Characterization of Integrative and Conjugative Elements Carrying <i>bla</i><sub>NDM-1</sub> and <i>bla</i><sub>KPC-2</sub> in an Environmental <i>Pseudomonas guariconensis</i> Isolate

Urban wastewater is increasingly recognized as a major reservoir of antimicrobial resistance and horizontal gene transfer. From urban wastewater in Hanoi, Vietnam, we isolated a multidrug-resistant Pseudomonas guariconensis strain, KNHN1, resistant to most antimicrobials, including carbapenems and cephalosporins, but susceptible to cefiderocol; and intermediate to colistin. Whole-genome sequencing revealed two chromosomally integrated integrative and conjugative elements (ICEs): ICE<sub>PgKNHN1_KPC</sub> (131 kb) carrying bla<sub>KPC-2</sub> and ICE<sub>PgKNHN1_NDM</sub> (108 kb), carrying bla<sub>NDM-1</sub>, both flanked by conserved 18-bp att sites in the tRNA<sup>Gly</sup> loci and encoding MOB<sub>H-</sub>type relaxases. Polymerase chain reaction and subsequent sequencing confirmed ICE excision from the chromosome and formation of circular intermediates. Conjugation to Pseudomonas putida KT2440 occurred at ~10⁻² frequency, producing transconjugants with ICE<sub>PgKNHN1_NDM</sub> (~85%), ICE<sub>PgKNHN1_KPC</sub> (~10%), or both, all showing broad range β-lactam resistance. Comparative analysis indicated that ICE<sub>PgKNHN1_NDM</sub> has a highly conserved backbone across multiple species and often co-carries bla<sub>PME-1</sub> and other resistance genes. To our knowledge, this is the first report of chromosomally integrated bla<sub>NDM‑1</sub> and bla<sub>KPC‑2</sub> in P. guariconensis mediated by functional ICEs. These findings underscore the pivotal role of environmental bacteria as reservoirs of clinically significant resistance genes, and highlight ICEs as key drivers in the dissemination of carbapenem resistance.

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Journal
Japanese Journal of Infectious Diseases
Published
2026-02-26
DOI
https://doi.org/10.7883/yoken.jjid.2025.255
Primary Topic
Microbial bioremediation and biosurfactants
Type
article
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article

Characterization of Integrative and Conjugative Elements Carrying blaNDM-1 and blaKPC-2 in an Environmental Pseudomonas guariconensis Isolate

Aki Hirabayashi, Hoang Huy Tran, Haruka Abe, Ikuro Kasuga et al.
Japanese Journal of Infectious Diseases
Microbial bioremediation and biosurfactants
article

Characterization of Integrative and Conjugative Elements Carrying blaNDM-1 and blaKPC-2 in an Environmental Pseudomonas guariconensis Isolate

Aki Hirabayashi, Hoang Huy Tran, Haruka Abe, Ikuro Kasuga, Taichiro Takemura, Futoshi Hasebe, Keigo Shibayama, Masato Suzuki, Yohei Kobayashi, Duc Trung Dao
article en

Abstract

Urban wastewater is increasingly recognized as a major reservoir of antimicrobial resistance and horizontal gene transfer. From urban wastewater in Hanoi, Vietnam, we isolated a multidrug-resistant Pseudomonas guariconensis strain, KNHN1, resistant to most antimicrobials, including carbapenems and cephalosporins, but susceptible to cefiderocol; and intermediate to colistin. Whole-genome sequencing revealed two chromosomally integrated integrative and conjugative elements (ICEs): ICE<sub>PgKNHN1_KPC</sub> (131 kb) carrying bla<sub>KPC-2</sub> and ICE<sub>PgKNHN1_NDM</sub> (108 kb), carrying bla<sub>NDM-1</sub>, both flanked by conserved 18-bp att sites in the tRNA<sup>Gly</sup> loci and encoding MOB<sub>H-</sub>type relaxases. Polymerase chain reaction and subsequent sequencing confirmed ICE excision from the chromosome and formation of circular intermediates. Conjugation to Pseudomonas putida KT2440 occurred at ~10⁻² frequency, producing transconjugants with ICE<sub>PgKNHN1_NDM</sub> (~85%), ICE<sub>PgKNHN1_KPC</sub> (~10%), or both, all showing broad range β-lactam resistance. Comparative analysis indicated that ICE<sub>PgKNHN1_NDM</sub> has a highly conserved backbone across multiple species and often co-carries bla<sub>PME-1</sub> and other resistance genes. To our knowledge, this is the first report of chromosomally integrated bla<sub>NDM‑1</sub> and bla<sub>KPC‑2</sub> in P. guariconensis mediated by functional ICEs. These findings underscore the pivotal role of environmental bacteria as reservoirs of clinically significant resistance genes, and highlight ICEs as key drivers in the dissemination of carbapenem resistance.

Japanese Journal of Infectious Diseases
National Institute of Infectious Diseases (JP), National Institute Of Hygiene And Epidemiology (VN), Nagoya Industrial Science Research Institute (JP), Nagasaki University (JP), Nagoya University (JP), The University of Tokyo (JP)
Ohsumi Frontier Science Foundation
Openalex Percentile: Top 43%
Microbial bioremediation and biosurfactants
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