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

Margaret A Davis; Ji Youn Lim; Yesim Soyer; Heather Harbottle; Yung-Fu Chang; Daniel New; Lisa H Orfe; Thomas E Besser; Douglas R Call

doi:10.1016/j.mimet.2010.03.017

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

Journal article

Open access

Peer reviewed

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

Margaret A Davis, Ji Youn Lim, Yesim Soyer, Heather Harbottle, Yung-Fu Chang, Daniel New, Lisa H Orfe, Thomas E Besser and Douglas R Call

Journal of microbiological methods, Vol.82(1), pp.36-41

2010

DOI: https://doi.org/10.1016/j.mimet.2010.03.017

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https://hdl.handle.net/2376/110056

PMCID: PMC2882532

PMID: 20362014

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https://doi.org/10.1016/j.mimet.2010.03.017View

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Abstract

Validation

Microarray

Resistance genes

Enterobacteriaceae

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.

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Title: Development and validation of a resistance and virulence gene microarray targeting Escherichia coli and Salmonella enterica
Creators: Margaret A Davis - Department of Veterinary Microbiology and Pathology, College of Veterinary Medicine, Washington State University, Pullman, WA 99164-7040, United States
Ji Youn Lim - Microbiology, Molecular Biology, and Biochemistry Department, University of Idaho, Moscow, ID 83844-3052, United States
Yesim Soyer - Department of Food Science, Cornell University, Ithaca, NY 14853, United States
Heather Harbottle - Center For Veterinary Medicine, U. S. Food and Drug Administration, Laurel, MD 20708, United States
Yung-Fu Chang - Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, United States
Daniel New - Department of Veterinary Microbiology and Pathology, College of Veterinary Medicine, Washington State University, Pullman, WA 99164-7040, United States
Lisa H Orfe - Department of Veterinary Microbiology and Pathology, College of Veterinary Medicine, Washington State University, Pullman, WA 99164-7040, United States
Thomas E Besser - Department of Veterinary Microbiology and Pathology, College of Veterinary Medicine, Washington State University, Pullman, WA 99164-7040, United States
Douglas R Call - Department of Veterinary Microbiology and Pathology, College of Veterinary Medicine, Washington State University, Pullman, WA 99164-7040, United States
Publication Details: Journal of microbiological methods, Vol.82(1), pp.36-41
Academic Unit: Veterinary Microbiology and Pathology, Department of; Paul G. Allen School for Global Animal Health
Publisher: Elsevier B.V
Identifiers: 99900547208601842
Language: English
Resource Type: Journal article