Tracking international and regional dissemination of the KPC/NDM co-producing Klebsiella pneumoniae

Feilong Zhang, Xinmeng Liu, Ziyao Li, Zhihua Li, Zichen Lei, Yanyan Fan, Xinrui Yang, Qi Liu, Yiqun Ma and Binghuai Lu ()
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Feilong Zhang: Chinese Academy of Medical Sciences
Xinmeng Liu: Chinese Academy of Medical Sciences
Ziyao Li: Chinese Academy of Medical Sciences
Zhihua Li: Chinese Academy of Medical Sciences
Zichen Lei: Chinese Academy of Medical Sciences
Yanyan Fan: Chinese Academy of Medical Sciences
Xinrui Yang: Chinese Academy of Medical Sciences
Qi Liu: Chinese Academy of Medical Sciences
Yiqun Ma: Chinese Academy of Medical Sciences
Binghuai Lu: Chinese Academy of Medical Sciences

Nature Communications, 2025, vol. 16, issue 1, 1-13

Abstract: Abstract KPC and NDM co-producing carbapenem-resistant Klebsiella pneumoniae (KN-CRKP) showed an upward trend; nevertheless, global systematic and comprehensive analyses profiling remain lacking. 968 local CRKP were collected from 6 provinces in China, and 64,354 genomes were retrieved from GenBank. All 413 genomes of KN-CRKP were obtained from 32 countries, including 16 subtypes of KN-CRKP. The top three CRKP subtypes, K2N1-CRKP, K2N5-CRKP and K3N1-CRKP, exhibited distinct geographic distributions, with K2N1-CRKP and K2N5-CRKP primarily circulating in China while K3N1-CRKP showed predominant prevalence in USA. Meanwhile, ST11-KL64, ST11-KL47, and ST258-KL107, were the three most prevalent ST and KL, and 64.3% of ST11-KL64 KN-CRKP belonged to hypervirulent strains. Genomes revealed Clone Group 1, accounting for 55.0% of KN-CRKP, shifting from KL47 to KL64 and carrying more hypervirulence genes, has a significant advantage in adhesion, invasion, and proliferation, and its dispersal was the primary driver contributing to the worldwide spread of KN-CRKP. Furthermore, ST11 KN-CRKP was generally formed by KPC-producing CRKP acquiring blaNDM-carrying plasmid and novel hybrid plasmids co-encoding KPC and NDM have occurred. Aztreonam/avibactam and cefiderocol were promising antimicrobial agents against KN-CRKP. The global KN-CRKP research, spanning from 2005 to 2024, provides valuable insights into the global transmission, dynamics, and treatment of KN-CRKP.

Date: 2025
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DOI: 10.1038/s41467-025-60765-7

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