[KSCI] Korea Science Citation Index Service

http://dx.doi.org/10.4489/MYCO.2004.32.3.119

Nucleotide Divergence Analysis of IGS Region in Fusarium oxysporum and its formae speciales Based on the Sequence

Kim, Hyun-Jung (Department of Biology, Sangmyung University)
Min, Byung-Re (Department of Biology, Sangmyung University)

Publication Information

Mycobiology / v.32, no.3, 2004 , pp. 119-122 More about this Journal

Abstract

The intergenic spacer(IGS) sequence of Fusarium oxysporum have been reported to provide reliable information concerning intraspecific variation and phylogeny of fungal species. The eleven strains of Fusarium oxysporum and its formae speciales belonging to section Elegans were compared with sequencing analysis. The direct sequencing of partial IGS was carried out using PCR with primer NIGS1(5'-CTTCGCCTCGATTTCCCCAA-3')/NIGS2(5'-TCGTCGCCGACAGTTTTCTG-3') and internal primer NIGS3(5'-TCGAGGATCGATTCGAGG-3')/NIGS4(5'-CCTCGAATCGATCCTCGA-3'). A single PCR product was found for each strain. The PCR fragments were sequenced and revealed a few within species polymorphisms at the sequence level. The size of partial IGS sequencing of F. oxysporum was divided into three groups; $526{\sim}527$ bp including F. o. f. sp. chrysanthemi, cucumerinum, cyclaminis, lycopersici, and fragariae; $514{\sim}516$ bp including F. o. f. sp. lilii, conglutinans, and raphani; 435 bp for F. o. f. sp. cucumerinum from Korea. Sequence analysis of PCR products showed that transitions were more frequent than transversions as well as the average numbers of substitution per site were range 0.41% to 3.54%.

Keywords

Fusarium oxysporum; Intergenic spacer region(IGS); Nucleotide divergence sequencing;

Citations & Related Records

Reference

1	Appel, D. J. and Gordon, T. R. 1995. Intraspecific variation within populations of Fusarium oxysporum based on RFLP analysis of the intergenic spacer region of the rDNA. Exp. Mycol. 19: 120-128 DOI ScienceOn
2	Appel, D. J. and Gordon, T. R. 1996. Relationship among pathogenic and nonpathogenic isolates of Fusarium oxysporum based on the partial sequence of the intergenic spacer region of the ribosomal DNA. Molecular Plant-Micro Interaction. 9(2): 125-128 DOI ScienceOn
3	Kim, H.-J., Choi, Y-K. and Min, B.-R. 2001. Variation of the Intergenic spacer (IGS) region of ribosomal DNA among Fusarium oxysporum formae speciales. J. Microbiol. 39(4): 265-272
4	Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequence. J. Mol. Evol. 16: 111-120 DOI
5	Gomes, E. A., Everaldo, G. de Barros, Maria Catarina, M. Kasuya, and Elza F. Araujo. 1998. Molecular characterization of Pisolithus spp. isolates by rDNA PCR-RFLP. Mycorrhiza. 8: 197-202
6	Chillali, M., Idder-Ighili, H., Guillaurnin, J. J., Mohammed, C, Escarmant, B. L. and Botton, B. 1998. Variation in the ITS and ITS regions of ribosomal DNA among the biological species of European Armillaria. Mycol. Res. 102(5): 533-540 DOI ScienceOn
7	Doignon-B. F., Willems, A., Coopman, R., Laguerre, G., Gillis, M. and Lajudie, P. 2000. Genotypic characterization of Bradyrhizobium strains nodulating small senegalese legumes by 16S-23S rRNA intergenic gene spacers and amplified fragment length polymorphism fingerprint analyses. Appl. Env. Micro. 66(9): 3987-3997 DOI ScienceOn
8	Faris-Mokaiesh, S., Boccara, M., Denis, J.-B., Derrien, A. and Spire, D. 1996. Differentiation of the 'Ascochyta complex' fungi of pea by biochemical and molecular markers. Curr. Genet. 29: 182-190 DOI ScienceOn
9	Guidot, A., Lurnini, E., Debaud, J.-C. and Marmeisse, R. 1999. The nuclear ribosomal DNA intergenic spacer as a target sequence to study intraspecific diversity of the Ectomycorrhizal Basidiomycete Hebeloma cylindrosporum directly on Pinus root systems. Appl. Environ. Microbial. 65: 903-909
10	Hills, D. M. and Dixon, M. T. 1991. Ribosomal DNA: molecular evolution and phylogenetic inference. Q. Rev. Biol. 66: 411-453 DOI ScienceOn
11	Honig, K., Riefler, M. and Kottke, I. 2000. Survey of Paxillus involutus (Batsch) Fr. inoculum and fruitbodies in a nursery by IGS-RFLPs and IGS sequences. Mycorrhiza. 9: 315-322
12	Min, B-R. and Lee, K. E. 2003. The analysis of intergenic spacer region partial sequence in Fusarium oxy. f. sp. J. Natural Science of Sangmyung Univ. 10
13	Lee, Y-M., Choi, Y-K. and Min, B.-R. 2000a. PCR-RFLP and sequence analysis of the rDNA ITS region in the Fusarium spp. J. Microbiol. 38: 66-73
14	Lee, Y-M., Choi, and Y-K. 2000b. Molecular characterization of Fusarium solani and its formae speciales based on sequence analysis of the internal transcribedspacer (ITS) region of ribosomal DNA. Mycobiology 28(2): 82-88
15	Min, B.-R. and Ryu, J.-S. 1998. Taxonomical classification of 13 species in the genus Fusarium by RAPD analysis. J. Basic. Sci. Sangmyung Univ. 11: 1-11
16	Mishra, P. K., Roland, T. V. F. and Culham, A. 2002. Restriction analysis of PCR amplified nrDNA regions revealed intraspecific variation within populations of Fusarium culmorum. FEMS Micribiol. Letters 215: 291-296 DOI ScienceOn
17	Molina, F. I., Jong, S.-H. and Huffman, I. L.. 1993. PCR amplification of the 3 external transcribed and intergenic spacers of the ribosomal DNA repeat unit in three species of Saccharomyces. FEMS Microbiology Letters 108: 259-264
18	Schlotterer, C, Hauser, M.-T., Haeseler, A. and Tauty, D. 1994. Comparative Evolutionary Analysis of rDNA ITS regions in Drosophila. Mol. Bio. Evol. (3): 513-522
19	Terashima, K., Cha, J.-Y, Yajima, T., Igarashi, T. and Miura, K. 1998. Phylogenetic analysis of Japanese Armillaria based on the intergenic spacer(IGS) sequences of their ribosomal DNA. Eur. J. For. Path. 28: 11-19 DOI
20	Teresa, J. C. 1995. Ribosomal DNA evolution at the population level: nucleotide variation in intergenic spacer arrays of Daphnia Pulex. Genetics 114: 132