Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in Algeria
Background: High-risk <i>Escherichia coli</i> clones, such as sequence type (ST)131 and ST1193, along with multidrug-resistant (MDR) <i>Klebsiella pneumoniae</i>, are globally recognized for their significant role in urinary tract infections (UTIs). This study aimed to provid...
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MDPI AG
2025-05-01
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| author | Hajer Ziadi Fadela Chougrani Abderrahim Cheriguene Leticia Carballeira Vanesa García Azucena Mora |
| author_facet | Hajer Ziadi Fadela Chougrani Abderrahim Cheriguene Leticia Carballeira Vanesa García Azucena Mora |
| author_sort | Hajer Ziadi |
| collection | DOAJ |
| description | Background: High-risk <i>Escherichia coli</i> clones, such as sequence type (ST)131 and ST1193, along with multidrug-resistant (MDR) <i>Klebsiella pneumoniae</i>, are globally recognized for their significant role in urinary tract infections (UTIs). This study aimed to provide an overview of the virulence factors, clonal diversity, and antibiotic resistance profiles of extended-spectrum cephalosporin (ESC)-<i>E. coli</i> and <i>K. pneumoniae</i> causing UTIs in humans in the Tebessa region of Algeria. Methods: Forty <i>E. coli</i> and 17 <i>K. pneumoniae</i> isolates exhibiting ESC-resistance were recovered (July 2022–January 2024) from urine samples of patients at three healthcare facilities to be phenotypically and genotypically characterized. Whole genome sequencing (WGS) was performed on the ST1193 clone. Results: Among <i>K. pneumoniae</i> isolates, all except one harbored CTX-M-15, with a single isolate carrying <i>bla</i><sub>CTX-M-194</sub>. Additionally, two <i>K. pneumoniae</i> isolates co-harboring <i>bla</i><sub>CTX-M-15</sub> and <i>bla</i><sub>NDM</sub> exhibited phenotypic and genotypic hypervirulence traits. Fluoroquinolone resistance (FQR) was detected in 94.1% of <i>K. pneumoniae</i> isolates. The <i>E. coli</i> isolates carried diverse ESC-resistance genes, including CTX-M-15 (87.5%), CTX-M-27 (5%), CTX-M-1, CMY-59, and CMY-166 (2.5% each). Co-carriage of <i>bla</i><sub>ESC</sub> and <i>bla</i><sub>OXA-48</sub> was identified in three <i>E. coli</i> isolates, while 62.5% exhibited FQR. Phylogenetic analysis revealed that 52.5% of <i>E. coli</i> belonged to phylogroup B2, including the high-risk clonal complex (CC)131 CH40-30 (17 isolates) and ST1193 (one isolate). In silico analysis of the ST1193 genome determined O75:H5-B2 (CH14-64), and the carriage of IncI1-I(Alpha) and IncF [F-:A1:B10] plasmids. Notably, core genome single-nucleotide polymorphism (SNP) analysis demonstrated high similarity between the Algerian ST1193 isolate and a previously annotated genome from a hospital in Northwest Spain. Conclusions: This study highlights the spread and genetic diversity of <i>E. coli</i> CC131 CH40-30 and hypervirulent <i>K. pneumoniae</i> clones in Algeria. It represents the first report of a CTX-M-15-carrying <i>E. coli</i> ST1193 in the region. The findings emphasize the urgent need for antibiotic optimization programs and enhanced surveillance to curb the dissemination of high-risk clones that pose an increasing public health threat in Algeria. A simplified method based on virulence traits for <i>E. coli</i> and <i>K. pneumoniae</i> is proposed here for antimicrobial resistance (AMR) monitoring. |
| format | Article |
| id | doaj-art-4e46baf1f0f64e4684a8fb33ebe3349a |
| institution | DOAJ |
| issn | 2079-6382 |
| language | English |
| publishDate | 2025-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Antibiotics |
| spelling | doaj-art-4e46baf1f0f64e4684a8fb33ebe3349a2025-08-20T03:14:42ZengMDPI AGAntibiotics2079-63822025-05-0114548510.3390/antibiotics14050485Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in AlgeriaHajer Ziadi0Fadela Chougrani1Abderrahim Cheriguene2Leticia Carballeira3Vanesa García4Azucena Mora5Laboratorio de Referencia de Escherichia coli (LREC), Departamento de Microbioloxía e Parasitoloxía, Universidade de Santiago de Compostela (USC), 27002 Lugo, SpainLaboratory of Animal Production Science and Technology, Faculty of Natural and Life Sciences, Abdelhamid Ibn Badis University, Mostaganem 27000, AlgeriaLaboratory of Bioeconomy, Food Security and Health, Faculty of Natural and Life Sciences, Abdelhamid Ibn Badis University, Mostaganem 27000, AlgeriaLaboratorio de Referencia de Escherichia coli (LREC), Departamento de Microbioloxía e Parasitoloxía, Universidade de Santiago de