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Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates

OBJECTIVE: The worldwide dissemination of colistin-resistant Escherichia coli (E. coli) endangers public health. This study aimed to better understand the global genomic epidemiology of E. coli isolates carrying mobilized colistin resistance (mcr) genes, providing information to assist in infection...

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Autores principales: Shi, Jiping, Zhu, Hong, Liu, Chang, Xie, Hui, Li, Chuchu, Cao, Xiaoli, Shen, Han
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9889832/
https://www.ncbi.nlm.nih.gov/pubmed/36741897
http://dx.doi.org/10.3389/fmicb.2022.1105401
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author Shi, Jiping
Zhu, Hong
Liu, Chang
Xie, Hui
Li, Chuchu
Cao, Xiaoli
Shen, Han
author_facet Shi, Jiping
Zhu, Hong
Liu, Chang
Xie, Hui
Li, Chuchu
Cao, Xiaoli
Shen, Han
author_sort Shi, Jiping
collection PubMed
description OBJECTIVE: The worldwide dissemination of colistin-resistant Escherichia coli (E. coli) endangers public health. This study aimed to better understand the global genomic epidemiology of E. coli isolates carrying mobilized colistin resistance (mcr) genes, providing information to assist in infection and prevention. METHODS: Escherichia coli genomes were downloaded from NCBI, and mcr was detected using BLASTP. Per software was used to extract information on hosts, resources, collection data, and countries of origin from GenBank. Sequence types (STs), prevalence of plasmids, antimicrobial resistance genes (ARG), and virulence factors (VF) in these genomes were analyzed. Statistical analyses were performed to assess the relationships between mcr, ARGs, plasmids, and STs. RESULTS: In total, 778 mcr-positive isolates were identified. Four mcr variants were detected, with mcr-1 (86.1%) being the most widespread, followed by mcr-9 (5.7%), mcr-5 (4.4%), and mcr-3 (3.0%). Multiple ARGs were identified, with bla(CTX–M) (53.3%), fosA (28.8%), qnr (26.1%), bla(NDM) (19.8%), and aac (6’)-Ib-cr (14.5%) being the most common. Overall, 239 distinct STs were identified, of which ST10 (13.8%) was the most prevalent. A total of 113 different VFs were found, terC (99.9%) and gad (83.0%) were most frequently detected. Twenty types of plasmids were identified; IncFIB (64.1%), IncX (42.3%), and IncX (42.3%) were the most common replicons. IncI2 and IncX4 were frequently detected in mcr-1-positive isolates, whereas IncFII, IncI1-I, and IncHI2 were dominant plasmids in mcr-3, mcr-5, and mcr-9-positive isolates, respectively. A higher frequency of ARGs and VFs was observed among ST156 and ST131 isolates. CONCLUSION: Our data indicated that more than half of the mcr-positive E. coli strains carried endemic ARGs and VFs. ST10 and ST156 isolates deserved further attention, given the rapid transmission of ST10 and the convergence of ARGs and VFs in ST156.
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spelling pubmed-98898322023-02-02 Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates Shi, Jiping Zhu, Hong Liu, Chang Xie, Hui Li, Chuchu Cao, Xiaoli Shen, Han Front Microbiol Microbiology OBJECTIVE: The worldwide dissemination of colistin-resistant Escherichia coli (E. coli) endangers public health. This study aimed to better understand the global genomic epidemiology of E. coli isolates carrying mobilized colistin resistance (mcr) genes, providing information to assist in infection and prevention. METHODS: Escherichia coli genomes were downloaded from NCBI, and mcr was detected using BLASTP. Per software was used to extract information on hosts, resources, collection data, and countries of origin from GenBank. Sequence types (STs), prevalence of plasmids, antimicrobial resistance genes (ARG), and virulence factors (VF) in these genomes were analyzed. Statistical analyses were performed to assess the relationships between mcr, ARGs, plasmids, and STs. RESULTS: In total, 778 mcr-positive isolates were identified. Four mcr variants were detected, with mcr-1 (86.1%) being the most widespread, followed by mcr-9 (5.7%), mcr-5 (4.4%), and mcr-3 (3.0%). Multiple ARGs were identified, with bla(CTX–M) (53.3%), fosA (28.8%), qnr (26.1%), bla(NDM) (19.8%), and aac (6’)-Ib-cr (14.5%) being the most common. Overall, 239 distinct STs were identified, of which ST10 (13.8%) was the most prevalent. A total of 113 different VFs were found, terC (99.9%) and gad (83.0%) were most frequently detected. Twenty types of plasmids were identified; IncFIB (64.1%), IncX (42.3%), and IncX (42.3%) were the most common replicons. IncI2 and IncX4 were frequently detected in mcr-1-positive isolates, whereas IncFII, IncI1-I, and IncHI2 were dominant plasmids in mcr-3, mcr-5, and mcr-9-positive isolates, respectively. A higher frequency of ARGs and VFs was observed among ST156 and ST131 isolates. CONCLUSION: Our data indicated that more than half of the mcr-positive E. coli strains carried endemic ARGs and VFs. ST10 and ST156 isolates deserved further attention, given the rapid transmission of ST10 and the convergence of ARGs and VFs in ST156. Frontiers Media S.A. 2023-01-18 /pmc/articles/PMC9889832/ /pubmed/36741897 http://dx.doi.org/10.3389/fmicb.2022.1105401 Text en Copyright © 2023 Shi, Zhu, Liu, Xie, Li, Cao and Shen. 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 Microbiology
Shi, Jiping
Zhu, Hong
Liu, Chang
Xie, Hui
Li, Chuchu
Cao, Xiaoli
Shen, Han
Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates
title Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates
title_full Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates
title_fullStr Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates
title_full_unstemmed Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates
title_short Epidemiological and genomic characteristics of global mcr-positive Escherichia coli isolates
title_sort epidemiological and genomic characteristics of global mcr-positive escherichia coli isolates
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9889832/
https://www.ncbi.nlm.nih.gov/pubmed/36741897
http://dx.doi.org/10.3389/fmicb.2022.1105401
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