ArticleMicrobiome2018
Phages infecting Faecalibacterium prausnitzii belong to novel viral genera that help to decipher intestinal viromes.
Article in Microbiome, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 103 papers.
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Who cites it
103 citing papers in PubMed, 163 citations in OpenAlex.
- Revisiting the life cycle of temperate phages.Nature reviews. Microbiology · 2026Review
- Targeting the human gut microbiome: a comparative review of probiotics, prebiotics, synbiotics, and postbiotics.Journal of advanced research · 2026Review
- Predicting functions of uncharacterized gene products from microbial communities.Nature biotechnology · 2026Article
- Remodelling of the gut virome after long-term fasting.NPJ biofilms and microbiomes · 2026Article
- Tools and approaches to study the human gut virome: from the bench to bioinformatics.mSystems · 2026Review
- A multi-omics analysis of gut bacteriome, virome, and serum metabolome in bipolar depression.Npj mental health research · 2026Article
- A validation for sex differences in gut microbiome of essential hypertension based on cohort analysis.BMC microbiology · 2026Article
- Gut virome dynamics: from commensal to critical player in health and disease.Nature reviews. Gastroenterology & hepatology · 2026Review
- Large-scale capsid-mediated mobilisation of bacterial genomic DNA in the gut microbiome.Nature communications · 2026Article
- Isolation and characterization of a novel lytic bacteriophage forGut microbes reports · 2026Article
- Diet, mycobiome and virome: from mucosal immunity to gut-brain axis regulation.Frontiers in nutrition · 2026Review
- Prophages and their interactions with lytic phages in the human gut microbiota and their impact on microbial diversity, gut health, and disease.Applied and environmental microbiology · 2025Review
- The colonic mucosal virome in inflammatory bowel disease reveals Crassvirales depletion and disease-specific virome features.Gut microbes · 2025Article
- Effects of bacteriophages on gut microbiome functionality.Gut microbes · 2025Review
- Implications of gut microbiota-mediated epigenetic modifications in intestinal diseases.Gut microbes · 2025Review
- Single cell viral tagging ofGut microbes · 2025Article
- Emerging microbiome-directed therapies in inflammatory bowel disease: beyond diet modification and FMT.Seminars in immunopathology · 2025Review
- The Role of Gut Microbiota in Gastrointestinal Immune Homeostasis and Inflammation: Implications for Inflammatory Bowel Disease.Biomedicines · 2025Review
- Gut virome: New key players in the pathogenesis of inflammatory bowel disease.World journal of methodology · 2025Review
- The human phageome: niche-specific distribution of bacteriophages and their clinical implications.Applied and environmental microbiology · 2025Review
43 more citing papers are in PubMed but not listed here.
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Authors and funding
8 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundViral metagenomic studies have suggested a role for bacteriophages in intestinal dysbiosis associated with several human diseases. However, interpretation of viral metagenomic studies is limited by the lack of knowledge of phages infecting major human gut commensal bacteria, such as Faecalibacterium prausnitzii, a bacterial symbiont repeatedly found depleted in inflammatory bowel disease (IBD) patients. In particular, no complete genomes of phages infecting F. prausnitzii are present in viral databases.
methodsWe identified 18 prophages in 15 genomes of F. prausnitzii, used comparative genomics to define eight phage clades, and annotated the genome of the type phage of each clade. For two of the phages, we studied prophage induction in vitro and in vivo in mice. Finally, we aligned reads from already published viral metagenomic data onto the newly identified phages.
resultsWe show that each phage clade represents a novel viral genus and that a surprisingly large fraction of them (10 of the 18 phages) codes for a diversity-generating retroelement, which could contribute to their adaptation to the digestive tract environment. We obtained either experimental or in silico evidence of activity for at least one member of each genus. In addition, four of these phages are either significantly more prevalent or more abundant in stools of IBD patients than in those of healthy controls.
conclusionSince IBD patients generally have less F. prausnitzii in their microbiota than healthy controls, the higher prevalence or abundance of some of its phages may indicate that they are activated during disease. This in turn suggests that phages could trigger or aggravate F. prausnitzii depletion in patients. Our results show that prophage detection in sequenced strains of the microbiota can usefully complement viral metagenomic studies.
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