Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of Congo
Multidrug-resistant (MDR) and extended spectrum β-lactamase (ESBL)-producing extra-intestinal <i>K. pneumoniae</i> are associated with increased morbidity and mortality. This study aimed to characterize the resistance and virulence profiles of extra-intestinal MDR ESBL-producing <i>...
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MDPI AG
2023-02-01
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| Series: | Microorganisms |
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| Online Access: | https://www.mdpi.com/2076-2607/11/2/525 |
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| author | Leonid M. Irenge Jérôme Ambroise Bertrand Bearzatto Jean-François Durant Maxime Bonjean Jean-Luc Gala |
| author_facet | Leonid M. Irenge Jérôme Ambroise Bertrand Bearzatto Jean-François Durant Maxime Bonjean Jean-Luc Gala |
| author_sort | Leonid M. Irenge |
| collection | DOAJ |
| description | Multidrug-resistant (MDR) and extended spectrum β-lactamase (ESBL)-producing extra-intestinal <i>K. pneumoniae</i> are associated with increased morbidity and mortality. This study aimed to characterize the resistance and virulence profiles of extra-intestinal MDR ESBL-producing <i>K. pneumoniae</i> associated with infections at a tertiary hospital in South-Kivu province, DRC. Whole-genome sequencing (WGS) was carried out on 37 <i>K. pneumoniae</i> isolates displaying MDR and ESBL-producing phenotype. The assembled genomes were analysed for phylogeny, virulence factors and antimicrobial resistance genes (ARG) determinants. These isolates were compared to sub-Saharan counterparts. <i>K. pneumoniae</i> isolates displayed a high genetic variability with up to 16 sequence types (ST). AMR was widespread against β-lactamases (including third and fourth-generation cephalosporins, but not carbapenems), aminoglycosides, ciprofloxacin, tetracycline, erythromycin, nitrofurantoin, and cotrimoxazole. The <i>bla</i><sub>CTX-M-15</sub> gene was the most common β-lactamase gene among <i>K. pneumoniae</i> isolates. No carbapenemase gene was found. ARG for aminoglycosides, quinolones, phenicols, tetracyclines, sulfonamides, nitrofurantoin were widely distributed among the isolates. Nine isolates had the colistin-resistant R256G substitution in the <i>pmrB</i> efflux pump gene without displaying reduced susceptibility to colistin. Despite carrying virulence genes, none had hypervirulence genes. Our results highlight the genetic diversity of MDR ESBL-producing <i>K. pneumoniae</i> isolates and underscore the importance of monitoring simultaneously the evolution of phenotypic and genotypic AMR in Bukavu and DRC, while calling for caution in administering colistin and carbapenem to patients. |
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| issn | 2076-2607 |
| language | English |
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| publishDate | 2023-02-01 |
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| spelling | doaj.art-a9758717b98645c59a7b6269a142a9f42023-11-16T22:17:05ZengMDPI AGMicroorganisms2076-26072023-02-0111252510.3390/microorganisms11020525Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of CongoLeonid M. Irenge0Jérôme Ambroise1Bertrand Bearzatto2Jean-François Durant3Maxime Bonjean4Jean-Luc Gala5Center for Applied Molecular Technologies, Institute of Experimental and Clinical Research, Université Catholique de Louvain (UCLouvain), 1200 Woluwe-Saint-Lambert, BelgiumCenter for Applied Molecular Technologies, Institute of Experimental and Clinical Research, Université Catholique de Louvain (UCLouvain), 1200 Woluwe-Saint-Lambert, BelgiumCenter for Applied Molecular Technologies, Institute of Experimental and Clinical Research, Université Catholique de Louvain (UCLouvain), 1200 Woluwe-Saint-Lambert, BelgiumCenter for Applied Molecular Technologies, Institute of Experimental and Clinical Research, Université Catholique de Louvain (UCLouvain), 1200 Woluwe-Saint-Lambert, BelgiumCenter for Applied Molecular Technologies, Institute of Experimental and Clinical Research, Université Catholique de Louvain (UCLouvain), 1200 Woluwe-Saint-Lambert, BelgiumCenter for Applied Molecular Technologies, Institute of Experimental and Clinical Research, Université Catholique de Louvain (UCLouvain), 1200 Woluwe-Saint-Lambert, BelgiumMultidrug-resistant (MDR) and extended spectrum β-lactamase (ESBL)-producing extra-intestinal <i>K. pneumoniae</i> are associated with increased morbidity and mortality. This study aimed to characterize the resistance and virulence profiles of extra-intestinal MDR ESBL-producing <i>K. pneumoniae</i> associated with infections at a tertiary hospital in South-Kivu province, DRC. Whole-genome sequencing (WGS) was carried out on 37 <i>K. pneumoniae</i> isolates displaying MDR and ESBL-producing phenotype. The assembled genomes were analysed for phylogeny, virulence factors and antimicrobial resistance genes (ARG) determinants. These isolates were compared to sub-Saharan counterparts. <i>K. pneumoniae</i> isolates displayed a high genetic variability with up to 16 sequence types (ST). AMR was widespread against β-lactamases (including third and fourth-generation cephalosporins, but not carbapenems), aminoglycosides, ciprofloxacin, tetracycline, erythromycin, nitrofurantoin, and cotrimoxazole. The <i>bla</i><sub>CTX-M-15</sub> gene was the most common β-lactamase gene among <i>K. pneumoniae</i> isolates. No carbapenemase gene was found. ARG for aminoglycosides, quinolones, phenicols, tetracyclines, sulfonamides, nitrofurantoin were widely distributed among the isolates. Nine isolates had the colistin-resistant R256G substitution in the <i>pmrB</i> efflux pump gene without displaying reduced susceptibility to colistin. Despite carrying virulence genes, none had hypervirulence genes. Our results highlight the genetic diversity of MDR ESBL-producing <i>K. pneumoniae</i> isolates and underscore the importance of monitoring simultaneously the evolution of phenotypic and genotypic AMR in Bukavu and DRC, while calling for caution in administering colistin and carbapenem to patients.https://www.mdpi.com/2076-2607/11/2/525extended spectrum β-lactamase<i>Klebsiella pneumoniae</i>phylogenyantimicrobial resistance (AMR)antibiotic resistance gene (ARG)virulence factors |
| spellingShingle | Leonid M. Irenge Jérôme Ambroise Bertrand Bearzatto Jean-François Durant Maxime Bonjean Jean-Luc Gala Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of Congo Microorganisms extended spectrum β-lactamase <i>Klebsiella pneumoniae</i> phylogeny antimicrobial resistance (AMR) antibiotic resistance gene (ARG) virulence factors |
| title | Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of Congo |
| title_full | Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of Congo |
| title_fullStr | Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of Congo |
| title_full_unstemmed | Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of Congo |
| title_short | Genomic Characterization of Multidrug-Resistant Extended Spectrum β-Lactamase-Producing <i>Klebsiella pneumoniae</i> from Clinical Samples of a Tertiary Hospital in South Kivu Province, Eastern Democratic Republic of Congo |
| title_sort | genomic characterization of multidrug resistant extended spectrum β lactamase producing i klebsiella pneumoniae i from clinical samples of a tertiary hospital in south kivu province eastern democratic republic of congo |
| topic | extended spectrum β-lactamase <i>Klebsiella pneumoniae</i> phylogeny antimicrobial resistance (AMR) antibiotic resistance gene (ARG) virulence factors |
| url | https://www.mdpi.com/2076-2607/11/2/525 |
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