Acquisition of genomic elements were pivotal for the success of Escherichia coli ST410
Acquisition of genomic elements were pivotal for the success of Escherichia coli ST410
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DOI：
10.1093/jac/dkac329
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发表时间：
2022-10-07
影响因子：
5.2
通讯作者：
Pitout, Johann D. D.
中科院分区：
文献类型：
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作者：
Chen, Liang;Peirano, Gisele;Pitout, Johann D. D.
大肠杆菌ST410是一种与bla（CTX-M-15）和bla（OXA-181）相关的新型耐多药克隆。关于ST410分支的全球分布和与不同β -内酰胺酶相关的可移动遗传元件的综合数据有限。方法对来自11个国家的产碳青霉烯酶ST410菌株（n = 45）进行短读和长读WGS。研究了全球大肠杆菌ST410的进化历史。结果OXA-181和NDM-5是最常见的碳青霉烯酶，它们使用不同的潜在策略来确保它们与ST410进化支的成功关联。我们对公开的ST410基因组进行了系统发育分析，修正了之前发表的ST410 B亚支：ST410-B1与B1/H24相同，ST410-B2包括B2/H24R和B3/H24Rx，而ST410-B3对应于B4/H24RxC。长读WGS确定了以下可能影响ST410-B3进化的基因组事件：(i) gyrA和parC突变是通过同源重组事件获得的；（ii） ST410-B3中bla（CMY-2）的染色体整合；（iii） ST410-B2中ST410-B3的出现伴随着携带bla的IncFII质粒（CTX-M-15）的替换（即ST410-B2中的F36:31:A4:B1与ST410-B3中的F1:A1:B49质粒）；（iv） NDM-5基因随着时间的推移被整合到F1:A1:B49质粒中。结论全球产碳青霉烯酶的ST410种群以ST410- b2和B3亚支为主，地理分布不同，需要持续的基因组监测。我们提供了关键基因组事件的更新时间表，这些事件塑造了ST410-B3亚支系的成功。
Background Escherichia coli ST410 is an emerging MDR clone linked to bla(CTX-M-15) and bla(OXA-181). Limited comprehensive data about the global distribution of ST410 clades and mobile genetic elements associated with different beta-lactamases are available. Methods Short- and long-read WGS were performed on a collection of ST410 producing carbapenemases (n = 45) obtained from 11 countries. The evolutionary history of global E. coli ST410 was also investigated. Results OXA-181 and NDM-5 were the most frequent carbapenemases and used different underlying strategies to ensure their successful association with ST410 clades. Our phylogenetic analysis of publicly available ST410 genomes amended the previously published ST410 B subclades: ST410-B1 is identical to B1/H24, ST410-B2 includes B2/H24R and B3/H24Rx, while ST410-B3 corresponds to B4/H24RxC. Long-read WGS identified the following genomic events that likely shaped the evolution of ST410-B3: (i) gyrA and parC mutations were acquired via homologous recombination events; (ii) chromosomal integration of bla(CMY-2) among ST410-B3; (iii) the emergence of ST410-B3 from ST410-B2 was accompanied by the replacement of IncFII plasmids harbouring bla(CTX-M-15) (i.e. F36:31:A4:B1 in ST410-B2 with F1:A1:B49 plasmids in ST410-B3); and (iv) the NDM-5 gene was integrated within F1:A1:B49 plasmids over time. Conclusions The global ST410 population producing carbapenemases is dominated by the ST410-B2 and B3 subclades with varied geographical distribution that requires ongoing genomic surveillance. We provided an updated timeline of pivotal genomic events that have shaped the success of the ST410-B3 subclade.