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<p>Carbapenem-resistant <i>Acinetobacter baumannii</i> (CRAB) is a critical nosocomial pathogen with limited therapeutic options. This study aimed to describe clonal relationships among CRAB isolates and genomic insights from representative clusters. A total of 128 non-duplicate CRAB isolates were included in the study. Pulsed-field gel electrophoresis (PFGE) was used to assess clonal relationships and as a preliminary clustering tool for isolate selection. Twelve representative isolates from distinct PFGE clusters were selected for whole-genome sequencing using Oxford Nanopore. Genome assembly, annotation, and comparative analyses were performed using Flye, Prokka, and Roary, respectively. Antimicrobial resistance (AMR) genes, plasmids, insertion sequences, integrons and prophages were identified using the CARD, MOB-suite, ISEscan, IntegronFinder, and PHASTEST tools, respectively. Multilocus sequence typing (MLST) and pangenome analyses were conducted to determine genetic diversity and relatedness among the CRAB isolates. Antibiotic susceptibility testing revealed an extensively drug-resistant phenotype, colistin resistance rate was 23.4%. Mutations in <i>lpxC</i>, <i>lpxD</i>, <i>pmrB</i>, and <i>lpxA</i> were identified in colistin-resistant isolates, suggesting a possible role. Most isolates belonged to the globally disseminated clone ST2<sub>Pasteur</sub>, while others were classified as ST636 and ST78. Genomic comparisons identified diverse resistance genes, mobile genetic elements, plasmids, integrons, and virulence factors. Pangenome analysis uncovered a considerable genomic diversity, with 2700 core genes (42.5%) and 3649 accessory genes (57.5%), including 1864 strain-specific (cloud) genes (29.4%) among the isolates. Overall, our findings demonstrate the complex genomic architecture of CRAB and highlight the potential role of genomic surveillance in local infection control.</p>

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Genomic insights into the genetic diversity, resistance determinants, and plasmid content of carbapenem-resistant Acinetobacter baumannii clinical isolates

  • 期刊论文

  • 发表日期：

    2026年2月2日

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  • Sezin Unlu Celebi,
  • Suleyman Yalcin,
  • Ozlem Kurt Azap,
  • Aylin Uskudar Guclu

摘要

Carbapenem-resistant Acinetobacter baumannii (CRAB) is a critical nosocomial pathogen with limited therapeutic options. This study aimed to describe clonal relationships among CRAB isolates and genomic insights from representative clusters. A total of 128 non-duplicate CRAB isolates were included in the study. Pulsed-field gel electrophoresis (PFGE) was used to assess clonal relationships and as a preliminary clustering tool for isolate selection. Twelve representative isolates from distinct PFGE clusters were selected for whole-genome sequencing using Oxford Nanopore. Genome assembly, annotation, and comparative analyses were performed using Flye, Prokka, and Roary, respectively. Antimicrobial resistance (AMR) genes, plasmids, insertion sequences, integrons and prophages were identified using the CARD, MOB-suite, ISEscan, IntegronFinder, and PHASTEST tools, respectively. Multilocus sequence typing (MLST) and pangenome analyses were conducted to determine genetic diversity and relatedness among the CRAB isolates. Antibiotic susceptibility testing revealed an extensively drug-resistant phenotype, colistin resistance rate was 23.4%. Mutations in lpxC, lpxD, pmrB, and lpxA were identified in colistin-resistant isolates, suggesting a possible role. Most isolates belonged to the globally disseminated clone ST2Pasteur, while others were classified as ST636 and ST78. Genomic comparisons identified diverse resistance genes, mobile genetic elements, plasmids, integrons, and virulence factors. Pangenome analysis uncovered a considerable genomic diversity, with 2700 core genes (42.5%) and 3649 accessory genes (57.5%), including 1864 strain-specific (cloud) genes (29.4%) among the isolates. Overall, our findings demonstrate the complex genomic architecture of CRAB and highlight the potential role of genomic surveillance in local infection control.