Association of Nucleotide Polymorphisms within the O-Antigen Gene Cluster of Escherichia coli O26, O45, O103, O111, O121, and O145 with Serogroups and Genetic Subtypes

Norman, Keri N.; Strockbine, Nancy; Bono, James L.

doi:10.1128/aem.01259-12

Cited by 28 publications

(27 citation statements)

References 67 publications

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“…In recent years, non-O157 STEC serotypes, including O26:H11, O103:H2, O104:H4, O111:NM and O145:NM, have caused severe outbreaks worldwide (Bradley et al, 2012, Brown et al, 2012, Norman et al, 2012, Rounds et al, 2012, Smith and Fratamico, 2012, Smith et al, 2014. However, the influence of environmental stresses on non-O157 E. coli serotypes remains unclear.…”

Section: Accepted Manuscriptmentioning

confidence: 96%

The effect of oxidative stress on gene expression of Shiga toxin-producing Escherichia coli (STEC) O157:H7 and non-O157 serotypes

Mei

Tang

Carey

et al. 2015

International Journal of Food Microbiology

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Section: Accepted Manuscriptmentioning

confidence: 96%

The effect of oxidative stress on gene expression of Shiga toxin-producing Escherichia coli (STEC) O157:H7 and non-O157 serotypes

Mei

Tang

Carey

et al. 2015

International Journal of Food Microbiology

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“…serogroups were subjected to the research of the processed for the identification of group-specific and VTEC-associated SNPs (Norman et al, 2012), using the qPCR-HRMA.…”

Section: Qpcr Hrm Analysis (Qpcr Hrma)mentioning

confidence: 99%

“…we applied the HRMA to identify and discriminate the presence/absence of informative SNPs that Norman et al (2012) with mass spectrometry found to be correlated to VTEC status. Successfully, the HRM-specific primers that we designed and the HRMA protocol that we optimized showed to be able to accurately identify the presence or absence of the mutation for each SNP analysed, as confirmed by the sequencing.…”

Section: Accepted Manuscriptmentioning

confidence: 99%

A new integrated approach to analyze bulk tank milk and raw milk filters for the presence of the E. coli serogroups frequently associated with VTEC status

Albonico

Gusmara

Gugliotta

et al. 2017

Research in Veterinary Science

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A new integrated approach to analyze bulk tank milk and raw milk filters for the presence of the E. coli serogroups frequently associated with VTEC status, Research in Veterinary Science (2017Science ( ), doi: 10.1016Science ( / j.rvsc.2017 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. AbstractWe optimized a combination of microbiological and molecular methods to quickly identify the presence of the O157 and the six non-O157 serogroups (O26, O45, O103, O111, O121 and O145) most frequently associated with VTEC status, at herd level. The lower detection limit of this methodology is 10 1 CFU/ml for each of the serogroups tested.We tested 67 bulk tank milk (BTM) and raw milk filters (RMF) derived from dairy herds located in Lombardy and Trentino Alto Adige. We identified 3 positive samples and 20 positive samples out of 67 respectively in the BTM and RMF. Interestingly, several samples showed positivity for more than one serogroups at the same time. We also identified the presence of E.coli O45 and O121 for the first time in raw milk and raw milk filters. Once screened the seven serogroups of interest in our ACCEPTED MANUSCRIPT A C C E P T E D M A N U S C R I P T2 samples, we evaluated the real pathogenicity of our positive, non-O157 samples through two parallel molecular biology methods: virulence gene research by PCR, and HRMA and sequencing.The most frequently isolated serogroups in milk were O157 (2.64%), O103 (2.11%), and O145(1.06%), while in RMF the frequencies were, respectively 14.92%, 4.48%, and 2.98%. Moreover, this is the first published report in Italy of positive recovery of O45 and O121 serogroups in milk and milk filters. The new diagnostic approach proposed investigate the presence of the O157 and big six non-O157 serogroups at farm level and not to identify VTEC hazard only once the product is processed and/or is ready to be consumed.

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“…13 and US dataset in ref. 24). Illumina short read sequences were assembled with SPAdes (25) and annotated with Prokka (26).…”

Section: Methodsmentioning

confidence: 99%

Support vector machine applied to predict the zoonotic potential of E. coli O157 cattle isolates

Lupolova

Dallman

Matthews

et al. 2016

Proc. Natl. Acad. Sci. U.S.A.

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Sequence analyses of pathogen genomes facilitate the tracking of disease outbreaks and allow relationships between strains to be reconstructed and virulence factors to be identified. However, these methods are generally used after an outbreak has happened. Here, we show that support vector machine analysis of bovine E. coli O157 isolate sequences can be applied to predict their zoonotic potential, identifying cattle strains more likely to be a serious threat to human health. Notably, only a minor subset (less than 10%) of bovine E. coli O157 isolates analyzed in our datasets were predicted to have the potential to cause human disease; this is despite the fact that the majority are within previously defined pathogenic lineages I or I/II and encode key virulence factors. The predictive capacity was retained when tested across datasets. The major differences between human and bovine E. coli O157 isolates were due to the relative abundances of hundreds of predicted prophage proteins. This finding has profound implications for public health management of disease because interventions in cattle, such a vaccination, can be targeted at herds carrying strains of high zoonotic potential. Machine-learning approaches should be applied broadly to further our understanding of pathogen biology. machine learning | zoonosis | Shiga toxin | E. coli | cattle

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Association of Nucleotide Polymorphisms within the O-Antigen Gene Cluster of Escherichia coli O26, O45, O103, O111, O121, and O145 with Serogroups and Genetic Subtypes

Cited by 28 publications

References 67 publications

The effect of oxidative stress on gene expression of Shiga toxin-producing Escherichia coli (STEC) O157:H7 and non-O157 serotypes

The effect of oxidative stress on gene expression of Shiga toxin-producing Escherichia coli (STEC) O157:H7 and non-O157 serotypes

A new integrated approach to analyze bulk tank milk and raw milk filters for the presence of the E. coli serogroups frequently associated with VTEC status

Support vector machine applied to predict the zoonotic potential of E. coli O157 cattle isolates

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