Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in Tunisia
Antimicrobial-resistant <i>Escherichia coli</i> isolates have emerged in various ecologic compartments and evolved to spread globally. We sought to (1.) investigate the occurrence of ESBL-producing <i>E. coli</i> (ESBL-Ec) in feces from free-range chickens in a rural region a...
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MDPI AG
2023-04-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/14/4/875 |
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| author | Saloua Benlabidi Anis Raddaoui Sana Lengliz Sarah Cheriet Paul Hynds Wafa Achour Taoufik Ghrairi Mohamed Salah Abbassi |
| author_facet | Saloua Benlabidi Anis Raddaoui Sana Lengliz Sarah Cheriet Paul Hynds Wafa Achour Taoufik Ghrairi Mohamed Salah Abbassi |
| author_sort | Saloua Benlabidi |
| collection | DOAJ |
| description | Antimicrobial-resistant <i>Escherichia coli</i> isolates have emerged in various ecologic compartments and evolved to spread globally. We sought to (1.) investigate the occurrence of ESBL-producing <i>E. coli</i> (ESBL-Ec) in feces from free-range chickens in a rural region and (2.) characterize the genetic background of antimicrobial resistance and the genetic relatedness of collected isolates. Ninety-five feces swabs from free-range chickens associated with two households (House 1/House 2) in a rural region in northern Tunisia were collected. Samples were screened to recover ESBL-Ec, and collected isolates were characterized for phenotype/genotype of antimicrobial resistance, integrons, and molecular typing (pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST)). Overall, 47 ESBL-Ec were identified, with the following genes detected: 35 <i>bla</i><sub>CTX-M-1,</sub> 5 <i>bla</i><sub>CTX-M-55</sub>, 5 <i>bla</i><sub>CTX-M-15</sub>, 1 <i>bla</i><sub>SHV-2,</sub> and 1 <i>bla</i><sub>SHV-12</sub>. Resistance to fluoroquinolones, tetracycline, sulfonamides, and colistin was encoded by <i>aac(6′)</i>-Ib-<i>cr</i> (<i>n</i> = 21), <i>qnr</i>B (<i>n</i> = 1), and <i>qnr</i>S (<i>n</i> = 2); <i>tet</i>A (<i>n</i> = 17)/<i>tet</i>B (<i>n</i> = 26); <i>sul</i>1 (<i>n</i> = 29)/<i>sul</i>2 (<i>n</i> = 18); and <i>mcr</i>-2 (<i>n</i> = 2) genes, respectively. PFGE and MLST identified genetic homogeneity of isolates in House 1; however, isolates from House 2 were heterogeneous. Notably, among nine identified sequence types, ST58, ST69, ST224, and ST410 belong to pandemic high-risk clonal lineages associated with extrapathogenic <i>E. coli</i>. Minor clones belonging to ST410 and ST471 were shared by chickens from both households. The virulence genes <i>fyuA, fimH, papGIII,</i> and <i>iutA</i> were detected in 35, 47, 17, and 23 isolates, respectively. Findings indicate a high occurrence of ESBL-Ec in free-range chickens and highlight the occurrence of pandemic zoonotic clones. |
| first_indexed | 2024-03-11T04:58:58Z |
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| last_indexed | 2024-03-11T04:58:58Z |
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| spelling | doaj.art-5baa41a29e234b33ad3702cf12ea4e382023-11-17T19:23:47ZengMDPI AGGenes2073-44252023-04-0114487510.3390/genes14040875Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in TunisiaSaloua Benlabidi0Anis Raddaoui1Sana Lengliz2Sarah Cheriet3Paul Hynds4Wafa Achour5Taoufik Ghrairi6Mohamed Salah Abbassi7Institute of Veterinary Research of Tunisia, University of Tunis El Manar, Tunis 1006, TunisiaLaboratory Ward, National Bone Marrow Transplant Center, Tunis 1006, TunisiaInstitute of Veterinary Research of Tunisia, University of Tunis El Manar, Tunis 1006, TunisiaInstitute of Veterinary Research of Tunisia, University of Tunis El Manar, Tunis 1006, TunisiaEnvironmental Sustainability and Health Institute (ESHI), Technological University Dublin, D07 