The relationship between phylogenetic classification, virulence and antibiotic resistance of extraintestinal pathogenic Escherichia coli in İzmir province, Turkey

PeerJ
Elif BozcalMikael Skurnik

Abstract

Extraintestinal pathogenic Escherichia coli (ExPEC) is an important bacterium and responsible for many bloodstream infections, including urinary tract infections and even fatal bacteremia. The aim of this research was to investigate whether ExPEC strains isolated from Turkish blood cultures have a relationship between 16S rRNA based phylogenetic clusters and antibiotic resistance profiles, virulence factors or clonal lineages. Phenotypically identified ExPEC blood culture isolates (n = 104) were included in this study. The 16S rRNA partial sequence analysis was performed for genotypic identification of ExPEC isolates. Antibiotic susceptibility and Extended-Spectrum β-Lactamase testing of isolates were performed. Phylogenetic classification (A, B1, B2 and D), Multi Locus Sequence Typing analysis and virulence-associated genes were investigated. Based on 16S rRNA partial sequence analysis, 97 out of 104 (93.26%) ExPEC isolates were confirmed as E. coli. Ampicillin (74.22%) and cefuroxime axetil (65.97%) resistances had the highest frequencies among the ExPEC isolates. In terms of phylogenetic classification of ExPEC, D (38.14%, 37/97) was the most prevalent group after A (29.89%, 29/97), B2 (20.61%, 20/97), and B1 (11.34%, 11/97)...Continue Reading

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Citations

Apr 5, 2019·PloS One·Jocelin Merida-VieyraAlejandra Aquino-Andrade
Jun 28, 2019·Frontiers in Cellular and Infection Microbiology·Ana Paula DagaEliana Carolina Vespero
Jul 22, 2020·Journal of Infection and Public Health·Katarína ČurováLeonard Siegfried

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Datasets Mentioned

BETA
AP009378
CP000468
CP000948

Methods Mentioned

BETA
PCR
electrophoresis

Software Mentioned

BLAST
MUSCLE
SINA
ExPEC
MEGA
TrimAI
DNA Baser Assembler
trimAL
MEGA7
SILVA

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