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Journal of Clinical Microbiology, August 2002, p. 2795-2800, Vol. 40, No. 8
0095-1137/02/$04.00+0     DOI: 10.1128/JCM.40.8.2795-2800.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.

Fluorescent Amplified Fragment Length Polymorphism Probabilistic Database for Identification of Bacterial Isolates from Urinary Tract Infections

Yankuba Kassama,1 Paul J. Rooney,2,{dagger} and Royston Goodacre1*

Institute of Biological Sciences, University of Wales, Aberystwyth, Ceredigion, SY23 3DD,1 Bronglais General Hospital, Aberystwyth, Ceredigion, SY23 1ER, United Kingdom2

Received 4 February 2002/ Returned for modification 24 March 2002/ Accepted 12 May 2002

The ability of the fluorescent amplified fragment length polymorphism (FAFLP) technique to identify bacterial isolates from urinary tract infections (UTIs) was investigated. FAFLP was carried out using the single primer combination MseI plus CT and EcoRI plus 0, and information-rich FAFLP profiles were generated from all 69 UTI isolates studied, which comprised both gram-negative and gram-positive bacteria encompassing eight genera. The genetic relatedness of these 69 bacteria was determined by cluster analysis, and this revealed eight main groups corresponding to the eight bacterial genera. Finer discrimination on the same dendrogram showed species and subspecies differentiations, thus demonstrating the potential of FAFLP for describing a wide diversity range within microbial populations. The interpretation of FAFLP profiles is often complicated because it relies upon the investigator interpreting dendrograms; this process may be subjective if the tree is complicated, particularly if it includes polytomies (unresolved nodes). Therefore, we have developed a method based on Bayes' theorem for the identification of bacteria against an FAFLP probabilistic identification matrix. Thus, FAFLP is suitable for the objective identification of causal agents of UTI, and the procedure offers great potential in the clinical laboratory.

* Corresponding author. Mailing address: Institute of Biological Sciences, University of Wales, Aberystwyth, Ceredigion, SY23 3DD, United Kingdom. Phone: 44 (0)1970 621947. Fax: 44 (0)1970 621947. E-mail: rrg{at}aber.ac.uk.

{dagger} Present address: Belfast City Hospital, Belfast, BT9 7AB, United Kingdom.

Journal of Clinical Microbiology, August 2002, p. 2795-2800, Vol. 40, No. 8
0095-1137/02/$04.00+0     DOI: 10.1128/JCM.40.8.2795-2800.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.



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