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Development and validation of a resistance and virulence gene microarray targeting Escherichia coli and Salmonella enterica.


ABSTRACT: A microarray was developed to simultaneously screen Escherichia coli and Salmonella enterica for multiple genetic traits. The final array included 203 60-mer oligonucleotide probes, including 117 for resistance genes, 16 for virulence genes, 25 for replicon markers, and 45 other markers. Validity of the array was tested by assessing inter-laboratory agreement among four collaborating groups using a blinded study design. Internal validation indicated that the assay was reliable (area under the receiver-operator characteristic curve=0.97). Inter-laboratory agreement, however, was poor when estimated using the intraclass correlation coefficient, which ranged from 0.27 (95% confidence interval 0.24, 0.29) to 0.29 (0.23, 0.34). These findings suggest that extensive testing and procedure standardization will be needed before bacterial genotyping arrays can be readily shared between laboratories.

SUBMITTER: Davis MA 

PROVIDER: S-EPMC2882532 | biostudies-literature | 2010 Jul

REPOSITORIES: biostudies-literature

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Development and validation of a resistance and virulence gene microarray targeting Escherichia coli and Salmonella enterica.

Davis Margaret A MA   Lim Ji Youn JY   Soyer Yesim Y   Harbottle Heather H   Chang Yung-Fu YF   New Daniel D   Orfe Lisa H LH   Besser Thomas E TE   Call Douglas R DR  

Journal of microbiological methods 20100331 1


A microarray was developed to simultaneously screen Escherichia coli and Salmonella enterica for multiple genetic traits. The final array included 203 60-mer oligonucleotide probes, including 117 for resistance genes, 16 for virulence genes, 25 for replicon markers, and 45 other markers. Validity of the array was tested by assessing inter-laboratory agreement among four collaborating groups using a blinded study design. Internal validation indicated that the assay was reliable (area under the re  ...[more]

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