ArticleApplied and environmental microbiology2010
Highly discriminatory single-nucleotide polymorphism interrogation of Escherichia coli by use of allele-specific real-time PCR and eBURST analysis.
Article in Applied and environmental microbiology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- E. coli catheter-associated urinary tract infections are associated with distinctive virulence and biofilm gene determinants.JCI insight · 2023Article
- Development of Single Nucleotide Polymorphism (SNP)-Based Triplex PCR Marker for Serotype-specificPathogens (Basel, Switzerland) · 2022Article
- VIM-1 carbapenemase-producingEcology and evolution · 2017Article
- Article
- A Novel 7-Single Nucleotide Polymorphism-Based Clonotyping Test Allows Rapid Prediction of Antimicrobial Susceptibility of Extraintestinal Escherichia coli Directly From Urine Specimens.Open forum infectious diseases · 2016Article
- CRISPR Diversity in E. coli Isolates from Australian Animals, Humans and Environmental Waters.PloS one · 2015Article
- Multicolor Melting Curve Analysis-Based Multilocus Melt Typing of Vibrio parahaemolyticus.PloS one · 2015Article
- CRISPR/Cas9-mediated phage resistance is not impeded by the DNA modifications of phage T4.PloS one · 2014Article
- Effect of the Bacillus atrophaeus subsp. globigii Spo0F H101R mutation on strain fitness.Applied and environmental microbiology · 2012Article
- Molecular typing and epidemiological investigation of clinical populations of Pseudomonas aeruginosa using an oligonucleotide-microarray.BMC microbiology · 2012Article
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Authors and funding
3 authors.
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Abstract
In total, 782 Escherichia coli strains originating from various host sources have been analyzed in this study by using a highly discriminatory single-nucleotide polymorphism (SNP) approach. A set of eight SNPs, with a discrimination value (Simpson's index of diversity [D]) of 0.96, was determined using the Minimum SNPs software, based on sequences of housekeeping genes from the E. coli multilocus sequence typing (MLST) database. Allele-specific real-time PCR was used to screen 114 E. coli isolates from various fecal sources in Southeast Queensland (SEQ). The combined analysis of both the MLST database and SEQ E. coli isolates using eight high-D SNPs resolved the isolates into 74 SNP profiles. The data obtained suggest that SNP typing is a promising approach for the discrimination of host-specific groups and allows for the identification of human-specific E. coli in environmental samples. However, a more diverse E. coli collection is required to determine animal- and environment-specific E. coli SNP profiles due to the abundance of human E. coli strains (56%) in the MLST database.
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