Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19
Currently, carbapenem-resistant Klebsiella pneumoniae (CR-KP) strains, particularly those producing New Delhi metallo-beta-lactamase (NDM), are increasingly recognized as a significant threat to global health. The present study aimed to conduct a genomic analysis of an NDM-1-producing CR-KP strain i...
Saved in:
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Wiley
2025-01-01
|
| Series: | Journal of Tropical Medicine |
| Online Access: | http://dx.doi.org/10.1155/jotm/6616950 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850155385156009984 |
|---|---|
| author | Abolfazl Rafati Zomorodi Himen Salimizand Niloufar Mohseni Maryam Hafiz Helia Nikoueian Tahereh Gholamhosseini-Moghaddam Fatemeh Aflakian |
| author_facet | Abolfazl Rafati Zomorodi Himen Salimizand Niloufar Mohseni Maryam Hafiz Helia Nikoueian Tahereh Gholamhosseini-Moghaddam Fatemeh Aflakian |
| author_sort | Abolfazl Rafati Zomorodi |
| collection | DOAJ |
| description | Currently, carbapenem-resistant Klebsiella pneumoniae (CR-KP) strains, particularly those producing New Delhi metallo-beta-lactamase (NDM), are increasingly recognized as a significant threat to global health. The present study aimed to conduct a genomic analysis of an NDM-1-producing CR-KP strain isolated from patients with coronavirus disease of 2019 (COVID-19) admitted to the intensive care unit (ICU). The K. pneumoniae isolate was obtained from the bronchoalveolar lavage fluid of a 68 year-old male patient hospitalized in the ICU with COVID-19 at Besat Hospital in Sanandaj, Iran. The minimum inhibitory concentrations (MICs) for 15 antibiotics were determined using the VITEK 2 system. Genomic analysis of the isolate was performed using whole genome sequencing. The CRKP-51 strain was identified as an extensively drug-resistant (XDR) strain, exhibiting resistance to all tested antibiotics except tigecycline (MIC = 2 μg/mL). The highest resistance values were recorded against sulfamethoxazole-trimethoprim (SXT), nitrofurantoin (NIT), and piperacillin-tazobactam (TZP), with MICs of ≥ 320, 256 μg/mL, and ≥ 128 μg/mL, respectively. Multilocus sequence typing revealed that CRKP-51 belonged to sequence type 15 (ST15). The IncHI1B replicon type associated with this strain harbored several resistance genes, including blaNDM−1, armA, msrE, mphE, BRP (MBL), blaOXA−1, aadA2, dfrA12, qnrB1, blaCTX−M−15, and cat1. High-risk K. pneumoniae clones, such as ST15, are increasingly associated with antimicrobial resistance and the emergence of XDR strains in ICUs. Additionally, the global dissemination of the NDM enzyme occurs through various plasmid replicon types. Therefore, monitoring local epidemiology is essential for the effectiveness of antimicrobial stewardship programs. |
| format | Article |
| id | doaj-art-9f7ef8b6c80d4c6eba36ff5cb3ce102e |
| institution | OA Journals |
| issn | 1687-9694 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | Journal of Tropical Medicine |
| spelling | doaj-art-9f7ef8b6c80d4c6eba36ff5cb3ce102e2025-08-20T02:24:55ZengWileyJournal of Tropical Medicine1687-96942025-01-01202510.1155/jotm/6616950Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19Abolfazl Rafati Zomorodi0Himen Salimizand1Niloufar Mohseni2Maryam Hafiz3Helia Nikoueian4Tahereh Gholamhosseini-Moghaddam5Fatemeh Aflakian6Department of Bacteriology and VirologyVaccine and Infectious Disease OrganizationDepartment of PathobiologyDepartment of PathobiologyDepartment of PathobiologyDepartment of PathobiologyDepartment of PathobiologyCurrently, carbapenem-resistant Klebsiella pneumoniae (CR-KP) strains, particularly those producing New