Genome analysis of third-generation cephalosporin-resistant Escherichia coli and Salmonella species recovered from healthy and diseased food-producing animals in Europe

被引:4
|
作者
Sauget, Marlene [1 ]
Atchon, Alban K. [2 ,3 ]
Valot, Benoit [2 ,3 ]
Garch, Farid El [4 ,5 ]
Jong, Anno de [5 ]
Moyaert, Hilde [5 ,6 ]
Hocquet, Didier [1 ,2 ,3 ]
机构
[1] CHU, Serv Hyg Hosp, Besancon, France
[2] Univ Bourgogne Franche Comte, Bioinformat & Big Data Serv Sante, UFR Sante, Besancon, France
[3] Univ Bourgogne Franche Comte, UMR CNRS Chrono Environm 6249, Besancon, France
[4] Vetoquinol SA, Global Drug Dev Ctr, Lure, France
[5] CEESA, EASSA & VetPath Study Grp, Brussels, Belgium
[6] Zoetis Belgium SA, Vet Med Res & Dev, Zaventem, Belgium
来源
PLOS ONE | 2023年 / 18卷 / 10期
关键词
COMPANION ANIMALS; CTX-M; PREVALENCE; PLASMIDS; IMPACT; PATHOGENICITY; HEIDELBERG; LIVESTOCK; CARRIAGE; POULTRY;
D O I
10.1371/journal.pone.0289829
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
The animal reservoir of Enterobacterales producing Extended-Spectrum-beta-Lactamases (ESBL) and plasmid-borne cephalosporinases (pAmpC) is a global concern. Using genome data, we analyzed a population of Escherichia coli and Salmonella species resistant to third-generation cephalosporins (3GC-R) recovered from healthy food animals (HA) and diseased food animals (DA) across Europe. Among the isolates collected from HA (n = 4,498) and DA (n = 833) in up to twelve European countries, 62 (1.4%) and 45 (5.4%) were 3GC-R, respectively. The genomes of these 3GC-R 107 isolates were sequenced to identify bla(ESBL) and bla(AmpC), sequence types (STs), virulence-associated genes, and Salmonella serovars. We also assessed their population structure using core genome multilocus sequence typing. The 78 3GC-R Escherichia coli originated from poultry (n = 27), swine (n = 26), and cattle (n = 25). Almost all (n = 77; 98.7%) harbored at least one bla(ESBL) or bla(AmpC), with bla(CTX-M-1) predominating. We identified 51 STs, with ST10 and ST101 being the most frequent. The population of 3GC-R E. coli was polyclonal. The 29 3GC-R Salmonella spp. were mostly retrieved from healthy broiler (96.5%). bla(CMY-2) dominated in this population. We found two clusters of CMY-2-producing Salmonella spp. in Germany: one with 15 isolates of S. Heidelberg isolates and another with six S. Minnesota, all of them with bla(CMY-2). Our results confirm the low prevalence of 3GC-R E. coli and Salmonella spp. in HA and DA. bla(CTX-M-1) was dominating in a highly diverse population of E. coli. 3GC-R E.coli isolated from HA and DA were genetically unrelated, with high clonal diversity suggesting multiple origins of contamination. This contrasted with the clonal population of 3GC-R Salmonella spp. in which bla(CMY-2) dominated through two dominant serovars in this collection.
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页数:18
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