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Bioinformatics Vol. 18 no. 7 2002
Pages 1004-1010
© 2002 Oxford University Press

Determining a unique defining DNA sequence for yeast species using hashing techniques

Jan-Jaap Wesselink 1,*, Beatriz de la Iglesia 1, Stephen A. James 3, Jo L. Dicks 2, Ian N. Roberts 3 and Vic J. Rayward-Smith 1

1 School of Information Systems, University of East Anglia, Norwich NR4 7TJ, UK
2 Bioinformatics Research Group, John Innes Centre, Norwich Research Park, Colney, Norwich NR4 7UH, UK
3 National Collection of Yeast Cultures, Institute of Food Research, Norwich Research Park, Colney, Norwich NR4 7UA, UK

Received on October 31, 2001 ; revised on February 6, 2002 ; accepted on February 12, 2002

Motivation: Yeasts are often still identified with physiological growth tests, which are both time consuming and unsuitable for detection of a mixture of organisms. Hence, there is a need for molecular methods to identify yeast species.

Results: A hashing technique has been developed to search for unique DNA sequences in 702 26S rRNA genes. A unique DNA sequence has been found for almost every yeast species described to date. The locations of the unique defining sequences are in accordance with the variability map of large subunit ribosomal RNA and provide detail of the evolution of the D1/D2 region. This approach will be applicable to the rapid identification of unique sequences in other DNA sequence sets.

Availability: Freely available upon request from the authors.

Supplementary information: Results are available at http://www.sys.uea.ac.uk/~jjw/project/paper

Contact: jjw{at}sys.uea.ac.uk

* To whom correspondence should be addressed.


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