ArticleNature communications2024
Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance.
Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Building-Scale Wastewater Metagenomics Reveals Temporal Patterns in Resistance and Virulence Genes.Antibiotics (Basel, Switzerland) · 2026Article
- Wastewater Metagenomics for Antimicrobial Resistance and Pathogen Surveillance: A Bibliometric Analysis.Microorganisms · 2026Review
- Citywide metagenomics reveals microbial community and resistome dynamics in urban wastewater.Nature communications · 2026Article
- Wastewater-Based Assessment of Antimicrobial Resistance and Bacterial Communities in Urban and Rural Areas in the Province of Trento (Italy).MicrobiologyOpen · 2026Article
- Isolation and characterization of LH5, a novel rodent Embecovirus from Rattus tanezumi with respiratory tropism in a mouse model.BMC biology · 2026Article
- Article
- Metagenomic profiling of antimicrobial resistance in wastewater from metropolitan cities of India.Nature communications · 2026Article
- A comprehensive database for biological data derived from sewage in five European cities.Database : the journal of biological databases and curation · 2026Article
- Urban Wastewater Metagenomics Reveals the Antibiotic Resistance Gene Distribution Across Latvian Municipalities.Microorganisms · 2026Article
- Comparative resistome from toilet waste in three different income areas, Bangkok, Thailand.Frontiers in microbiology · 2026Article
- Strong catchment-specific structuring of Swedish wastewater microbiomes in a paired two-timepoint metagenomic survey.Frontiers in microbiology · 2026Article
- Tracking Age-Linked Antibiotic Resistance Patterns through Building-Level Wastewater Analysis.ACS ES&T water · 2025Article
- STREAMS guidelines: standards for technical reporting in environmental and host-associated microbiome studies.Nature microbiology · 2025Review
- A case study using sewage metagenomic data for assessment of text-to-SQL capabilities in large language models.Scientific reports · 2025Article
- Geographics and bacterial networks differently shape the acquired and latent global sewage resistomes.Nature communications · 2025Article
- Beyond the Resistome: Molecular Insights, Emerging Therapies, and Environmental Drivers of Antibiotic Resistance.Antibiotics (Basel, Switzerland) · 2025Review
- Versatile wastewater monitoring of pathogens and antimicrobial resistance enabled by metatranscriptomics and long-read metagenomics.Research square · 2025Article
- ganon2: up-to-date and scalable metagenomics analysis.NAR genomics and bioinformatics · 2025Article
- Ecological connectivity of genomic markers of antimicrobial resistance in Escherichia coli in Hong Kong.Nature communications · 2025Article
- Resistance genes are not like chemical pollutants and surveillance of them should reflect that.Future microbiology · 2025Article
Corrections and comments
- Erratum issued
Authors and funding
27 authors.
Funding
Abstract
Sewage metagenomics has risen to prominence in urban population surveillance of pathogens and antimicrobial resistance (AMR). Unknown species with similarity to known genomes cause database bias in reference-based metagenomics. To improve surveillance, we seek to recover sewage genomes and develop a quantification and correlation workflow for these genomes and AMR over time. We use longitudinal sewage sampling in seven treatment plants from five major European cities to explore the utility of catch-all sequencing of these population-level samples. Using metagenomic assembly methods, we recover 2332 metagenome-assembled genomes (MAGs) from prokaryotic species, 1334 of which were previously undescribed. These genomes account for ~69% of sequenced DNA and provide insight into sewage microbial dynamics. Rotterdam (Netherlands) and Copenhagen (Denmark) show strong seasonal microbial community shifts, while Bologna, Rome, (Italy) and Budapest (Hungary) have occasional blooms of Pseudomonas-dominated communities, accounting for up to ~95% of sample DNA. Seasonal shifts and blooms present challenges for effective sewage surveillance. We find that bacteria of known shared origin, like human gut microbiota, form communities, suggesting the potential for source-attributing novel species and their ARGs through network community analysis. This could significantly improve AMR tracking in urban environments.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.