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<p>Antimicrobial resistance (AMR) poses a major global health challenge, and wildlife has increasingly been recognized as an important sentinel for monitoring the environmental circulation of clinically relevant resistant bacteria. In this study, we report the phenotypic, genomic, and phylogenomic characterization of a multidrug-resistant (MDR) <i>Klebsiella pneumoniae</i> isolate recovered from a free-ranging wild porcupine (<i>Coendou spinosus</i>) in southern Brazil. An extended-spectrum β-lactamase (ESBL)-producing strain, designated UFRGS-ourico-23, was isolated during routine surveillance at a Wild Animals Care Unity. It exhibited resistance to β-lactams, quinolones, aminoglycosides, sulfonamides, and tetracycline. Whole-genome sequencing revealed a complex resistome, including <i>bla</i><sub>SHV-106</sub>, <i>oqxAB</i>, <i>qnrB1</i>, aminoglycoside-modifying enzymes, sulfonamide, tetracycline, fosfomycin, and trimethoprim resistance genes, consistent with the MDR phenotype. Notably, ESBL production was mediated by the rare <i>bla</i><sub>SHV-106</sub> gene chromosomally located near the lactose operon. In addition, the UFRGS-ourico-23 strain belonged to the pandemic high-risk sequence type ST231. This is the first report of a <i>bla</i><sub>SHV-106</sub> in an animal-derived <i>K. pneumoniae</i> ST231 in Brazil. The strain also harbored a class 1 integron and conjugative IncFIB and Col440I plasmids carrying multiple resistance genes, as well as heavy-metal tolerance operons, suggesting co-selection pressures in anthropized environments. The phylogenomic analysis demonstrated close clustering with globally distributed, predominantly human-derived ST231 genomes, indicating limited core-genome divergence. Collectively, these findings document the emergence of a high-risk MDR <i>K. pneumoniae</i> ST231 clone in Brazilian wildlife and highlight the role of wild animals as reservoirs and sentinels of clinically relevant AMR lineages, reinforcing the need for integrated One Health genomic surveillance at the human–animal–environment interface.</p>

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Pandemic SHV-106-producing Klebsiella pneumoniae ST231 isolated from Brazilian hedgehog (Coendou spinosus) reveals an emerging environmental circulation of a high-risk multidrug-resistant lineage

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年4月28日

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  • Jacqueline Meyer,
  • Jéssica A. Martins,
  • Amanda Haisi,
  • João P. Araújo Júnior,
  • Gustavo H. Z. Winter,
  • Raquel F. S. Raimondo,
  • Marcelo M. Alievi,
  • Marcos Bryan Heinemann,
  • Natália C. Gaeta

摘要

Antimicrobial resistance (AMR) poses a major global health challenge, and wildlife has increasingly been recognized as an important sentinel for monitoring the environmental circulation of clinically relevant resistant bacteria. In this study, we report the phenotypic, genomic, and phylogenomic characterization of a multidrug-resistant (MDR) Klebsiella pneumoniae isolate recovered from a free-ranging wild porcupine (Coendou spinosus) in southern Brazil. An extended-spectrum β-lactamase (ESBL)-producing strain, designated UFRGS-ourico-23, was isolated during routine surveillance at a Wild Animals Care Unity. It exhibited resistance to β-lactams, quinolones, aminoglycosides, sulfonamides, and tetracycline. Whole-genome sequencing revealed a complex resistome, including blaSHV-106, oqxAB, qnrB1, aminoglycoside-modifying enzymes, sulfonamide, tetracycline, fosfomycin, and trimethoprim resistance genes, consistent with the MDR phenotype. Notably, ESBL production was mediated by the rare blaSHV-106 gene chromosomally located near the lactose operon. In addition, the UFRGS-ourico-23 strain belonged to the pandemic high-risk sequence type ST231. This is the first report of a blaSHV-106 in an animal-derived K. pneumoniae ST231 in Brazil. The strain also harbored a class 1 integron and conjugative IncFIB and Col440I plasmids carrying multiple resistance genes, as well as heavy-metal tolerance operons, suggesting co-selection pressures in anthropized environments. The phylogenomic analysis demonstrated close clustering with globally distributed, predominantly human-derived ST231 genomes, indicating limited core-genome divergence. Collectively, these findings document the emergence of a high-risk MDR K. pneumoniae ST231 clone in Brazilian wildlife and highlight the role of wild animals as reservoirs and sentinels of clinically relevant AMR lineages, reinforcing the need for integrated One Health genomic surveillance at the human–animal–environment interface.