H6K8 Dublin, IrelandLaboratory Ward, National Bone Marrow Transplant Center, Tunis 1006, TunisiaLaboratory of Neurophysiology Cellular Physiopathology and Biomolecule Valorisation LR18ES03, Faculty of Sciences of Tunis, University Tunis El Manar, Tunis 1068, TunisiaInstitute of Veterinary Research of Tunisia, University of Tunis El Manar, Tunis 1006, TunisiaAntimicrobial-resistant <i>Escherichia coli</i> isolates have emerged in various ecologic compartments and evolved to spread globally. We sought to (1.) investigate the occurrence of ESBL-producing <i>E. coli</i> (ESBL-Ec) in feces from free-range chickens in a rural region and (2.) characterize the genetic background of antimicrobial resistance and the genetic relatedness of collected isolates. Ninety-five feces swabs from free-range chickens associated with two households (House 1/House 2) in a rural region in northern Tunisia were collected. Samples were screened to recover ESBL-Ec, and collected isolates were characterized for phenotype/genotype of antimicrobial resistance, integrons, and molecular typing (pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST)). Overall, 47 ESBL-Ec were identified, with the following genes detected: 35 <i>bla</i><sub>CTX-M-1,</sub> 5 <i>bla</i><sub>CTX-M-55</sub>, 5 <i>bla</i><sub>CTX-M-15</sub>, 1 <i>bla</i><sub>SHV-2,</sub> and 1 <i>bla</i><sub>SHV-12</sub>. Resistance to fluoroquinolones, tetracycline, sulfonamides, and colistin was encoded by <i>aac(6′)</i>-Ib-<i>cr</i> (<i>n</i> = 21), <i>qnr</i>B (<i>n</i> = 1), and <i>qnr</i>S (<i>n</i> = 2); <i>tet</i>A (<i>n</i> = 17)/<i>tet</i>B (<i>n</i> = 26); <i>sul</i>1 (<i>n</i> = 29)/<i>sul</i>2 (<i>n</i> = 18); and <i>mcr</i>-2 (<i>n</i> = 2) genes, respectively. PFGE and MLST identified genetic homogeneity of isolates in House 1; however, isolates from House 2 were heterogeneous. Notably, among nine identified sequence types, ST58, ST69, ST224, and ST410 belong to pandemic high-risk clonal lineages associated with extrapathogenic <i>E. coli</i>. Minor clones belonging to ST410 and ST471 were shared by chickens from both households. The virulence genes <i>fyuA, fimH, papGIII,</i> and <i>iutA</i> were detected in 35, 47, 17, and 23 isolates, respectively. Findings indicate a high occurrence of ESBL-Ec in free-range chickens and highlight the occurrence of pandemic zoonotic clones.https://www.mdpi.com/2073-4425/14/4/875free-range chickensESBL<i>Escherichia coli</i>CTX-M-1<i>mcr</i>-2high-risk clone |
| spellingShingle | Saloua Benlabidi Anis Raddaoui Sana Lengliz Sarah Cheriet Paul Hynds Wafa Achour Taoufik Ghrairi Mohamed Salah Abbassi Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in Tunisia Genes free-range chickens ESBL <i>Escherichia coli</i> CTX-M-1 <i>mcr</i>-2 high-risk clone |
| title | Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in Tunisia |
| title_full | Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in Tunisia |
| title_fullStr | Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in Tunisia |
| title_full_unstemmed | Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in Tunisia |
| title_short | Occurrence of High-Risk Clonal Lineages ST58, ST69, ST224, and ST410 among Extended-Spectrum β-Lactamase-Producing <em>Escherichia coli</em> Isolated from Healthy Free-Range Chickens (<em>Gallus gallus domesticus</em>) in a Rural Region in Tunisia |
| title_sort | occurrence of high risk clonal lineages st58 st69 st224 and st410 among extended spectrum β lactamase producing em escherichia coli em isolated from healthy free range chickens em gallus gallus domesticus em in a rural region in tunisia |
| topic | free-range chickens ESBL <i>Escherichia coli</i> CTX-M-1 <i>mcr</i>-2 high-risk clone |
| url | https://www.mdpi.com/2073-4425/14/4/875 |
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