Genomic and Phylogenomic Characterization of Carbapenem-resistant Pseudomonas aeruginosa ‘High-risk’ Clone O4/ExoS+/ST654 Circulating in Chilean Hospitals

IF 3.7 3区 医学 Q2 INFECTIOUS DISEASES
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Abstract

Introduction

Carbapenem-resistant Pseudomonas aeruginosa (CRPA) is a serious threat to public health. Globally, carbapenemases-producing CRPA isolates mainly belong to ‘high-risk’ clones; however, the molecular epidemiology of CRPA isolates circulating in Chile are scarce, where this pathogen is the main aetiological agent of ventilator-associated pneumonia.

Objectives

To characterize the phylogenomics and molecular features of ST654 CRPA isolates collected in Chile between 2016 and 2022.

Methods

Eighty-nine CRPA isolates collected in different Chilean hospitals from clinical specimens between 2005 and 2022 were analysed. Antibiotic susceptibility tests and carbapenemases production were carried out on the CRPA ST654 isolates. Also, they were subjected to whole-genome sequencing, from which in silico analyses were performed.

Results

Thirty-four strains (38.2%) belonged to the ST654 high-risk clone, being the most predominant lineage of the collection. Most of these isolates belonged to a subclade including KPC producers that also clustered with strains from Argentina and the United States, whereas few VIM and NDM co-producers clustered in two different smaller subclades. The isolates exhibited a broad resistome encompassing genes mediating resistance to several other clinically relevant drugs. Additionally, all the 34 ST654 isolates were ExoS+ as a virulence factor and associated to the O4-serotype.

Conclusions

Our report represents the most comprehensive phylogenomic study of a CRPA high-risk clone ST654 to date. Our analyses suggest that this lineage is undergoing a divergent evolutionary path in Chile, because most of the isolates were KPC producers and were O4 serotype, differing from previous descriptions, which underline the relevance of performing molecular surveillance on this pathogen.

智利医院中流行的耐碳青霉烯类细菌铜绿假单胞菌 "高危 "克隆 O4/ExoS+/ST654 的基因组和系统发生组特征。
导言:耐碳青霉烯类铜绿假单胞菌(CRPA)对公共卫生构成严重威胁。在全球范围内,产生碳青霉烯酶的CRPA分离株主要属于 "高风险 "克隆;然而,在智利流行的CRPA分离株的分子流行病学研究却很少,而这种病原体是呼吸机相关性肺炎的主要病原体:方法:分析 2005 年至 2022 年期间在智利不同医院从临床标本中收集到的 89 株 CRPA 分离物。对CRPA ST654分离株进行了抗生素敏感性试验和碳青霉烯酶生产试验。此外,还对这些菌株进行了全基因组测序(WGS),并从中进行了硅学分析:结果:34 株菌株(38.2%)属于 ST654 "高风险 "克隆,是收集菌株中最主要的品系。这些分离菌株大多属于一个亚支系,其中包括 KPC 生产者,他们还与来自阿根廷和美国的菌株聚集在一起,而少数 VIM 和 NDM 共同生产者则聚集在两个不同的较小亚支系中。这些分离菌株表现出广泛的耐药性基因组,包括对其他几种临床相关药物的耐药性基因。此外,所有 34 株 ST654 分离物的毒力因子均为 ExoS+,并与 O4-亚型相关:我们的报告是迄今为止对 CRPA "高风险 "克隆 ST654 进行的最全面的系统发生组学研究。我们的分析表明,该菌株在智利正经历着不同的进化路径,因为大多数分离株都能产生 KPC,并且属于 O4 血清型,这与之前的描述不同,这突出表明了对该病原体进行分子监测的重要性。
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来源期刊
Journal of global antimicrobial resistance
Journal of global antimicrobial resistance INFECTIOUS DISEASES-PHARMACOLOGY & PHARMACY
CiteScore
8.70
自引率
2.20%
发文量
285
审稿时长
34 weeks
期刊介绍: The Journal of Global Antimicrobial Resistance (JGAR) is a quarterly online journal run by an international Editorial Board that focuses on the global spread of antibiotic-resistant microbes. JGAR is a dedicated journal for all professionals working in research, health care, the environment and animal infection control, aiming to track the resistance threat worldwide and provides a single voice devoted to antimicrobial resistance (AMR). Featuring peer-reviewed and up to date research articles, reviews, short notes and hot topics JGAR covers the key topics related to antibacterial, antiviral, antifungal and antiparasitic resistance.
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