ArticleISME communications2021
Analysis of viromes and microbiomes from pig fecal samples reveals that phages and prophages rarely carry antibiotic resistance genes.
Article in ISME communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
What it found
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The trial behind it
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Who cites it
27 citing papers in PubMed, 49 citations in OpenAlex.
- Article
- Dynamics of Bacterial Communities and Resistomes Across Swine Waste Stabilization Ponds and Fertilized Soils.Current microbiology · 2026Article
- On the Low Abundance of Antibiotic Resistance Genes in Bacteriophage Genomes and Their Random Acquisition via Specialized Transduction.Genome biology and evolution · 2026Article
- Age-dependent patterns of the gut microbiome, antibiotic resistome, and pathogenicity in captive koalas (Phascolarctos cinereus).Communications biology · 2025Article
- Exploring diversity and distribution patterns of chicken gut bacteriophage community.Animal microbiome · 2025Article
- Article
- Gut Virome and Aging: Phage-Driven Microbial Stability and Immune Modulation.Aging and disease · 2025Review
- Global biogeography of airborne viruses in public transit systems and their host interactions.Microbiome · 2025Article
- Co-occurring microbial guilds in pig fecal microbiota: key drivers and effects on host performance.Genetics, selection, evolution : GSE · 2025Article
- Re-evaluating what makes a phage unsuitable for therapy.npj antimicrobials and resistance · 2025Review
- Harnessing phage consortia to mitigate the soil antibiotic resistome by targeting keystone taxa Streptomyces.Microbiome · 2025Article
- In silico genomic insights into bacteriophages infecting ESBL-producing Escherichia coli from human, animal, and environmental sources.BMC microbiology · 2025Article
- On-top arginine supplementation during lactation affects milk composition, performance, and intestinal bacterial and viral microbial community of sows and their piglets.Journal of animal science · 2025Article
- Ecological and evolutionary mechanisms driving within-patient emergence of antimicrobial resistance.Nature reviews. Microbiology · 2024Review
- Prophage-encoded antibiotic resistance genes are enriched in human-impacted environments.Nature communications · 2024Article
- Massive expansion of the pig gut virome based on global metagenomic mining.NPJ biofilms and microbiomes · 2024Article
- Characterizing the gut phageome and phage-borne antimicrobial resistance genes in pigs.Microbiome · 2024Article
- Article
- The virtue of training: extending phage host spectra against vancomycin-resistantAntimicrobial agents and chemotherapy · 2024Article
- Metagenomic investigation reveals bacteriophage-mediated horizontal transfer of antibiotic resistance genes in microbial communities of an organic agricultural ecosystem.Microbiology spectrum · 2023Article
Corrections and comments
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Authors and funding
13 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Understanding the transmission of antibiotic resistance genes (ARGs) is critical for human health. For this, it is necessary to identify which type of mobile genetic elements is able to spread them from animal reservoirs into human pathogens. Previous research suggests that in pig feces, ARGs may be encoded by bacteriophages. However, convincing proof for phage-encoded ARGs in pig viromes is still lacking, because of bacterial DNA contaminating issues. We collected 14 pig fecal samples and performed deep sequencing on both highly purified viral fractions and total microbiota, in order to investigate phage and prophage-encoded ARGs. We show that ARGs are absent from the genomes of active, virion-forming phages (below 0.02% of viral contigs from viromes), but present in three prophages, representing 0.02% of the viral contigs identified in the microbial dataset. However, the corresponding phages were not detected in the viromes, and their genetic maps suggest they might be defective. We conclude that among pig fecal samples, phages and prophages rarely carry ARG. Furthermore, our dataset allows for the first time a comprehensive view of the interplay between prophages and viral particles, and uncovers two large clades, inoviruses and Oengus-like phages.
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Registered trials
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.