Heterogeneity and Genomic Plasticity of Acinetobacter baumannii and Acinetobacter nosocomialis Isolates Recovered from Clinical Samples in India.

IF 2.3 3区生物学 Q3 MICROBIOLOGY

Current Microbiology Pub Date : 2024-10-19 DOI:10.1007/s00284-024-03942-z

Manasa Tantry, Tushar Shaw, Shwethapriya Rao, Chiranjay Mukhopadhyay, Chaitanya Tellapragada, Vandana Kalwaje Eshwara

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Abstract

Acinetobacter baumannii and Acinetobacter nosocomialis are the imperious pathogens in the intensive care units. We aimed to explore the genomic features of these pathogens to understand the factors influencing their plasticity. Using next-generation sequencing, two carbapenem-resistant A. baumannii (AbaBS-3, AbaETR-4) isolates and a pan-susceptible A. nosocomialis (AbaAS-5) isolate were characterised. All genomes exhibited 94% similarity with a degree of heterogeneity. AbaBS-3 and AbaETR-4 harboured antibiotic resistance gene (ARG) repertoire to most antibiotic classes. Carbapenem resistance was due to blaOXA-23 and blaOXA-66 besides the antibiotic efflux pumps. Diverse mobile genetic elements (MGE), insertion sequences (IS), prophages and virulence determinants with a plethora of stress response genes were identified in all three genomes. Class-1 integron in AbaETR-4, encoded genes that confer resistance to aminoglycosides, phenicol, sulfonamides and disinfectants. Substitutions in LpxACD and PmrCAB of AbaETR-4 confirmed the colistin resistance in vitro. Novel mutations in piuA, responsible for transporting cefiderocol, were found in AbaBS-3 and AbaETR-4. Plasmids carrying toxin-antitoxin systems, ARGs and ISs were present in these genomes. All three genomes harboured diverse protein secretion systems, virulence determinants related to immune evasion, adherence, biofilm formation and iron acquisition systems. AbaAS-5 exclusively harboured serine protease pkf, and CpaA substrate of type-II secretion system but lacked the acinetobactin-iron acquisition system. Our work delivers a holistic genome characterization of A. baumannii, coupled with a trailblazing attempt to study A. nosocomialis from India. The presence of ARGs and potential virulence factors interspersed with MGE is a cause for concern, depicting the dynamic adaptability mediated by genetic recombination.

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从印度临床样本中发现的鲍曼不动杆菌和产气不动杆菌分离物的异质性和基因组可塑性。

鲍曼不动杆菌（Acinetobacter baumannii）和诺索卡米氏不动杆菌（Acinetobacter nosocomialis）是重症监护病房中最常见的病原体。我们旨在探索这些病原体的基因组特征，以了解影响其可塑性的因素。利用新一代测序技术，我们鉴定了两株耐碳青霉烯类鲍曼不动杆菌（AbaBS-3、AbaETR-4）分离株和一株泛敏感鲍曼不动杆菌（AbaAS-5）分离株。所有基因组的相似度均为 94%，但存在一定程度的异质性。AbaBS-3 和 AbaETR-4 对大多数抗生素类别都具有抗药性基因（ARG）。除抗生素外流泵外，blaOXA-23 和 blaOXA-66 也对碳青霉烯类产生耐药性。在所有三个基因组中都发现了多种移动遗传元件（MGE）、插入序列（IS）、噬菌体和毒力决定因子，以及大量应激反应基因。AbaETR-4中的1类整合子编码的基因可产生对氨基糖苷类、苯酚、磺胺类和消毒剂的抗性。AbaETR-4 中 LpxACD 和 PmrCAB 的替换证实了体外对可乐定的抗性。在 AbaBS-3 和 AbaETR-4 中发现了负责转运头孢羟氨苄的 piuA 发生了新的突变。这些基因组中存在携带毒素-抗毒素系统、ARGs 和 ISs 的质粒。这三个基因组中都含有多种蛋白质分泌系统、与免疫逃避、粘附、生物膜形成和铁获取系统有关的毒力决定因子。AbaAS-5 只携带丝氨酸蛋白酶 pkf 和 II 型分泌系统的 CpaA 底物，但缺乏不动杆菌素-铁获取系统。我们的工作提供了鲍曼不动杆菌的整体基因组特征，并对印度的诺索卡米氏不动杆菌进行了开创性的研究尝试。ARGs和潜在毒力因子夹杂在MGE中的存在令人担忧，说明了基因重组介导的动态适应性。

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

Current Microbiology 生物-微生物学

CiteScore

4.80

自引率

3.80%

发文量

380

审稿时长

2.5 months

期刊介绍： Current Microbiology is a well-established journal that publishes articles in all aspects of microbial cells and the interactions between the microorganisms, their hosts and the environment. Current Microbiology publishes original research articles, short communications, reviews and letters to the editor, spanning the following areas: physiology, biochemistry, genetics, genomics, biotechnology, ecology, evolution, morphology, taxonomy, diagnostic methods, medical and clinical microbiology and immunology as applied to microorganisms.