Bioinformatics Vol. 17 no. 11 2001
Pages 1077-1083
© 2001 Oxford University Press
Database-driven Multi Locus Sequence Typing (MLST) of bacterial pathogens
1 The Wellcome Trust Centre for the Epidemiology of Infectious Disease, University of Oxford, South Parks Road, Oxford OX1 3FY, UK
Received on March 21, 2001
; revised on April 25, 2001
; accepted on May 17, 2001
Motivation: Multi Locus Sequence Typing (MLST) is a newly developed typing method for bacteria based on the sequence determination of internal fragments of seven house-keeping genes. It has proved useful in characterizing and monitoring disease-causing and antibiotic resistant lineages of bacteria. The strength of this approach is that unlike data obtained using most other typing methods, sequence data are unambiguous, can be held on a central database and be queried through a web server.
Results: A database-driven software system (mlstdb) has been developed, which is used by public health laboratories and researchers globally to query their nucleotide sequence data against centrally held databases over the internet. The mlstdb system consists of a set of perl scripts for defining the database tables and generating the database management interface and dynamic web pages for querying the databases.
Availability: http://www.mlst.net.
Contact: mchan{at}molbiol.ox.ac.uk
* To whom correspondence should be addressed.
2 Present address: Department of Paediatrics, The Institute of Molecular Medicine, University of Oxford, John Radcliffe Hospital, Headington, Oxford OX3 9DS, UK.
3 Present address: Department of Infectious Disease Epidemiology, Imperial College School of Medicine, University of London, St Mary’s Campus, Norfolk Place, London W2 1PG, UK.
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