Genetic characterisation of a large antibiotic resistant environmental ST131 E. coli plasmid using a long read hybrid assembly approach
Genetic characterisation of a large antibiotic resistant environmental ST131 E. coli plasmid using a long read hybrid assembly approach
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使用长读长混合组装方法对大型抗生素抗性环境 ST131 大肠杆菌质粒进行遗传表征
DOI：
10.1101/2020.06.16.155663
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发表时间：
2020
期刊：
影响因子：
--
通讯作者：
James R
中科院分区：
文献类型：
--
作者：
James R
大肠杆菌131型是一种全球传播的环境。大肠杆菌与质粒介导的blactx - m型扩展谱β -内酰胺酶（ESBLs）的捕获和传播有关。在更广泛的遗传背景下准确识别这些抗性基因，可以更好地理解环境中的选择和持久性机制。在这项研究中，我们使用一种新的DNA提取和富集方法，结合定制的长读支架混合组装和抛光管道，来鉴定先前在ST131环境中鉴定的质粒borneblaCTX-Mgene的遗传背景。coliisolate。这使我们能够识别出一个约100kb的环境质粒的完整结构，并进一步解析出blactx - mvariant到9blactx - m -27基因。与blactx - m -15的全局捕获和传播相关的上游IS26插入元件也在blaCTX-M-27附近被确定。此外，在该质粒上发现的共轭机制缺失，结合毒素-抗毒素和质粒分配系统，表明了一种垂直传播机制，以保持种群的持久性。
Escherichia coliStrain Type 131 are a globally disseminated environmentalE. colithat has been linked to the capture and spread of plasmid mediatedblaCTX-Mtype extended spectrum beta-lactamase (ESBLs). Accurately identifying such resistance genes in their wider genetic context provides a greater understanding of the mechanisms of selection and persistence in the environment. In this study we use a novel DNA extraction and enrichment method in combination with a custom long-read scaffold hybrid-assembly and polishing pipe line to identify the genetic context of the plasmid borneblaCTX-Mgene previously identified in an ST131 environmentalE. coliisolate. This has allowed us to discern the complete structure of a ~100kb environmental plasmid and further resolve theblaCTX-Mvariant to the group 9blaCTX-M-27gene. The upstream IS26 insertion element associated with the global capture and dissemination ofblaCTX-M-15was also identified in proximity to blaCTX-M-27. Furthermore, the lack of conjugative machinery identified on this plasmid, in combination with a toxin-antitoxin and plasmid partitioning system, indicates a mechanism of vertical transmission to maintain persistence in a population.
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影响因子：
5.2
作者：
Livermore, DM;Hawkey, PM
通讯作者：
Hawkey, PM
影响因子：
11.8
作者：
Cottell JL;Webber MA;Coldham NG;Taylor DL;Cerdeño-Tárraga AM;Hauser H;Thomson NR;Woodward MJ;Piddock LJ
通讯作者：
Piddock LJ
影响因子：
4.9
作者：
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通讯作者：
Yoneda, Minoru
影响因子：
5.2
作者：
Matsumura, Yasufumi;Johnson, James R.;Ichiyama, Satoshi
通讯作者：
Ichiyama, Satoshi