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. 2020 Apr 4;9(4):161.
doi: 10.3390/antibiotics9040161.

Clonal Structure, Virulence Factor-encoding Genes and Antibiotic Resistance of Escherichia coli, Causing Urinary Tract Infections and Other Extraintestinal Infections in Humans in Spain and France during 2016

Saskia-Camille Flament-Simon  1   2 , Marie-Hélène Nicolas-Chanoine  3   4 , Vanesa García  1   2 , Marion Duprilot  3   4 , Noémie Mayer  3 , María Pilar Alonso  2   5 , Isidro García-Meniño  1   2 , Jesús E Blanco  1   2 , Miguel Blanco  1   2 , Jorge Blanco  1   2
Affiliations

Clonal Structure, Virulence Factor-encoding Genes and Antibiotic Resistance of Escherichia coli, Causing Urinary Tract Infections and Other Extraintestinal Infections in Humans in Spain and France during 2016

Saskia-Camille Flament-Simon et al. Antibiotics (Basel). .

Abstract

Escherichia coli is the main pathogen responsible for extraintestinal infections. A total of 196 clinical E. coli consecutively isolated during 2016 in Spain (100 from Lucus Augusti hospital in Lugo) and France (96 from Beaujon hospital in Clichy) were characterized. Phylogroups, clonotypes, sequence types (STs), O:H serotypes, virulence factor (VF)-encoding genes and antibiotic resistance were determined. Approximately 10% of the infections were caused by ST131 isolates in both hospitals and approximately 60% of these infections were caused by isolates belonging to only 10 STs (ST10, ST12, ST58, ST69, ST73, ST88, ST95, ST127, ST131, ST141). ST88 isolates were frequent, especially in Spain, while ST141 isolates significantly predominated in France. The 23 ST131 isolates displayed four clonotypes: CH40-30, CH40-41, CH40-22 and CH40-298. Only 13 (6.6%) isolates were carriers of extended-spectrum beta-lactamase (ESBL) enzymes. However, 37.2% of the isolates were multidrug-resistant (MDR). Approximately 40% of the MDR isolates belonged to only four of the dominant clones (B2-CH40-30-ST131, B2-CH40-41-ST131, C-CH4-39-ST88 and D-CH35-27-ST69). Among the remaining MDR isolates, two isolates belonged to B2-CH14-64-ST1193, i.e., the new global emergent MDR clone. Moreover, a hybrid extraintestinal pathogenic E.coli (ExPEC)/enteroaggregative isolate belonging to the A-CH11-54-ST10 clone was identified.

Keywords: E. coli; ST1193; ST131; ST141; ST88; clonal structure; resistance; virulence genes.

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Conflict of interest statement

The authors declare no conflict of interest.

Figures

Figure 1
Figure 1
Comparison of the distribution of phylogenetic groups in the two hospitals.
Figure 2
Figure 2
Comparison of the distribution of O serogroups in the two hospitals.
Figure 3
Figure 3
Comparison of the distribution of sequence types in the two hospitals.
Figure 4
Figure 4
Mean of VF-encoding genes within dominant sequence types.
Figure 5
Figure 5
Comparison of the distribution of sequence type 131 (ST131) clades and clusters in the two hospitals.
Figure 6
Figure 6
Multidrug resistance (MDR) within dominant sequence types.
See this image and copyright information in PMC

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