Diversity and trends in population structure of ESBL-producing Enterobacteriaceae in febrile urinary tract infections in children in France from 2014 to 2017.
Adolescent
Anti-Bacterial Agents
/ pharmacology
Child
Child, Preschool
Drug Resistance, Multiple, Bacterial
/ genetics
Enterobacteriaceae
/ drug effects
Enterobacteriaceae Infections
/ epidemiology
Extraintestinal Pathogenic Escherichia coli
/ drug effects
Fever
/ epidemiology
France
/ epidemiology
Genetic Variation
Humans
Microbial Sensitivity Tests
Prospective Studies
Serogroup
Urinary Tract Infections
/ epidemiology
Virulence Factors
/ genetics
Whole Genome Sequencing
Journal
The Journal of antimicrobial chemotherapy
ISSN: 1460-2091
Titre abrégé: J Antimicrob Chemother
Pays: England
ID NLM: 7513617
Informations de publication
Date de publication:
01 01 2020
01 01 2020
Historique:
received:
29
06
2019
revised:
21
08
2019
accepted:
10
09
2019
pubmed:
17
10
2019
medline:
17
4
2021
entrez:
17
10
2019
Statut:
ppublish
Résumé
The population structure of extraintestinal pathogenic Escherichia coli evolves over time, notably due to the emergence of antibiotic-resistant clones such as ESBL-producing Enterobacteriaceae (ESBL-E). To analyse by WGS the genetic diversity of a large number of ESBL-E isolated from urinary tract infections in children from paediatric centres across France between 2014 and 2017 and collected by the National Observatory of febrile urinary tract infection (FUTI) caused by ESBL-E. A total of 40 905 Enterobacteriaceae-positive urine cultures were identified. ESBL-E were found in 1983 samples (4.85%). WGS was performed on 251 ESBL-E causing FUTI. STs, core genome MLST (cgMLST), serotype, fimH allele, ESBL genes and presence of papGII key virulence factor were determined. E. coli and Klebsiella pneumoniae were found in 86.9% (218/251) and 11.2% (28/251) of cases, respectively. Several STs predominate among E. coli such as ST131, ST38, ST69, ST73, ST95, ST405, ST12 and ST1193, while no ST emerged in K. pneumoniae. E. coli ST131, ST38 and ST1193 increased during the study period, with a heterogeneity in papGII prevalence (64.5%, 35% and 20% respectively). Most isolates harboured the CTX-M type (97%) with a predominance of blaCTX-M-15. blaCTX-M-27, an emerging variant in E. coli, is found in various STs. cgMLST enabled discrimination of clusters within the main STs. The predominance of ST131, and the emergence of other STs such as ST38 and ST1193 combined with ESBL genes deserves close epidemiological surveillance considering their high threat in infectious disease. cgMLST could be a discriminant complementary tool for the analyses.
Sections du résumé
BACKGROUND
The population structure of extraintestinal pathogenic Escherichia coli evolves over time, notably due to the emergence of antibiotic-resistant clones such as ESBL-producing Enterobacteriaceae (ESBL-E).
OBJECTIVES
To analyse by WGS the genetic diversity of a large number of ESBL-E isolated from urinary tract infections in children from paediatric centres across France between 2014 and 2017 and collected by the National Observatory of febrile urinary tract infection (FUTI) caused by ESBL-E.
METHODS
A total of 40 905 Enterobacteriaceae-positive urine cultures were identified. ESBL-E were found in 1983 samples (4.85%). WGS was performed on 251 ESBL-E causing FUTI. STs, core genome MLST (cgMLST), serotype, fimH allele, ESBL genes and presence of papGII key virulence factor were determined.
RESULTS
E. coli and Klebsiella pneumoniae were found in 86.9% (218/251) and 11.2% (28/251) of cases, respectively. Several STs predominate among E. coli such as ST131, ST38, ST69, ST73, ST95, ST405, ST12 and ST1193, while no ST emerged in K. pneumoniae. E. coli ST131, ST38 and ST1193 increased during the study period, with a heterogeneity in papGII prevalence (64.5%, 35% and 20% respectively). Most isolates harboured the CTX-M type (97%) with a predominance of blaCTX-M-15. blaCTX-M-27, an emerging variant in E. coli, is found in various STs. cgMLST enabled discrimination of clusters within the main STs.
CONCLUSIONS
The predominance of ST131, and the emergence of other STs such as ST38 and ST1193 combined with ESBL genes deserves close epidemiological surveillance considering their high threat in infectious disease. cgMLST could be a discriminant complementary tool for the analyses.
Identifiants
pubmed: 31617912
pii: 5588579
doi: 10.1093/jac/dkz423
doi:
Substances chimiques
Anti-Bacterial Agents
0
Virulence Factors
0
Types de publication
Journal Article
Multicenter Study
Observational Study
Langues
eng
Sous-ensembles de citation
IM
Pagination
96-105Investigateurs
Marie-Noëlle Adam
(MN)
Marlène Amara
(M)
Isabelle Andriantahina
(I)
Abdelmalek Belgaid
(A)
Sandra Biscardi
(S)
Sophie Boyer
(S)
Catherine Branger
(C)
Isabelle Breant
(I)
Jack Breuil
(J)
Jocelyne Caillon
(J)
Emmanuel Cixous
(E)
Bogdan Cojocaru
(B)
Irina Craiu
(I)
Marion Decobert
(M)
Rodrigue Dessein
(R)
Florence Doucet-Populaire
(F)
François Dubos
(F)
Sarah Ducrocq
(S)
Anne Farges-Berth
(A)
Cécile Farrugia
(C)
Alain Fiacre
(A)
Aurélien Galerne
(A)
Hélène Garrec
(H)
Emilie Georget
(E)
Emmanuel Grimpel
(E)
Laure Hees
(L)
Franck Labbee
(F)
Aurélia Pitsch
(A)
Isabelle Poilane
(I)
Valérie Sivadon-Tardy
(V)
Valérie Soussan-Banini
(V)
Benoit Starck
(B)
Sandra Timsit
(S)
Philippe Traore
(P)
Anne Vachee
(A)
Olivier Vignaud
(O)
Informations de copyright
© The Author(s) 2019. Published by Oxford University Press on behalf of the British Society for Antimicrobial Chemotherapy. All rights reserved. For permissions, please email: journals.permissions@oup.com.