From Sewers to Solutions: Wastewater Surveillance in the Fight Against Antimicrobial Resistance

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Antimicrobial Agents and Resistance".

Deadline for manuscript submissions: 31 December 2025 | Viewed by 1593

Special Issue Editors


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Guest Editor
Division of Nosocomial Pathogens and Antibiotic Resistances, Department of Infectious Diseases, Robert Koch Institute, Wernigerode, Germany
Interests: microbiome; metagenomics; within-host evolution; evolutionary dynamics in microbial populations; functional genomics; oral bacteria; AMR

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Guest Editor
Department of Infectious Diseases, Division of Nosocomial Pathogens and Antimicrobial Resistances, Robert Koch Institute, 38855 Wernigerode, Germany
Interests: nosocomial pathogens; AMR; typing; genomics; enterococci; Klebsiella
Special Issues, Collections and Topics in MDPI journals

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Guest Editor
Department of Health Science, Kitasato University, 1-15-1 Kitasato, Minami-ku, Sagamihara 252-0373, Kanagawa, Japan
Interests: AMR; wastewater microbiome

Special Issue Information

Dear Colleagues,

Antimicrobial resistance (AMR) is a growing global threat to public health and ecosystems. Wastewater systems—particularly those linked to healthcare facilities and urban environments—serve as key reservoirs for resistant microorganisms and their genetic elements, facilitating AMR spread. This special issue focuses on the complex dynamics of AMR within hospital and urban wastewater systems, emphasizing recent advancements in detecting and characterizing resistant microbes, exploring wastewater microbiomes, and examining impacts on human and environmental health.

We welcome submissions on both culture-based and molecular methodologies, along with studies integrating bioinformatics for high-throughput resistome analysis. Research on the wastewater microbiome is of particular interest, especially regarding its role in the transmission of resistance genes and the ecological interactions sustaining AMR reservoirs. Furthermore, the topic also aims to explore the implications of antibiotic residues and their effect on resistance evolution and public health, along with innovative strategies for containment and mitigation.

This issue aims to deepen understanding of the ecological impact of AMR in wastewater systems and stimulate innovative approaches to reduce resistance spread. Authors are encouraged to submit original research, reviews, and case studies that advance knowledge on AMR dynamics within wastewater environments.

Dr. Mohamed M. H. Abdelbary
Prof. Dr. Guido Werner
Prof. Dr. Kazunari Sei
Guest Editors

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Keywords

  • AMR pathogens in wastewater
  • carbapenem-resistant enterobacterales
  • wastewater resistome
  • culture-based detection
  • molecular methodologies for pathogens detection
  • digital PCR
  • hospital and urban Wastewater
  • wastewater microbiome
  • mobile genetic elements
  • AMR plasmids

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Published Papers (1 paper)

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Research

14 pages, 2340 KB  
Communication
Bacteria That Made History: Detection of Enterobacteriaceae and Carbapenemases in the Waters of Southern Brazil’s Largest Flood
by João Vitor Barboza Cardoso, Dariane Castro Pereira, William Latosinski Matos, Gabriela Simões de Oliveira, Victória Rodrigues de Carvalho, Louidi Lauer Albornoz, Afonso Luis Barth, Salatiel Wohlmuth da Silva and Andreza Francisco Martins
Microorganisms 2025, 13(10), 2365; https://doi.org/10.3390/microorganisms13102365 - 15 Oct 2025
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Abstract
Floods seriously threaten public health by promoting the spread of antimicrobial-resistant (AMR) bacteria, particularly in urban areas with poor sanitation. In May 2024, the state of Rio Grande do Sul, Brazil, experienced the most severe flood in its history, affecting over 2.3 million [...] Read more.
Floods seriously threaten public health by promoting the spread of antimicrobial-resistant (AMR) bacteria, particularly in urban areas with poor sanitation. In May 2024, the state of Rio Grande do Sul, Brazil, experienced the most severe flood in its history, affecting over 2.3 million people and resulting in extensive dissemination of sewage, contaminating the environment. This study aimed to investigate the presence of Enterobacteriaceae and clinically relevant carbapenemase genes (blaKPC and blaNDM) in floodwaters from Porto Alegre using molecular methods. Seventy-nine water samples were collected during four sampling campaigns conducted between May and June 2024. Samples were obtained from flooded areas and points across Guaíba Lake. DNA was extracted with the DNeasy PowerWater Kit, and qPCR was performed using TaqMan assays targeting Enterobacteriaceae, blaKPC and blaNDM. Of the 79 samples, 75 yielded sufficient DNA for analysis. Enterobacteriaceae were detected in 100% of the samples, across all collections. The blaKPC gene was detected in 100% of the first collection pools, and in 94.7%, 94.7%, and 85.7% of samples from the second, third, and fourth collections, respectively. The blaNDM gene was present in 81.3% of the first collection pools, and in 78.9%, 89.4%, and 80.9% of samples from the subsequent collections. The high prevalence of Enterobacteriaceae and carbapenemase genes in floodwaters reveals an alarming environmental dissemination of AMR genetic markers. These findings underscore the need for environmental AMR surveillance, especially in disaster settings, and support the implementation of the One Health approach to mitigate the spread of resistance genes across human, animal, and environmental interfaces. Full article
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