Global genomic epidemiology of carbapenemase-producing Klebsiella pneumoniae, 1996–2023

IF 5 2区医学 Q1 INFECTIOUS DISEASES

International Journal of Antimicrobial Agents Pub Date : 2026-01-01 Epub Date: 2025-11-07 DOI:10.1016/j.ijantimicag.2025.107657

Yuxia Shi , Dongxiao Ru , Minge Wang , Shengliang Cao , Duanduan Chen , Zhenshu Si , Yuxi Zhang , Yubao Li , Jianbiao Lu

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引用次数: 0

Abstract

Objectives

Carbapenem-resistant Klebsiella pneumoniae (CRKP) has emerged as a significant global public healthchallenge.

Methods

A total of 63,099 KP genomes was available in the NCBI Genome database, and assembly quality was further assessed using QUAST. Antibiotic resistance genes (ARGs), virulence factors (VFs), and plasmid replicons were identified with ABRicate. Multilocus sequence typing (MLST) was performed with MLST.

Results

This study conducted a systematic and comprehensive global genomic analysis of 35,471 CRKP isolates collected from 101 countries from 1996 to 2023. The results showed that China (25.11%), the United States (21.63%) and the United Kingdom 101 countries from 1996 to 2023. The results showed that China (25.11%), the United States (21.63%) and the United Kingdom peaked in 2018, followed by a declining trend. Our analysis revealed that carbapenemases in CRKP were predominantly KPC (53.93%), followed by NDM (25.58%) and OXA-48-like (21.86%). The isolates were classified into 1,046 known sequence types (ST), with the most common types being ST11 (23.90%), ST258 (12.85%), ST147 (7.64%), ST15 (5.21%), and ST307 (4.03%). Notably, all CRKP isolates carried multiple ARGs, with the United States having the highest number of unique ARGs. Principal coordinate analysis (PCoA) revealed that the composition of ARGs among CRKP isolates from China differs significantly from that of isolates in other countries. Furthermore, CRKP isolates from China carried the highest number of VFs, highlighting a distinct profile compared to other regions.

Conclusions

This study provides comprehensive data on CRKP, underscoring the necessity for continued global surveillance to monitor the dissemination of resistance and virulence.

Abstract Image

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产碳青霉烯酶肺炎克雷伯菌全球基因组流行病学研究，1996-2023。

背景：耐碳青霉烯肺炎克雷伯菌（CRKP）已成为一个重大的全球公共卫生挑战。方法：NCBI基因组数据库中共有63,099个KP基因组，利用QUAST对其组装质量进行进一步评估。ABRicate鉴定了抗生素耐药基因（ARGs）、毒力因子（VFs）和质粒复制子。采用MLST进行多位点序列分型（MLST）。结果：本研究对1996年至2023年从101个国家收集的35471株CRKP分离株进行了系统、全面的全球基因组分析。结果表明，中国（25.11%）、美国（21.63%）和英国（7.03%）的分离株数量最多。时间趋势分析显示，分离物数量在2018年达到峰值，随后呈下降趋势。分析显示，CRKP中碳青霉烯酶以KPC酶（53.93%）为主，其次是NDM酶（25.58%）和oxa -48样酶（21.86%）。分离株共鉴定出1046个已知序列型（ST），其中最常见的序列型为ST11（23.90%）、ST258（12.85%）、ST147（7.64%）、ST15（5.21%）和ST307（4.03%）。值得注意的是，所有的CRKP分离株都携带多种arg，其中美国拥有最多的独特arg。主坐标分析（PCoA）显示，中国分离株与其他国家分离株的ARGs组成存在显著差异。此外，来自中国的CRKP分离物携带的VFs数量最多，与其他地区相比具有明显的特征。结论：本研究提供了关于CRKP的全面数据，强调了继续进行全球监测以监测耐药性和毒力传播的必要性。

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

International Journal of Antimicrobial Agents 医学-传染病学

CiteScore

21.60

自引率

0.90%

发文量

176

审稿时长

36 days

期刊介绍： The International Journal of Antimicrobial Agents is a peer-reviewed publication offering comprehensive and current reference information on the physical, pharmacological, in vitro, and clinical properties of individual antimicrobial agents, covering antiviral, antiparasitic, antibacterial, and antifungal agents. The journal not only communicates new trends and developments through authoritative review articles but also addresses the critical issue of antimicrobial resistance, both in hospital and community settings. Published content includes solicited reviews by leading experts and high-quality original research papers in the specified fields.