Molecular characteristics of phages located in Carbapenemase-Producing Escherichia coli clinical isolates: New Phage-Like Plasmids
Molecular characteristics of phages located in Carbapenemase-Producing Escherichia coli clinical isolates: New Phage-Like Plasmids
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DOI：
10.1101/2022.06.29.498070
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发表时间：
2022-07
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通讯作者：
Maria Lopez-Diaz;I. Bleriot;O. Pacios;L. Fernández-García;L. Blasco;A. Ambroa;C. Ortiz-Cartagena;N. Woodford;M. Ellington;M. Tomás
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作者：
Maria Lopez-Diaz;I. Bleriot;O. Pacios;L. Fernández-García;L. Blasco;A. Ambroa;C. Ortiz-Cartagena;N. Woodford;M. Ellington;M. Tomás
大肠杆菌通常栖息于人类和动物的胃肠道。大多数E.大肠杆菌细菌不会引起问题，但是获得由移动的质粒编码的不同的抗性和毒力基因或由不同的细菌分离株编码的不同的抗性和毒力基因与成功的多药耐药（MDR）大肠杆菌的高风险克隆的出现有关。大肠杆菌如ST 131或ST 405。在本研究中，在21株产碳青霉烯酶大肠杆菌临床分离株中发现了50株温和噬菌体。对大肠杆菌的ST 38、ST 131、ST 167、ST 405和ST 410序列型进行了分析。这些病毒被分类在尾病毒目的三个科中：Siphoviridae科中的24个，Myoviridae科中的23个和Podoviridae科中的3个。研究的噬菌体大小范围为11至95 Kb。末端酶大亚基的系统发育分析使我们能够将这些噬菌体分成不同的组，这些组与存放在微生物与噬菌体（MVP）数据库中的噬菌体序列相似，属于簇229，604，2503和2725。另一方面，生物信息学研究表明，大多数鉴定的蛋白质具有结构功能（26.73%），但也具有裂解/溶原性（6.70%）或调节（5.20%）等功能。此外，ParA-ParB分配系统和II型毒素-抗毒素Phd-Doc系统也在两个研究的噬菌体中发现，这可能表明质粒-原噬菌体的存在。宿主范围试验表明，两个分离株比其他分离株更容易感染。重要性大肠杆菌是导致人类健康问题最多的病原体之一，因为它对不同的抗生素具有多重耐药性。噬菌体定位于该物种的不同分离物的研究对于开发新的抗感染疗法是重要的。目前，抗生素耐药性是一个主要问题，但越来越多的研究指出，噬菌体的实验性治疗是一种可能的解决方案。
Escherichia coli normally inhabits the gastrointestinal tract of humans and animals. Most E. coli bacteria do not cause problems, but the acquisition of different resistance and virulence genes encoded by mobile plasmids or phages by different bacterial isolates has been associated with the appearance of successful high-risk clones of multidrug-resistant (MDR) E. coli such as ST131 or ST405. In the present study, 50 temperate bacteriophages present in 21 clinical isolates of carbapenemase-producing E. coli of sequence types (STs) ST38, ST131, ST167, ST405 and ST410 were analysed. These phages were classified in the three families of the order Caudovirales: 24 within the family Siphoviridae, 23 in Myoviridae and 3 in Podoviridae. The size of the phages studied ranged from 11 to 95 Kb. Phylogenetic analysis of the terminase large subunit allowed us to classify these phages into different groups showing similarity with the phage sequences deposited in the Microbe Versus Phage (MVP) database and which belonged to clusters 229, 604, 2503 and 2725. On the other hand, bioinformatic study revealed that most of the identified proteins exerted a structural function (26.73%) but also functions involved in lysis/lysogeny (6.70%) or regulation (5.20%) among others. In addition, the ParA-ParB partitioning system and the type II toxin-antitoxin Phd-Doc system were also found in two of the phages studied, which could indicate the presence of plasmid-prophages. Host range testing revealed that two isolates were more susceptible to infection than the other isolates. IMPORTANCE Escherichia coli is one of the pathogens that causes most problems in human health, as it presents multiple resistances to different antibiotics. The study of bacteriophages located in different isolates of this species is important for the development of new anti-infective therapies. Currently, antibiotic resistance is a major problem, but more and more studies are pointing to experimental treatments with bacteriophages as a possible solution.