Sundaresan Abhirami Krishnamoorthy, Gangwar Jaya, Murugavel Aravind, Malli Mohan Ganesh Babu, Ramakrishnan Jayapradha
Actinomycetes Bioprospecting Lab, Centre for Research in Infectious Diseases (CRID), School of Chemical and Biotechnology (SCBT), SASTRA Deemed University, Tirumalaisamudram, Thanjavur, 613401, Tamil Nadu, India.
Microbial Omics Lab, Centre for Research in Infectious Diseases (CRID), School of Chemical and Biotechnology (SCBT), SASTRA Deemed University, Tirumalaisamudram, Thanjavur, 613401, Tamil Nadu, India.
AMB Express. 2024 Jul 4;14(1):78. doi: 10.1186/s13568-024-01737-w.
Urinary tract infections (UTI) by antibiotic resistant and virulent K. pneumoniae are a growing concern. Understanding the genome and validating the genomic profile along with pangenome analysis will facilitate surveillance of high-risk clones of K. pneumoniae to underpin management strategies toward early detection. The present study aims to correlate resistome with phenotypic antimicrobial resistance and virulome with pathogenicity in Klebsiella spp. The present study aimed to perform complete genome sequences of Klebsiella spp. and to analyse the correlation of resistome with phenotypic antimicrobial resistance and virulome with pathogenicity. To understand the resistome, pangenome and virulome in the Klebsiella spp, the ResFinder, CARD, IS Finder, PlasmidFinder, PHASTER, Roary, VFDB were used. The phenotypic susceptibility profiling identified the uropathogenic kp3 to exhibit multi drug resistance. The resistome and in vitro antimicrobial profiling showed concordance with all the tested antibiotics against the study strains. Hypermucoviscosity was not observed for any of the test isolates; this phenotypic character matches perfectly with the absence of rmpA and magA genes. To the best of our knowledge, this is the first report on the presence of ste, stf, stc and sti major fimbrial operons of Salmonella enterica serotype Typhimurium in K. pneumoniae genome. The study identifies the discordance of virulome and virulence in Klebsiella spp. The complete genome analysis and phenotypic correlation identify uropathogenic K. pneumoniae kp3 as a carbapenem-resistant and virulent pathogen. The Pangenome of K. pneumoniae was open suggesting high genetic diversity. Diverse K serotypes were observed. Sequence typing reveals the prevalence of K. pneumoniae high-risk clones in UTI catheterised patients. The study also highlights the concordance of resistome and in vitro susceptibility tests. Importantly, the study identifies the necessity of virulome and phenotypic virulence markers for timely diagnosis and immediate treatment for the management of high-risk K. pneumoniae clones.
由具有抗生素抗性和毒性的肺炎克雷伯菌引起的尿路感染（UTI）日益受到关注。了解基因组并验证基因组图谱以及进行全基因组分析将有助于监测肺炎克雷伯菌的高危克隆，从而为早期检测的管理策略提供支持。本研究旨在将克雷伯菌属的耐药基因组与表型抗菌耐药性以及毒力基因组与致病性进行关联。本研究旨在对克雷伯菌属进行全基因组测序，并分析耐药基因组与表型抗菌耐药性以及毒力基因组与致病性之间的相关性。为了解克雷伯菌属中的耐药基因组、全基因组和毒力基因组，使用了ResFinder、CARD、IS Finder、PlasmidFinder、PHASTER、Roary、VFDB。表型药敏分析表明尿路致病性kp3表现出多重耐药性。耐药基因组和体外抗菌谱分析显示与针对研究菌株测试的所有抗生素结果一致。在任何测试分离株中均未观察到高黏液性；这一表型特征与rmpA和magA基因的缺失完全匹配。据我们所知，这是关于肠炎沙门氏菌血清型鼠伤寒沙门氏菌的ste、stf、stc和sti主要菌毛操纵子存在于肺炎克雷伯菌基因组中的首次报道。该研究确定了克雷伯菌属中毒力基因组与毒力之间的不一致性。全基因组分析和表型相关性确定尿路致病性肺炎克雷伯菌kp3为耐碳青霉烯且有毒力的病原体。肺炎克雷伯菌的全基因组是开放的，表明其具有高度的遗传多样性。观察到多种K血清型。序列分型揭示了导尿的UTI患者中肺炎克雷伯菌高危克隆的流行情况。该研究还强调了耐药基因组与体外药敏试验结果的一致性。重要的是，该研究确定了毒力基因组和表型毒力标记物对于及时诊断和立即治疗高危肺炎克雷伯菌克隆管理的必要性。
