Design of a primer for ribosomal DNA internal transcribed spacer with enhanced specificity for ascomycetes

Journal of Biotechnology

Volumn 75, Issue 2-3, 1999, Pages 187-194

  Larena, Inmaculada ^a   Salazar, Oscar ^a   González, Vicente ^a   Julián, María C ^a   Rubio, Victor ^a  

^a CENTRO NACIONAL DE BIOTECNOLOGÍA   (Spain)

Author keywords

Ascomycotina; ITS rDNA; Molecular probe; PCR; Taxon selective primer

Indexed keywords

ANNEALING; DNA; ENZYMES; FUNGI; PLANTS (BOTANY); PROBES; SENSITIVITY ANALYSIS; TEMPERATURE;

ASCOMYCETES; MOLECULAR PROBES; TAXON SELECTIVE PRIMER;

GENETIC ENGINEERING;

RIBOSOME DNA;

ARTICLE; ASCOMYCETES; BASIDIOMYCETES; DEUTEROMYCETES; DNA DETERMINATION; DNA TRANSCRIPTION; GENE AMPLIFICATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYCOMYCETES; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; ZYGOMYCETES;

ASCOMYCOTA; DNA PRIMERS; DNA, PLANT; DNA, RIBOSOMAL; POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; SPECIES SPECIFICITY;

EID: 0032845186     PISSN: 01681656     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0168-1656(99)00154-6     Document Type: Article

References (21)

1. Boysen M., Borja M., Del Moral C., Salazar O., Rubio V. Identification at strain level of Rhizoctonia solani AG4 isolates by direct sequence of assymetric PCR products of the ITS regions. Curr. Genet. 29:1996;174-181.
2. Bruns T.D., White T.J., Taylor J.W. Fungal molecular systematics. Ann. Rev. Ecol. Syst. 22:1991;525-564.
3. Caetano-Anolles G., Brassam B.J., Gresshoff P.M. DNA amplification fingerprinting using very short arbitrary oligonucleotide primers. Bio/Technology. 9:1991;553-557.
4. Chen W., Hoy J.W., Schneider R.W. Species-specific polymorphisms in transcribed ribosomal DNA of five Pythium species. Exp. Mycol. 16:1992;22-34.
5. Edwards K., Johnstone C., Thompson C. A simple and rapid method for the preparation of plant genomic DNA for PCR analysis. Nucl. Acids Res. 19:1991;1349.
6. Gardes M., White T.J., Fortin J.A., Bruns T.D., Taylor J.W. Identification of indigenous and introduced symbiotic fungi in ectomycorrhizae by amplification of nuclear and mitochondrial ribosomal DNA. Can. J. Bot. 69:1991;180-190.
7. Gardes M., Bruns T.D. ITS primers with enhanced specificity for basidiomycetes - application to the identification of mycorrhizae and rusts. Molec. Ecol. 2:1993;113-118.
8. Hawksworth D.L., Kirk P.M., Sutton B.C., Pegler D.N. Ainsworth and Bisby's dictionary of the fungi. 1995;International Mycological Institute, CAB International, Wallingford, UK.
9. Johanson A., Crowhurst R.N., Rikkerink E.H.A., Fullerton R.A., Templeton M.D. The use of species-specific DNA probes for the identification of Mycosphaerella fijiensis and M. musicola, the causal agents of Sigatoka disease of banana. Pl. Pathol. 43:1994;701-707.
10. Kuninaga S., Natsuaki T., Takeuchi T., Yokosawa R. Sequence variation of the rDNA ITS regions within and between anastomosis groups in Rhizoctonia solani. Curr. Genet. 32:1997;237-243.
11. Lee, S.B., Taylor, J.W., 1992. Phylogeny of five fungus-like protoclistan Phytophthora species, inferred from the Internal Transcribed Spacers of ribosomal DNA. Mol. Biol. Evol. 9, 636-653.
12. Lee S.B., White T.J., Taylor J.W. Detection of Phytophthora species by oligonucleotide hybridization to amplified ribosomal DNA spacers. Phytopathology. 83:1993;177-181.
13. Nazar R.N., Hu X., Schmidt J., Culham D., Robb J. Potential use of PCR-amplified ribosomal intergenic sequences in the detection and differentiation of verticillium wilt pathogens. Physiol. Molec. Pl. Pathol. 39:1991;1-11.
14. Simon L., Lalonde M., Bruns T.D. Specific amplification of 18S fungal ribosomal genes from vesicular-arbuscular endomycorrhizal fungi colonizing roots. Appl. Environ. Microbiol. 58:1992;291-295.
15. Takamatsu S. PCR applications in fungal phylogeny. Bridge P.D., Arora D.K., Reddy C.A., Elander R.P. Applications of PCR in mycology. 1998;125-152 CAB International, Oxon, UK.
16. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucl. Acids Res. 22:1994;4673-4680.
17. Vos P., Hogers R., Bleeker M., Reijans M., van de Lee T., Hornes M., Frijters A., Pot J., Peleman J., Kuiper M., Zabeau M. AFLP: a new technique for DNA fingerprinting. Nucl. Acids Res. 23:1995;4407-4414.
18. Welsh J., McClelland M. Fingerprinting genomes using PCR with arbritary primers. Nucl. Acids Res. 18:1990;7213-7218.
19. Welsh J., McClelland M. Genomics fingerprints produced by PCR with consensus tRNA gene primers. Nucl. Acids Res. 19:1991;861-866.
20. White T.M., Bruns T., Lee S., Taylor J. Amplification and direct sequencing of fungal ribosomal RNA for phylogenetics. Innis M.A., Gelfand D.H., Sninsky J.J., White T.J. PCR protocols: a guide to methods and applications. 1990;315-321 Academic Press, San Diego, CA.
21. Williams J.G.K., Kubelik A.R., Livak K.J., Rafalski J.A., Tingey S.V. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucl. Acids Res. 18:1990;6531-6535.