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Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance
Escherichia albertii is a recently recognized species in the genus Escherichia that causes diarrhoea. The population structure, genetic diversity and genomic features have not been fully examined. Here, 169 E. albertii isolates from different sources and regions in China were sequenced and combined...
Autores principales: | , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Microbiology Society
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8767325/ https://www.ncbi.nlm.nih.gov/pubmed/34882085 http://dx.doi.org/10.1099/mgen.0.000710 |
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author | Luo, Lijuan Wang, Hong Payne, Michael J. Liang, Chelsea Bai, Li Zheng, Han Zhang, Zhengdong Zhang, Ling Zhang, Xiaomei Yan, Guodong Zou, Nianli Chen, Xi Wan, Ziting Xiong, Yanwen Lan, Ruiting Li, Qun |
author_facet | Luo, Lijuan Wang, Hong Payne, Michael J. Liang, Chelsea Bai, Li Zheng, Han Zhang, Zhengdong Zhang, Ling Zhang, Xiaomei Yan, Guodong Zou, Nianli Chen, Xi Wan, Ziting Xiong, Yanwen Lan, Ruiting Li, Qun |
author_sort | Luo, Lijuan |
collection | PubMed |
description | Escherichia albertii is a recently recognized species in the genus Escherichia that causes diarrhoea. The population structure, genetic diversity and genomic features have not been fully examined. Here, 169 E. albertii isolates from different sources and regions in China were sequenced and combined with 312 publicly available genomes (from additional 14 countries) for genomic analyses. The E. albertii population was divided into two clades and eight lineages, with lineage 3 (L3), L5 and L8 more common in China. Clinical isolates were observed in all clades/lineages. Virulence genes were found to be distributed differently among lineages: subtypes of the intimin encoding gene eae and the cytolethal distending toxin gene cdtB were lineage associated, and the second type three secretion system (ETT2) island was truncated in L3 and L6. Seven new eae subtypes and one new cdtB subtype (cdtB-VI) were identified. Alarmingly, 85.9 % of the Chinese E. albertii isolates were predicted to be multidrug-resistant (MDR) with 35.9 % harbouring genes capable of conferring resistance to 10 to 14 different drug classes. The majority of the MDR isolates were of poultry source from China and belonged to four sequence types (STs) [ST4638, ST4479, ST4633 and ST4488]. Thirty-four plasmids with some carrying MDR and virulence genes, and 130 prophages were identified from 17 complete E. albertii genomes. The 130 intact prophages were clustered into five groups, with group five prophages harbouring more virulence genes. We further identified three E. albertii specific genes as markers for the identification of this species. Our findings provided fundamental insights into the population structure, virulence variation and drug resistance of E. albertii . |
format | Online Article Text |
id | pubmed-8767325 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Microbiology Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-87673252022-01-19 Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance Luo, Lijuan Wang, Hong Payne, Michael J. Liang, Chelsea Bai, Li Zheng, Han Zhang, Zhengdong Zhang, Ling Zhang, Xiaomei Yan, Guodong Zou, Nianli Chen, Xi Wan, Ziting Xiong, Yanwen Lan, Ruiting Li, Qun Microb Genom Research Articles Escherichia albertii is a recently recognized species in the genus Escherichia that causes diarrhoea. The population structure, genetic diversity and genomic features have not been fully examined. Here, 169 E. albertii isolates from different sources and regions in China were sequenced and combined with 312 publicly available genomes (from additional 14 countries) for genomic analyses. The E. albertii population was divided into two clades and eight lineages, with lineage 3 (L3), L5 and L8 more common in China. Clinical isolates were observed in all clades/lineages. Virulence genes were found to be distributed differently among lineages: subtypes of the intimin encoding gene eae and the cytolethal distending toxin gene cdtB were lineage associated, and the second type three secretion system (ETT2) island was truncated in L3 and L6. Seven new eae subtypes and one new cdtB subtype (cdtB-VI) were identified. Alarmingly, 85.9 % of the Chinese E. albertii isolates were predicted to be multidrug-resistant (MDR) with 35.9 % harbouring genes capable of conferring resistance to 10 to 14 different drug classes. The majority of the MDR isolates were of poultry source from China and belonged to four sequence types (STs) [ST4638, ST4479, ST4633 and ST4488]. Thirty-four plasmids with some carrying MDR and virulence genes, and 130 prophages were identified from 17 complete E. albertii genomes. The 130 intact prophages were clustered into five groups, with group five prophages harbouring more virulence genes. We further identified three E. albertii specific genes as markers for the identification of this species. Our findings provided fundamental insights into the population structure, virulence variation and drug resistance of E. albertii . Microbiology Society 2021-12-09 /pmc/articles/PMC8767325/ /pubmed/34882085 http://dx.doi.org/10.1099/mgen.0.000710 Text en © 2021 The Authors https://creativecommons.org/licenses/by-nc/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License. |
spellingShingle | Research Articles Luo, Lijuan Wang, Hong Payne, Michael J. Liang, Chelsea Bai, Li Zheng, Han Zhang, Zhengdong Zhang, Ling Zhang, Xiaomei Yan, Guodong Zou, Nianli Chen, Xi Wan, Ziting Xiong, Yanwen Lan, Ruiting Li, Qun Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance |
title | Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance |
title_full | Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance |
title_fullStr | Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance |
title_full_unstemmed | Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance |
title_short | Comparative genomics of Chinese and international isolates of Escherichia albertii: population structure and evolution of virulence and antimicrobial resistance |
title_sort | comparative genomics of chinese and international isolates of escherichia albertii: population structure and evolution of virulence and antimicrobial resistance |
topic | Research Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8767325/ https://www.ncbi.nlm.nih.gov/pubmed/34882085 http://dx.doi.org/10.1099/mgen.0.000710 |
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