Escherichia coli Causing Recurrent Urinary Tract Infections: Comparison to Non-Recurrent Isolates and Genomic Adaptation in Recurrent Infections
Open Access
- 30 June 2021
- journal article
- research article
- Published by MDPI AG in Microorganisms
- Vol. 9 (7), 1416
- https://doi.org/10.3390/microorganisms9071416
Abstract
Recurrent urinary tract infection (rUTI) remains a major problem for many women and therefore the pursuit for genomic and phenotypic traits which could define rUTI has been ongoing. The present study applied a genomic approach to investigate recurrent urinary tract infections by comparative analyses of recurrent and non-recurrent Escherichia coli isolates from general practice. From whole-genome sequencing data, phylogenetic clustering and genomic traits were studied on a collection of isolates which caused recurrent infection compared to non-recurrent isolates. In addition, genomic variation between the 1st and following infection was studied on a subset of the isolates. Evidence of limited adaptation between the recurrent infections based on single nucleotide polymorphism analyses with a range of 0–13 non-synonymous single nucleotide polymorphisms (SNPs) between the paired isolates. This included an overrepresentation of SNPs in metabolism genes. We identified several genes which were more common in rUTI isolates, including nine fimbrial genes, however, not significantly after false-discovery rate. Finally, the results show that recurrent isolates of the present dataset are not distinctive by variation in the core genome, and thus, did not cluster distinct from non-rUTI isolates in a SNP phylogeny.Keywords
Funding Information
- National Institutes of Health (HHSN272200900018C)
- Danish Council for Independent Research (Grant #DFF–4183-00372)
This publication has 36 references indexed in Scilit:
- Genomic Diversity and Fitness of E. coli Strains Recovered from the Intestinal and Urinary Tracts of Women with Recurrent Urinary Tract InfectionScience Translational Medicine, 2013
- The Clermont Escherichia coli phylo‐typing method revisited: improvement of specificity and detection of new phylo‐groupsEnvironmental Microbiology Reports, 2012
- Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011Proceedings of the National Academy of Sciences of the United States of America, 2012
- Fimbrial Profiles Predict Virulence of Uropathogenic Escherichia coli Strains: Contribution of Ygi and Yad FimbriaeInfection and Immunity, 2011
- Using the Velvet de novo Assembler for Short‐Read Sequencing TechnologiesCurrent Protocols in Bioinformatics, 2010
- Discriminant analysis of principal components: a new method for the analysis of genetically structured populationsBMC Genetics, 2010
- F1C Fimbriae Play an Important Role in Biofilm Formation and Intestinal Colonization by the Escherichia coli Commensal Strain Nissle 1917Applied and Environmental Microbiology, 2009
- Clinical and bacteriological outcome of different doses and duration of pivmecillinam compared with placebo therapy of uncomplicated lower urinary tract infection in women: The LUTIW projectScandinavian Journal of Primary Health Care, 2007
- Pulsed-Field Gel Electrophoresis Typing of Escherichia coli Strains from Samples Collected before and after Pivmecillinam or Placebo Treatment of Uncomplicated Community-Acquired Urinary Tract Infection in WomenJournal of Clinical Microbiology, 2006