三类禽源碳青霉烯类耐药大肠杆菌流行病学调查及全基因组测序分析

doi:10.16431/j.cnki.1671-7236.2023.04.036

Abstract

Abstract: 【Objective】 This study was aimed to investigate the inter-group distribution,drug resistance characteristics and genetic relationships of carbapem-resistant Escherichia coli (CREC) strains from different poultry,so as to provide technical support for blocking the potential hazards of CREC.【Method】 A total of 1 131 cloacal swabs were collected from broilers,laying hens and waterfowls in Jiaodong area,and CREC strains were identified by selective isolation and culture,mass spectrometry identification,PCR,broth microdilution,multi-locus sequence typing (MLST) and whole genome sequencing (WGS).【Result】 A total of 364 bla_NDM gene positive CREC strains were isolated with a separation rate of 32.18% and the overall proportion of positive farms was 76.32%.The positive rates at both farm and individual levels of broilers were the highest (93.33% and 55.56% respectively).All the strains from three types of poultry were multi-drug resistant.83.65% of the isolates were resistant to 8 or more classes of drugs simultaneously,and the resistance rate to most of the tested drugs was more than 80%.The multi-drug resistance in broilers was the most serious,followed by waterfowl and laying hens.45 whole-genome sequenced CREC strains carried 52 drug resistance genes in 12 classes within 4 kinds of bla_NDM variants (mainly bla_NDM-5,77.78%).The detection rates of specific drug resistant gene of CREC originated from three types of poultry were different.A total of 46 ST types were detected,with a diversity ratio of 44.23%.There were 82-71 307 SNPs among the CREC strains from three types of poultry,and the dominant ST types of different poultry were quite different.【Conclusion】 CREC that carrying bla_NDM was widely prevalent in different poultry farms,especially in broiler farms,and the bla_NDM-5subtype was dominant.They were generally resistant to a variety of antimicrobial agents and carried a large number of drug-resistant genes,mainly plasmid transmission.CREC strains from three types of poultry showed diverse distribution,and the genetic relationship among most strains was quite far.It was suggested that surveillance and risk factors of CREC among different animals should be strengthened.

Key words: poultry; carbapenem-resistant Escherichia coli (CREC); inter-flock distribution; multi-locus sequence typing (MLST); whole genome sequencing (WGS)

CLC Number:

S852.61

LI Cuihan, QU Zhina, GAO Yubin, LI Yan, WANG Juan, DUAN Xiaoxiao, WANG Lin, ZHANG Xiyue, ZHAO Ge, HUANG Xiumei, ZHAO Jianmei, ZHANG Qingqing, WANG Junwei, HUANG Baoxu, LIU Junhui. Epidemiology Investigation and Whole Genome Sequencing Analysis of Three Types of Poultry Originated Carbapenem-resistant Escherichia coli[J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(4): 1653-1662.

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Epidemiology Investigation and Whole Genome Sequencing Analysis of Three Types of Poultry Originated Carbapenem-resistant Escherichia coli

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