title: Virulence typing of Escherichia coli using microarrays.
abstract: We describe a microarray based broad-range screening technique for Escherichia coli virulence typing. Gene probes were amplified by PCR from a plasmid bank of characterised E. coli virulence genes and were spotted onto a glass slide to form an array of capture probes. Genomic DNA from E. coli strains which were to be tested for the presence of these virulence gene sequences was labelled with fluorescent cyanine dyes by random amplification and then hybridised against the array of probes. The hybridisation, washing and data analysis conditions were optimised for glass slides, and the applicability of the method for identifying the presence of the virulence genes was determined using reference strains and clinical isolates. It was found to be a sensitive screening method for detecting virulence genes, and a powerful tool for determining the pathotype of E. coli. It will be possible to expand and automate this microarray technique to make it suitable for rapid and reliable diagnostic screening of bacterial isolates.
authors.affiliation: Molecular Biology Unit, Central Public Health Laboratory, 61 Colindale Avenue, London, NW9 5HT, UK.
authors.forename: C
authors.initials: C
authors.lastname: van Ijperen
authors.forename: P
authors.initials: P
authors.lastname: Kuhnert
authors.forename: J
authors.initials: J
authors.lastname: Frey
authors.forename: J P
authors.initials: JP
authors.lastname: Clewley
mesh_terms: D002232:Carbocyanines; D015342:DNA Probes / Q000235:genetics; D004926:Escherichia coli / Q000235:genetics / Q000302:isolation & purification / Q000472:pathogenicity*; D004927:Escherichia coli Infections / Q000175:diagnosis; D005456:Fluorescent Dyes; D005898:Glass; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis; D016133:Polymerase Chain Reaction / Q000379:methods / Q000592:standards; D012680:Sensitivity and Specificity; D014774:Virulence / Q000235:genetics
chemical_list: D002232:Carbocyanines; D015342:DNA Probes; D005456:Fluorescent Dyes