Subrepeat structure of the intergenic region in the ribosomal DNA of the oomycetous fungus Pythium ultimum. Current Genetics 17 (1990) 125-127
16. Lanfranco L., Delpero M., and Bonfante P. Intrasporal variability of ribosomal sequences in the endomycorrhizal fungus Gigaspora margarita. Molecular Ecology 8 (1999) 37-45
17. Liao D. Concerted evolution: molecular mechanisms and biological implications. American Journal of Human Genetics 64 (1999) 24-30
18. Lévesque C.A., and de Cock A.W. Molecular phylogeny and taxonomy of the genus Pythium. Mycological Research 108 (2004) 1363-1383
19. Martin F.N. Variation in the ribosomal DNA repeat unit within single-oospore isolates of the genus Pythium. Genome 33 (1990) 585-591
20. Martin F.N. Electrophoretic karyotype polymorphisms in the genus Pythium. Mycologia 87 (1995) 333-353
21. Martin F.N. Meiotic instability of Pythium sylvaticum as demonstrated by inheritance of nuclear marker and karyotype analysis. Genetics 139 (1995) 1233-1246
22. Martin F.N. Phylogenetic relationships among some Pythium species inferred from sequence analysis of the mitochondrially encoded cytochrome oxidase II gene. Mycologia 92 (2000) 711-727
23. Martin F.N. Importance of selfing and outcrossing in the population biology of Pythium. Phytopathology 96 (2006) S146
24. Matsumoto C., Kageyama K., Suga H., and Hyakumachi M. Phylogenetic relationships of Pythium species based on ITS and 5.8S sequences of ribosomal DNA. Mycoscience 40 (1999) 321-331
25. Matsumoto C., Kageyama K., Suga H., and Hyakumachi M. Intraspecific DNA polymorphisms of Pythium irregulare. Mycological Research 104 (2000) 1333-1341
26. O'Donnell K., and Cigelnik E. Two divergent intra-genomics rDNA ITS2 types within a monophyletic lineage of the fungus Fusarium are nonorthologous. Molocular Biology 5 (1997) 93-107
27. Schlötterer C., and Tautz D. Chromosomal homogeneity of Drosophila ribosomal DNA arrays suggests intrachromosomal exchanges drive concerted evolution. Current Biology 4 (1994) 777-783
28. Swofford D.L. PAUP: phylogenetic analysis using parsimony. Version 4.0 (2001), Sinauer Associates, Sunderland, MA
29. Tang J.T., Toè L., Back C., and Unnasch T.R. Intra-specific heterogeneity of the rDNA internal transcribed spacer in the Simulium damnosum (Diptera: Simuliidae) complex. Molecular Biology and Evolution 13 (1996) 244-252
30. Thompson J.D., Gibson T.J., Plewneak F., Jeanmougin F., and Higgins D.G. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25 (1997) 4876-4882
31. van der Plaats-Niterink A.J. Monograph of the genus Pythium. Studies in Mycology 21 (1981) 1-242
32. Villa O.N., Kageyama K., Asano T., and Suga H. Phylogenetic relationships of Pythium and Phytophthora species based on rDNA ITS, cytochrome oxidase II and β-tublin gene sequences. Mycologia 98 (2006) 410-422
33. von der Schulenburg J.H.G., Hancock J.M., Pagnamenta A., Soggett J.J., Majerus M.E.N., and Hurst G.D.D. Extreme length and length variation in the first ribosomal internal transcribed spacer of ladybird beetles (Coleoptera: Coccinellidae). Molecular Biology and Evolution 18 (2001) 648-660
34. Wang P.H., and White J.G. Molecular characterization of Pythium species based on RFLP analysis of the internal transcribed spacer region of ribosomal DNA. Physiological and Molecular Plant Pathology 51 (1997) 129-143
35. Watanabe H., Taguchi H., Hyakumachi M., and Kageyama K. Pythium and Phytophthora species associated with root and stem rots of kalanchoe. Journal of General Plant Pathology 72 (2007) (in press)
36. Wei X.X., Wang X.Q., and Hong D.Y. Marked intragenomic heterogeneity and geographical differentiation of nr DNA ITS in Larix potaninii (Pinaceae). Journal of Molecular Evolution 57 (2003) 623-635
37. White T.J., Bruns T., Lee S., and Taylor J. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis M.A., Gelfand D.H., Sninsky J.J., and White T.J. (Eds). PCR Protocols: a guide to methods and applications (1990), Academic Press, New York 315-322