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This is an early access version, the complete PDF, HTML, and XML versions will be available soon.
Article

Identification and Genomic Characterization of Aeromonas dhakensis from a Human Sample

by
David Badenas-Alzugaray
1,*,
Alexander Tristancho-Baró
1,2,
Juan Manuel García-Lechuz
1,2,
Natalia Burillo-Navarrete
1,2,
Sara Sanz-Sanz
1,2,
Ana María Milagro-Beamonte
1,2,
Ana Isabel López-Calleja
1,2 and
Antonio Rezusta-López
1,2
1
Research Group on Infections Difficult to Diagnose and Treat, Institute for Health Research Aragón, Miguel Servet University Hospital, 50009 Zaragoza, Spain
2
Clinical Microbiology Service, Miguel Servet University Hospital, 50009 Zaragoza, Spain
*
Author to whom correspondence should be addressed.
Acta Microbiol. Hell. 2025, 70(3), 34; https://doi.org/10.3390/amh70030034
Submission received: 23 May 2025 / Revised: 9 July 2025 / Accepted: 28 July 2025 / Published: 15 August 2025
Review Reports Versions Notes

Abstract

Aeromonas is a genus of Gram-negative, facultatively anaerobic bacteria commonly found in aquatic environments and increasingly recognized as opportunistic pathogens. Among them, Aeromonas dhakensis stands out for its high virulence and antimicrobial resistance, but it is often misidentified due to its phenotypic similarity with A. hydrophila and A. caviae. In this study, a microorganism was isolated from the peritoneal fluid of a patient with signs of intra-abdominal infection. MALDI-TOF MS initially suggested A. hydrophila or A. caviae, but the identification was confirmed with high confidence only after further molecular analyses and the use of genome-based tools, which identified the organism as A. dhakensis. This was further supported by phylogenomic and ANI analysis. Resistome analysis revealed intrinsic resistance genes, including a chromosomal class C β-lactamase and an imiH-type carbapenemase, consistent with the observed carbapenem resistance. No plasmid-mediated carbapenemases were found. These findings underscore the limitations of MALDI-TOF in identifying Aeromonas species in certain cases and highlight the value of genomic approaches for accurate species determination and resistance profiling, especially for isolates from sterile body fluids.
Keywords: Aeromonas dhakensis; carbapenem resistance; whole-genome sequencing; MALDI-TOF misidentification Aeromonas dhakensis; carbapenem resistance; whole-genome sequencing; MALDI-TOF misidentification

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MDPI and ACS Style

Badenas-Alzugaray, D.; Tristancho-Baró, A.; García-Lechuz, J.M.; Burillo-Navarrete, N.; Sanz-Sanz, S.; Milagro-Beamonte, A.M.; López-Calleja, A.I.; Rezusta-López, A. Identification and Genomic Characterization of Aeromonas dhakensis from a Human Sample. Acta Microbiol. Hell. 2025, 70, 34. https://doi.org/10.3390/amh70030034

AMA Style

Badenas-Alzugaray D, Tristancho-Baró A, García-Lechuz JM, Burillo-Navarrete N, Sanz-Sanz S, Milagro-Beamonte AM, López-Calleja AI, Rezusta-López A. Identification and Genomic Characterization of Aeromonas dhakensis from a Human Sample. Acta Microbiologica Hellenica. 2025; 70(3):34. https://doi.org/10.3390/amh70030034

Chicago/Turabian Style

Badenas-Alzugaray, David, Alexander Tristancho-Baró, Juan Manuel García-Lechuz, Natalia Burillo-Navarrete, Sara Sanz-Sanz, Ana María Milagro-Beamonte, Ana Isabel López-Calleja, and Antonio Rezusta-López. 2025. "Identification and Genomic Characterization of Aeromonas dhakensis from a Human Sample" Acta Microbiologica Hellenica 70, no. 3: 34. https://doi.org/10.3390/amh70030034

APA Style

Badenas-Alzugaray, D., Tristancho-Baró, A., García-Lechuz, J. M., Burillo-Navarrete, N., Sanz-Sanz, S., Milagro-Beamonte, A. M., López-Calleja, A. I., & Rezusta-López, A. (2025). Identification and Genomic Characterization of Aeromonas dhakensis from a Human Sample. Acta Microbiologica Hellenica, 70(3), 34. https://doi.org/10.3390/amh70030034

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