Delhi metallo-beta-lactamase (NDM), are increasingly recognized as a significant threat to global health. The present study aimed to conduct a genomic analysis of an NDM-1-producing CR-KP strain isolated from patients with coronavirus disease of 2019 (COVID-19) admitted to the intensive care unit (ICU). The K. pneumoniae isolate was obtained from the bronchoalveolar lavage fluid of a 68 year-old male patient hospitalized in the ICU with COVID-19 at Besat Hospital in Sanandaj, Iran. The minimum inhibitory concentrations (MICs) for 15 antibiotics were determined using the VITEK 2 system. Genomic analysis of the isolate was performed using whole genome sequencing. The CRKP-51 strain was identified as an extensively drug-resistant (XDR) strain, exhibiting resistance to all tested antibiotics except tigecycline (MIC = 2 μg/mL). The highest resistance values were recorded against sulfamethoxazole-trimethoprim (SXT), nitrofurantoin (NIT), and piperacillin-tazobactam (TZP), with MICs of ≥ 320, 256 μg/mL, and ≥ 128 μg/mL, respectively. Multilocus sequence typing revealed that CRKP-51 belonged to sequence type 15 (ST15). The IncHI1B replicon type associated with this strain harbored several resistance genes, including blaNDM−1, armA, msrE, mphE, BRP (MBL), blaOXA−1, aadA2, dfrA12, qnrB1, blaCTX−M−15, and cat1. High-risk K. pneumoniae clones, such as ST15, are increasingly associated with antimicrobial resistance and the emergence of XDR strains in ICUs. Additionally, the global dissemination of the NDM enzyme occurs through various plasmid replicon types. Therefore, monitoring local epidemiology is essential for the effectiveness of antimicrobial stewardship programs.http://dx.doi.org/10.1155/jotm/6616950 |
| spellingShingle | Abolfazl Rafati Zomorodi Himen Salimizand Niloufar Mohseni Maryam Hafiz Helia Nikoueian Tahereh Gholamhosseini-Moghaddam Fatemeh Aflakian Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19 Journal of Tropical Medicine |
| title | Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19 |
| title_full | Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19 |
| title_fullStr | Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19 |
| title_full_unstemmed | Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19 |
| title_short | Genomic Characterization of NDM-1 Harboring Extensively-Drug Resistance Klebsiella pneumoniae Isolate From ICU-Admitted Patient With COVID-19 |
| title_sort | genomic characterization of ndm 1 harboring extensively drug resistance klebsiella pneumoniae isolate from icu admitted patient with covid 19 |
| url | http://dx.doi.org/10.1155/jotm/6616950 |
| work_keys_str_mv | AT abolfazlrafatizomorodi genomiccharacterizationofndm1harboringextensivelydrugresistanceklebsiellapneumoniaeisolatefromicuadmittedpatientwithcovid19 AT himensalimizand genomiccharacterizationofndm1harboringextensivelydrugresistanceklebsiellapneumoniaeisolatefromicuadmittedpatientwithcovid19 AT niloufarmohseni genomiccharacterizationofndm1harboringextensivelydrugresistanceklebsiellapneumoniaeisolatefromicuadmittedpatientwithcovid19 AT maryamhafiz genomiccharacterizationofndm1harboringextensivelydrugresistanceklebsiellapneumoniaeisolatefromicuadmittedpatientwithcovid19 AT helianikoueian genomiccharacterizationofndm1harboringextensivelydrugresistanceklebsiellapneumoniaeisolatefromicuadmittedpatientwithcovid19 AT taherehgholamhosseinimoghaddam genomiccharacterizationofndm1harboringextensivelydrugresistanceklebsiellapneumoniaeisolatefromicuadmittedpatientwithcovid19 AT fatemehaflakian genomiccharacterizationofndm1harboringextensivelydrugresistanceklebsiellapneumoniaeisolatefromicuadmittedpatientwithcovid19 |