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Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam

Livestock has been implicated as a reservoir for antimicrobial resistance (AMR) genes that can spread to humans when antimicrobials are used in animals for food production to treat clinical diseases and prevent and control common disease events. In Vietnam, mcr-1-harboring Escherichia coli (MCRPEC)...

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Autores principales: Nguyen, Phuong Thi Lan, Ngo, Thi Hong Hanh, Tran, Thi Mai Hung, Vu, Thi Ngoc Bich, Le, Viet Thanh, Tran, Hai Anh, Pham, Duy Thai, Nguyen, Ha Thanh, Tran, Dieu Linh, Nguyen, Thi Phuong Lien, Nguyen, Thi Thi Tho, Tran, Nhu Duong, Dang, Duc Anh, Bañuls, Anne-Laure, Choisy, Marc, van Doorn, H. Rogier, Suzuki, Masato, Tran, Huy Hoang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9643773/
https://www.ncbi.nlm.nih.gov/pubmed/36387375
http://dx.doi.org/10.3389/fvets.2022.1034610
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author Nguyen, Phuong Thi Lan
Ngo, Thi Hong Hanh
Tran, Thi Mai Hung
Vu, Thi Ngoc Bich
Le, Viet Thanh
Tran, Hai Anh
Pham, Duy Thai
Nguyen, Ha Thanh
Tran, Dieu Linh
Nguyen, Thi Phuong Lien
Nguyen, Thi Thi Tho
Tran, Nhu Duong
Dang, Duc Anh
Bañuls, Anne-Laure
Choisy, Marc
van Doorn, H. Rogier
Suzuki, Masato
Tran, Huy Hoang
author_facet Nguyen, Phuong Thi Lan
Ngo, Thi Hong Hanh
Tran, Thi Mai Hung
Vu, Thi Ngoc Bich
Le, Viet Thanh
Tran, Hai Anh
Pham, Duy Thai
Nguyen, Ha Thanh
Tran, Dieu Linh
Nguyen, Thi Phuong Lien
Nguyen, Thi Thi Tho
Tran, Nhu Duong
Dang, Duc Anh
Bañuls, Anne-Laure
Choisy, Marc
van Doorn, H. Rogier
Suzuki, Masato
Tran, Huy Hoang
author_sort Nguyen, Phuong Thi Lan
collection PubMed
description Livestock has been implicated as a reservoir for antimicrobial resistance (AMR) genes that can spread to humans when antimicrobials are used in animals for food production to treat clinical diseases and prevent and control common disease events. In Vietnam, mcr-1-harboring Escherichia coli (MCRPEC) strains have been isolated from humans, animals (chickens, pigs, and dogs) feces, flies, foods, and the environment (rainwater, well water, and irrigation water) in communities and from clinical specimens in hospitals. The relationship between levels of AMR in livestock and its occurrence in humans is complex and is driven by many factors. We conducted whole genome sequencing of MCRPEC to analyze the molecular epidemiological characteristics, history, and relatedness of 50 isolates obtained in 2019 from different reservoirs in farms and markets in Ha Nam province, Vietnam. 34 sequence types (STs) with 3 new STs were identified in multilocus sequence typing analysis: ST12945 and ST12946 from chicken feces, and ST12947 from flies. The AMR phenotypes of 50 MCRPEC isolates were as follows: ampicillin (100%, 50/50), cefotaxime (10%, 5/50), gentamicin (60%, 30/50), amikacin (8%, 4/50), meropenem (6%, 3/50), ceftazidime (18%, 9/50), colistin (24%, 12/50) and ciprofloxacin (80%, 40/50). All 50 MCRPEC isolates were identified as MDR. 100% (50/50) isolates carried AMR genes, ranging from 5 to 22 genes. The most prevalent plasmid replicon types carrying mcr-1 were IncP-1 (17/37, 45.9%), IncX4 (7/37, 18.9%), and IncHI2/IncHI2A (6/37, 16.2%). These data suggest that the epidemiology of the mcr-1 gene is mostly determined by plasmid spreading instead of clonal dissemination of MCRPE strains. The co-occurrence of several STs such as ST10, ST48, ST155, ST206, ST2705 in various sample types, joined to the higher prevalence of a few types of Inc plasmids, confirms the dissemination of the mcr-1 carrying plasmids in E. coli clones established in livestock. 5 over 8 STs identified in flies (ST206, ST2705, ST155, ST10, and ST48) suggested the fly contribution in the transmission of AMR bacteria in environments. These popular STs also occur in human samples and 100% of the human samples were positive for the mcr-1 gene.
