BMC genomics · 2026
Identification of IMP-8-carrying Comamonas thiooxydans strains from a diarrheal sample: genomic insights into plasmid-borne carbapenemase in an environmental bacterium.
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Ma Luyao, Hu Tongxi, Huang Jinjuan
Аннотация
BACKGROUND: The proliferation of carbapenem-resistant bacteria, facilitated by carbapenemase enzymes, constitutes a significant public health threat. Although the metallo-β-lactamase gene blaIMP-8 has been identified in various bacterial species, its occurrence in Comamonas thiooxydans within the human intestinal tract is not well understood.
METHODS: Three bacterial strains were isolated from an intestinal perforation patient's diarrheal samples using MacConkey agar with meropenem. Species identification was done via MALDI-TOF MS, and the IMP gene's presence was confirmed by PCR. Complete genome sequencing used Illumina and Nanopore platforms, while Southern blot confirmed the plasmid location of blaIMP-8. Comparative genomic analysis, using Average Nucleotide Identity (ANI), was performed on 481 Comamonas genomes. Core-genome SNP analysis assessed the genetic relatedness of the three isolates.
RESULTS: The three isolates were identified as Comamonas thiooxydans, carrying blaIMP-8 on plasmids. The earliest strain, L4020hy, also had a ~ 10 kb insertion for the NorR regulator. Among 481 Comamonas genomes, 93 were conspecific C. thiooxydans (≥ 95% ANI), including these isolates. Phylogenetically, they were closest to the environmental isolate Comamonas sp. A23. SNP analysis showed genetic distinctiveness among the clinical isolates, with 403, 322, and 251 core-genome SNPs between L4020 vs. L4037, L4020 vs. L4040, and L4037 vs. L4040, respectively.
CONCLUSION: This study reports the identification of multiple strains of Comamonas thiooxydans harboring a blaIMP-8-containing plasmid within the human intestinal tract. This finding highlights the potential for C. thiooxydans to serve as a reservoir and possible vector for carbapenem resistance genes within the human gut, warranting further surveillance.
METHODS: Three bacterial strains were isolated from an intestinal perforation patient's diarrheal samples using MacConkey agar with meropenem. Species identification was done via MALDI-TOF MS, and the IMP gene's presence was confirmed by PCR. Complete genome sequencing used Illumina and Nanopore platforms, while Southern blot confirmed the plasmid location of blaIMP-8. Comparative genomic analysis, using Average Nucleotide Identity (ANI), was performed on 481 Comamonas genomes. Core-genome SNP analysis assessed the genetic relatedness of the three isolates.
RESULTS: The three isolates were identified as Comamonas thiooxydans, carrying blaIMP-8 on plasmids. The earliest strain, L4020hy, also had a ~ 10 kb insertion for the NorR regulator. Among 481 Comamonas genomes, 93 were conspecific C. thiooxydans (≥ 95% ANI), including these isolates. Phylogenetically, they were closest to the environmental isolate Comamonas sp. A23. SNP analysis showed genetic distinctiveness among the clinical isolates, with 403, 322, and 251 core-genome SNPs between L4020 vs. L4037, L4020 vs. L4040, and L4037 vs. L4040, respectively.
CONCLUSION: This study reports the identification of multiple strains of Comamonas thiooxydans harboring a blaIMP-8-containing plasmid within the human intestinal tract. This finding highlights the potential for C. thiooxydans to serve as a reservoir and possible vector for carbapenem resistance genes within the human gut, warranting further surveillance.