Compostela (USC), 27002 Lugo, SpainLaboratorio de Referencia de Escherichia coli (LREC), Departamento de Microbioloxía e Parasitoloxía, Universidade de Santiago de Compostela (USC), 27002 Lugo, SpainLaboratorio de Referencia de Escherichia coli (LREC), Departamento de Microbioloxía e Parasitoloxía, Universidade de Santiago de Compostela (USC), 27002 Lugo, SpainBackground: High-risk <i>Escherichia coli</i> clones, such as sequence type (ST)131 and ST1193, along with multidrug-resistant (MDR) <i>Klebsiella pneumoniae</i>, are globally recognized for their significant role in urinary tract infections (UTIs). This study aimed to provide an overview of the virulence factors, clonal diversity, and antibiotic resistance profiles of extended-spectrum cephalosporin (ESC)-<i>E. coli</i> and <i>K. pneumoniae</i> causing UTIs in humans in the Tebessa region of Algeria. Methods: Forty <i>E. coli</i> and 17 <i>K. pneumoniae</i> isolates exhibiting ESC-resistance were recovered (July 2022–January 2024) from urine samples of patients at three healthcare facilities to be phenotypically and genotypically characterized. Whole genome sequencing (WGS) was performed on the ST1193 clone. Results: Among <i>K. pneumoniae</i> isolates, all except one harbored CTX-M-15, with a single isolate carrying <i>bla</i><sub>CTX-M-194</sub>. Additionally, two <i>K. pneumoniae</i> isolates co-harboring <i>bla</i><sub>CTX-M-15</sub> and <i>bla</i><sub>NDM</sub> exhibited phenotypic and genotypic hypervirulence traits. Fluoroquinolone resistance (FQR) was detected in 94.1% of <i>K. pneumoniae</i> isolates. The <i>E. coli</i> isolates carried diverse ESC-resistance genes, including CTX-M-15 (87.5%), CTX-M-27 (5%), CTX-M-1, CMY-59, and CMY-166 (2.5% each). Co-carriage of <i>bla</i><sub>ESC</sub> and <i>bla</i><sub>OXA-48</sub> was identified in three <i>E. coli</i> isolates, while 62.5% exhibited FQR. Phylogenetic analysis revealed that 52.5% of <i>E. coli</i> belonged to phylogroup B2, including the high-risk clonal complex (CC)131 CH40-30 (17 isolates) and ST1193 (one isolate). In silico analysis of the ST1193 genome determined O75:H5-B2 (CH14-64), and the carriage of IncI1-I(Alpha) and IncF [F-:A1:B10] plasmids. Notably, core genome single-nucleotide polymorphism (SNP) analysis demonstrated high similarity between the Algerian ST1193 isolate and a previously annotated genome from a hospital in Northwest Spain. Conclusions: This study highlights the spread and genetic diversity of <i>E. coli</i> CC131 CH40-30 and hypervirulent <i>K. pneumoniae</i> clones in Algeria. It represents the first report of a CTX-M-15-carrying <i>E. coli</i> ST1193 in the region. The findings emphasize the urgent need for antibiotic optimization programs and enhanced surveillance to curb the dissemination of high-risk clones that pose an increasing public health threat in Algeria. A simplified method based on virulence traits for <i>E. coli</i> and <i>K. pneumoniae</i> is proposed here for antimicrobial resistance (AMR) monitoring.https://www.mdpi.com/2079-6382/14/5/485urinary tract infection (UTI)<i>Escherichia coli</i><i>Klebsiella pneumoniae</i>ST131ST1193ESBL |
| spellingShingle | Hajer Ziadi Fadela Chougrani Abderrahim Cheriguene Leticia Carballeira Vanesa García Azucena Mora Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in Algeria Antibiotics urinary tract infection (UTI) <i>Escherichia coli</i> <i>Klebsiella pneumoniae</i> ST131 ST1193 ESBL |
| title | Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in Algeria |
| title_full | Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in Algeria |
| title_fullStr | Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in Algeria |
| title_full_unstemmed | Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in Algeria |
| title_short | Phenotypic and Genotypic Characterization of ESBL-, AmpC-, and Carbapenemase-Producing <i>Klebsiella pneumoniae</i> and High-Risk <i>Escherichia coli</i> CC131, with the First Report of ST1193 as a Causative Agent of Urinary Tract Infections in Human Patients in Algeria |
| title_sort | phenotypic and genotypic characterization of esbl ampc and carbapenemase producing i klebsiella pneumoniae i and high risk i escherichia coli i cc131 with the first report of st1193 as a causative agent of urinary tract infections in human patients in algeria |
| topic | urinary tract infection (UTI) <i>Escherichia coli</i> <i>Klebsiella pneumoniae</i> ST131 ST1193 ESBL |
| url | https://www.mdpi.com/2079-6382/14/5/485 |
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