Differentiation of Escherichia coli Pathotypes by Oligonucleotide Spotted Array

To accurately determine the pathotypes of Escherichia coli strains, a comprehensive assessment of each strain that targets multiple genes is required. A new approach to the identification and characterization of E. coli pathotypes was developed by constructing gene-specific probes (70-mers) for not...

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Bibliographic Details
Published in:Journal of Clinical Microbiology 2006-04, Vol.44 (4), p.1495-1501
Main Authors: Palaniappan, Raghavan U. M, Zhang, Yu, Chiu, David, Torres, Alfonso, DebRoy, Chobi, Whittam, Thomas S, Chang, Yung-Fu
Format: Article
Language:English
Subjects:
Bacteriology
Biological and medical sciences
DNA, Bacterial - analysis
DNA, Bacterial - genetics
Escherichia coli
Escherichia coli - classification
Escherichia coli - genetics
Escherichia coli - isolation & purification
Escherichia coli - pathogenicity
Escherichia coli Infections - diagnosis
Fundamental and applied biological sciences. Psychology
Gene Expression Profiling
Infectious diseases
Medical sciences
Microbiology
Miscellaneous
Oligonucleotide Array Sequence Analysis - methods
Oligonucleotide Probes
Salmonella enterica
Virulence
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Summary:To accurately determine the pathotypes of Escherichia coli strains, a comprehensive assessment of each strain that targets multiple genes is required. A new approach to the identification and characterization of E. coli pathotypes was developed by constructing gene-specific probes (70-mers) for not only the virulence genes associated with each E. coli pathotype but also the O157-, CFT073-, and K-12-specific and common genes of each pathotype. Analysis of oligonucleotide probes with reference and clinical isolates of E. coli pathotypes indicated that the array could differentiate the pathotypes on the basis of their virulence and specific gene patterns. Probes targeting common genes of E. coli were present in all the reference and clinical strains. Salmonella enterica subsp. enterica-specific genes and Salmonella core genes were used as negative controls. The entire E. coli pathotype showed reactivity to only 4 of the 81 Salmonella-specific gene probes. Characterization of the genetic and virulence profiles of a single strain by using probes for virulence factors and specific and common genes in the spotted array is an ideal diagnostic tool for determination of E. coli pathotypes and could also have a significant impact on the epidemiological analysis of E. coli infections.
ISSN:0095-1137
1098-660X
1098-5530
DOI:10.1128/JCM.44.4.1495-1501.2006