Dataset Information

Data highlighting phenotypic diversity of urine-associated Escherichia coli isolates.

ABSTRACT: This article provides a reusable dataset describing detailed phenotypic and associated clinical parameters in n=303 clinical isolates of urinary Escherichia coli collected at Vanderbilt University Medical Center. De-identified clinical data collected with each isolate are detailed here and correlated to biofilm abundance and metabolomics data. Biofilm-abundance data were collected for each isolate under different in vitro conditions along with datasets quantifying biofilm abundance of each isolate under different conditions. Metabolomics data were collected from a subset of bacterial strains isolated from uncomplicated cases of cystitis or cases with no apparent symptoms accompanying colonization. For more insight, please see "Defining a Molecular Signature for Uropathogenic versus Urocolonizing Escherichia coli: The Status of the Field and New Clinical Opportunities" [1].

SUBMITTER: Eberly AR

PROVIDER: S-EPMC7298415 | biostudies-literature | 2020 Aug

REPOSITORIES: biostudies-literature

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Data highlighting phenotypic diversity of urine-associated Escherichia coli isolates.

Eberly Allison R AR Beebout Connor J CJ Tong Ching Man Carmen CMC Van Horn Gerald T GT Green Hamilton D HD Fitzgerald Madison J MJ De Shuvro S Apple Emily K EK Schrimpe-Rutledge Alexandra C AC Codreanu Simona G SG Sherrod Stacy D SD McLean John A JA Clayton Douglass B DB Stratton Charles W CW Schmitz Jonathan E JE Hadjifrangiskou Maria M

Data in brief 20200603

This article provides a reusable dataset describing detailed phenotypic and associated clinical parameters in n=303 clinical isolates of urinary Escherichia coli collected at Vanderbilt University Medical Center. De-identified clinical data collected with each isolate are detailed here and correlated to biofilm abundance and metabolomics data. Biofilm-abundance data were collected for each isolate under different in vitro conditions along with datasets quantifying biofilm abundance ...[more]

PMID: 32566710

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Project description:Bacterial biofilm formation is a widespread phenomenon and a complex process requiring a set of genes facilitating the initial adhesion, maturation, and production of the extracellular polymeric matrix and subsequent dispersal of bacteria. Most studies on Escherichia coli biofilm formation have investigated nonpathogenic E. coli K-12 strains. Due to the extensive focus on laboratory strains in most studies, there is poor information regarding biofilm formation by pathogenic E. coli isolates. In this study, we genotypically and phenotypically characterized 187 human clinical E. coli isolates representing various pathotypes (e.g., uropathogenic, enteropathogenic, and enteroaggregative E. coli). We investigated the presence of biofilm-associated genes ("genotype") and phenotypically analyzed the isolates for motility and curli and cellulose production ("phenotype"). We developed a new screening method to examine the in vitro biofilm formation ability. In summary, we found a high prevalence of biofilm-associated genes. However, we could not detect a biofilm-associated gene or specific phenotype correlating with the biofilm formation ability. In contrast, we did identify an association of increased biofilm formation with a specific E. coli pathotype. Enteroaggregative E. coli (EAEC) was found to exhibit the highest capacity for biofilm formation. Using our image-based technology for the screening of biofilm formation, we demonstrated the characteristic biofilm formation pattern of EAEC, consisting of thick bacterial aggregates. In summary, our results highlight the fact that biofilm-promoting factors shown to be critical for biofilm formation in nonpathogenic strains do not reflect their impact in clinical isolates and that the ability of biofilm formation is a defined characteristic of EAEC.IMPORTANCE Bacterial biofilms are ubiquitous and consist of sessile bacterial cells surrounded by a self-produced extracellular polymeric matrix. They cause chronic and device-related infections due to their high resistance to antibiotics and the host immune system. In nonpathogenic Escherichia coli, cell surface components playing a pivotal role in biofilm formation are well known. In contrast, there is poor information for their role in biofilm formation of pathogenic isolates. Our study provides insights into the correlation of biofilm-associated genes or specific phenotypes with the biofilm formation ability of commensal and pathogenic E. coli Additionally, we describe a newly developed method enabling qualitative biofilm analysis by automated image analysis, which is beneficial for high-throughput screenings. Our results help to establish a better understanding of E. coli biofilm formation.

Dataset Information

Data highlighting phenotypic diversity of urine-associated Escherichia coli isolates.

Publications

Data highlighting phenotypic diversity of urine-associated <i>Escherichia coli</i> isolates.

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Dataset Information

Data highlighting phenotypic diversity of urine-associated Escherichia coli isolates.

Publications

Data highlighting phenotypic diversity of urine-associated &lt;i&gt;Escherichia coli&lt;/i&gt; isolates.

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OmicsDI is part of the ELIXIR infrastructure

Tweets

Data highlighting phenotypic diversity of urine-associated <i>Escherichia coli</i> isolates.