Whole-genome sequencing of Acinetobacter baumannii clinical isolates from a tertiary hospital in Terengganu, Malaysia (2011-2020), revealed the predominance of the Global Clone 2 lineage.

IF 4 2区生物学 Q1 GENETICS & HEREDITY

Microbial Genomics Pub Date : 2025-02-01 DOI:10.1099/mgen.0.001345

Nurul Saidah Din, Farahiyah Mohd Rani, Ahmed Ghazi Alattraqchi, Salwani Ismail, Nor Iza A Rahman, David W Cleary, Stuart C Clarke, Chew Chieng Yeo

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Abstract

Carbapenem-resistant Acinetobacter baumannii is recognized by the World Health Organization (WHO) as one of the top priority pathogens. Despite its public health importance, genomic data of clinical isolates from Malaysia remain scarce. In this study, whole-genome sequencing was performed on 126 A. baumannii isolates collected from the main tertiary hospital in the state of Terengganu, Malaysia, over a 10-year period (2011-2020). Antimicrobial susceptibilities determined for 20 antibiotics belonging to 8 classes showed that 77.0% (n=97/126) of the isolates were categorized as multidrug resistant (MDR), with all MDR isolates being carbapenem resistant. Multilocus sequence typing analysis categorized the Terengganu A. baumannii clinical isolates into 34 Pasteur and 44 Oxford sequence types (STs), with ST2_Pasteur of the Global Clone 2 lineage identified as the dominant ST (n=76/126; 60.3%). The ST2_Pasteur isolates could be subdivided into six Oxford STs with the majority being ST195_Oxford (n=35) and ST208_Oxford (n=17). Various antimicrobial resistance genes were identified with the bla _OXA-23-encoded carbapenemase being the predominant acquired carbapenemase gene (n=90/126; 71.4%). Plasmid-encoded rep genes were identified in nearly all (n=122/126; 96.8%) of the isolates with the majority being Rep_3 family (n=121). Various virulence factors were identified, highlighting the pathogenic nature of this bacterium. Only 14/126 (11.1%) of the isolates were positive for the carriage of CRISPR-Cas arrays with none of the prevalent ST2_Pasteur isolates harbouring them. This study provided a genomic snapshot of the A. baumannii isolates obtained from a single tertiary healthcare centre in Malaysia over a 10-year period and showed the predominance of a single closely related ST2_Pasteur lineage, indicating the entrenchment of this clone in the hospital.

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对马来西亚丁加奴一家三级医院的鲍曼不动杆菌临床分离物进行的全基因组测序（2011-2020 年）显示，全球克隆 2 菌系占主导地位。

耐碳青霉烯鲍曼不动杆菌是世界卫生组织（WHO）认定的重点病原体之一。尽管其在公共卫生方面具有重要意义，但马来西亚临床分离株的基因组数据仍然很少。在这项研究中，对10年期间（2011-2020年）从马来西亚丁加奴州主要三级医院收集的126株鲍曼不动杆菌进行了全基因组测序。对8类20种抗生素的药敏检测结果显示，77.0% （n=97/126）的分离株为多重耐药（MDR），其中所有MDR分离株均对碳青霉烯类耐药。多位点序列分型分析将登嘉楼鲍曼不动杆菌临床分离株分为34种巴斯德序列型和44种牛津序列型（ST），其中全球克隆2谱系的st2巴斯德序列为优势ST (n=76/126；60.3%)。st2巴斯德分离株可细分为6个Oxford STs，其中以ST195Oxford （n=35）和ST208Oxford （n=17）为主。鉴定出多种耐药基因，以bla oxa -23编码的碳青霉烯酶为优势获得性碳青霉烯酶基因(n=90/126；71.4%)。质粒编码的rep基因在几乎所有基因中都被鉴定出来(n=122/126；96.8%)，以Rep_3家族（n=121）居多。鉴定了各种毒力因子，突出了这种细菌的致病性。只有14/126（11.1%）的分离株携带CRISPR-Cas阵列阳性，而所有流行的ST2Pasteur分离株都不携带CRISPR-Cas阵列。这项研究提供了10年间从马来西亚一家三级医疗中心获得的鲍曼不动杆菌分离株的基因组快照，并显示了一个密切相关的st2巴斯德谱系的优势，表明该克隆在医院中的地位。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Microbial Genomics Medicine-Epidemiology

CiteScore

6.60

自引率

2.60%

发文量

153

审稿时长

12 weeks

期刊介绍： Microbial Genomics (MGen) is a fully open access, mandatory open data and peer-reviewed journal publishing high-profile original research on archaea, bacteria, microbial eukaryotes and viruses.