Cargando…

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...

Descripción completa

Detalles Bibliográficos
Autores principales: 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Microbiology Society 2021
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
_version_ 1784634712373854208
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
work_keys_str_mv AT luolijuan comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT wanghong comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT paynemichaelj comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT liangchelsea comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT baili comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT zhenghan comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT zhangzhengdong comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT zhangling comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT zhangxiaomei comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT yanguodong comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT zounianli comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT chenxi comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT wanziting comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT xiongyanwen comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT lanruiting comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance
AT liqun comparativegenomicsofchineseandinternationalisolatesofescherichiaalbertiipopulationstructureandevolutionofvirulenceandantimicrobialresistance