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spelling pubmed-96437732022-11-15 Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam Nguyen, Phuong Thi Lan Ngo, Thi Hong Hanh Tran, Thi Mai Hung Vu, Thi Ngoc Bich Le, Viet Thanh Tran, Hai Anh Pham, Duy Thai Nguyen, Ha Thanh Tran, Dieu Linh Nguyen, Thi Phuong Lien Nguyen, Thi Thi Tho Tran, Nhu Duong Dang, Duc Anh Bañuls, Anne-Laure Choisy, Marc van Doorn, H. Rogier Suzuki, Masato Tran, Huy Hoang Front Vet Sci Veterinary Science Livestock has been implicated as a reservoir for antimicrobial resistance (AMR) genes that can spread to humans when antimicrobials are used in animals for food production to treat clinical diseases and prevent and control common disease events. In Vietnam, mcr-1-harboring Escherichia coli (MCRPEC) strains have been isolated from humans, animals (chickens, pigs, and dogs) feces, flies, foods, and the environment (rainwater, well water, and irrigation water) in communities and from clinical specimens in hospitals. The relationship between levels of AMR in livestock and its occurrence in humans is complex and is driven by many factors. We conducted whole genome sequencing of MCRPEC to analyze the molecular epidemiological characteristics, history, and relatedness of 50 isolates obtained in 2019 from different reservoirs in farms and markets in Ha Nam province, Vietnam. 34 sequence types (STs) with 3 new STs were identified in multilocus sequence typing analysis: ST12945 and ST12946 from chicken feces, and ST12947 from flies. The AMR phenotypes of 50 MCRPEC isolates were as follows: ampicillin (100%, 50/50), cefotaxime (10%, 5/50), gentamicin (60%, 30/50), amikacin (8%, 4/50), meropenem (6%, 3/50), ceftazidime (18%, 9/50), colistin (24%, 12/50) and ciprofloxacin (80%, 40/50). All 50 MCRPEC isolates were identified as MDR. 100% (50/50) isolates carried AMR genes, ranging from 5 to 22 genes. The most prevalent plasmid replicon types carrying mcr-1 were IncP-1 (17/37, 45.9%), IncX4 (7/37, 18.9%), and IncHI2/IncHI2A (6/37, 16.2%). These data suggest that the epidemiology of the mcr-1 gene is mostly determined by plasmid spreading instead of clonal dissemination of MCRPE strains. The co-occurrence of several STs such as ST10, ST48, ST155, ST206, ST2705 in various sample types, joined to the higher prevalence of a few types of Inc plasmids, confirms the dissemination of the mcr-1 carrying plasmids in E. coli clones established in livestock. 5 over 8 STs identified in flies (ST206, ST2705, ST155, ST10, and ST48) suggested the fly contribution in the transmission of AMR bacteria in environments. These popular STs also occur in human samples and 100% of the human samples were positive for the mcr-1 gene. Frontiers Media S.A. 2022-10-26 /pmc/articles/PMC9643773/ /pubmed/36387375 http://dx.doi.org/10.3389/fvets.2022.1034610 Text en Copyright © 2022 Nguyen, Ngo, Tran, Vu, Le, Tran, Pham, Nguyen, Tran, Nguyen, Nguyen, Tran, Dang, Bañuls, Choisy, van Doorn, Suzuki and Tran. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Veterinary Science
Nguyen, Phuong Thi Lan
Ngo, Thi Hong Hanh
Tran, Thi Mai Hung
Vu, Thi Ngoc Bich
Le, Viet Thanh
Tran, Hai Anh
Pham, Duy Thai
Nguyen, Ha Thanh
Tran, Dieu Linh
Nguyen, Thi Phuong Lien
Nguyen, Thi Thi Tho
Tran, Nhu Duong
Dang, Duc Anh
Bañuls, Anne-Laure
Choisy, Marc
van Doorn, H. Rogier
Suzuki, Masato
Tran, Huy Hoang
Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam
title Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam
title_full Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam
title_fullStr Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam
title_full_unstemmed Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam
title_short Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam
title_sort genomic epidemiological analysis of mcr-1-harboring escherichia coli collected from livestock settings in vietnam
topic Veterinary Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9643773/
https://www.ncbi.nlm.nih.gov/pubmed/36387375
http://dx.doi.org/10.3389/fvets.2022.1034610
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