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A comprehensive database for biological data derived from sewage in five European cities.

Ágnes Becsei1, Patrick Munk2, Alessandro Fuschi3

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This study presents a large, longitudinal sewage metagenomics dataset from five European cities, enabling pathogen surveillance and microbial community analysis. The accessible data and PostgreSQL database promote research reuse and discovery.

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Area of Science:

  • Environmental microbiology
  • Genomics
  • Public health

Background:

  • Sewage metagenomics is crucial for pathogen surveillance and understanding microbial communities.
  • Longitudinal datasets are essential for tracking dynamic changes in microbial populations.
  • Existing datasets may lack comprehensive annotations or accessibility for reuse.

Purpose of the Study:

  • To create and share a highly curated, longitudinal sewage metagenomics dataset.
  • To facilitate pathogen surveillance and microbial community analysis across European cities.
  • To promote data reuse and advance research through an accessible resource.

Main Methods:

  • Collected 239 sewage samples from five European cities over time.
  • Performed metagenomic sequencing and analyzed taxonomic profiles and antimicrobial resistance genes.
  • Utilized qPCR for specific pathogen identification and Hi-C sequencing for genomic linkage.

Main Results:

  • Generated a comprehensive dataset including taxonomic profiles, antimicrobial resistance genes, and assembled genomes.
  • Developed a publicly available PostgreSQL database for efficient data exploration and querying.
  • Provided annotated metagenome-assembled genomes and associated metadata.

Conclusions:

  • The presented dataset and database offer a valuable resource for sewage metagenomics research.
  • This initiative supports proactive pathogen surveillance and microbial ecology studies.
  • The data facilitates efficient access and reuse, accelerating scientific discovery.