ArticlePloS one2012
Comparative (meta)genomic analysis and ecological profiling of human gut-specific bacteriophage φB124-14.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
37 citing papers in PubMed.
- Novel Bacteroides bacteriophage-like quantitative real-time PCR assays for human sewage pollution measurement.Environmental pollution (Barking, Essex : 1987) · 2025Article
- Metagenome and metabolome study on inhaled corticosteroids in asthma patients with side effects.Journal of integrative bioinformatics · 2025Article
- The human phageome: niche-specific distribution of bacteriophages and their clinical implications.Applied and environmental microbiology · 2025Review
- Advances in drug resistance and resistance mechanisms of four colorectal cancer-associated gut microbiota.PeerJ · 2025Review
- Inflammation and bacteriophages affect DNA inversion states and functionality of the gut microbiota.Cell host & microbe · 2024Article
- Origins and Evolution of NovelbioRxiv : the preprint server for biology · 2023Article
- Effects of OsomeFood Clean Label plant-based meals on the gut microbiome.BMC microbiology · 2023Article
- Broad host range may be a key to long-term persistence of bacteriophages infecting intestinal Bacteroidaceae species.Scientific reports · 2022Article
- Bacteriophages in sewage: abundance, roles, and applications.FEMS microbes · 2022Article
- Comparison of PCR versus PCR-Free DNA Library Preparation for Characterising the Human Faecal Virome.Viruses · 2021Article
- Article
- Bacteriophages as Fecal Pollution Indicators.Viruses · 2021Review
- NovelMicroorganisms · 2021Article
- Evaluation of Low-Cost Phage-Based Microbial Source Tracking Tools for Elucidating Human Fecal Contamination Pathways in Kolkata, India.Frontiers in microbiology · 2021Article
- Bacteroides thetaiotaomicron-Infecting Bacteriophage Isolates Inform Sequence-Based Host Range Predictions.Cell host & microbe · 2020Article
- Genome Characterization of a Novel WastewaterFrontiers in microbiology · 2020Article
- Effect of Baicalin-Aluminum Complexes on Fecal Microbiome in Piglets.International journal of molecular sciences · 2019Article
- Genomic and Ecogenomic Characterization ofFrontiers in microbiology · 2019Article
- Tracing mother-infant transmission of bacteriophages by means of a novel analytical tool for shotgun metagenomic datasets: METAnnotatorX.Microbiome · 2018Article
- Nanopore sequencing as a revolutionary diagnostic tool for porcine viral enteric disease complexes identifies porcine kobuvirus as an important enteric virus.Scientific reports · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors.
Funding
Abstract
Bacteriophage associated with the human gut microbiome are likely to have an important impact on community structure and function, and provide a wealth of biotechnological opportunities. Despite this, knowledge of the ecology and composition of bacteriophage in the gut bacterial community remains poor, with few well characterized gut-associated phage genomes currently available. Here we describe the identification and in-depth (meta)genomic, proteomic, and ecological analysis of a human gut-specific bacteriophage (designated φB124-14). In doing so we illuminate a fraction of the biological dark matter extant in this ecosystem and its surrounding eco-genomic landscape, identifying a novel and uncharted bacteriophage gene-space in this community. φB124-14 infects only a subset of closely related gut-associated Bacteroides fragilis strains, and the circular genome encodes functions previously found to be rare in viral genomes and human gut viral metagenome sequences, including those which potentially confer advantages upon phage and/or host bacteria. Comparative genomic analyses revealed φB124-14 is most closely related to φB40-8, the only other publically available Bacteroides sp. phage genome, whilst comparative metagenomic analysis of both phage failed to identify any homologous sequences in 136 non-human gut metagenomic datasets searched, supporting the human gut-specific nature of this phage. Moreover, a potential geographic variation in the carriage of these and related phage was revealed by analysis of their distribution and prevalence within 151 human gut microbiomes and viromes from Europe, America and Japan. Finally, ecological profiling of φB124-14 and φB40-8, using both gene-centric alignment-driven phylogenetic analyses, as well as alignment-free gene-independent approaches was undertaken. This not only verified the human gut-specific nature of both phage, but also indicated that these phage populate a distinct and unexplored ecological landscape within the human gut microbiome.
Indexed as
Identifiers
What OpenQuestion holds
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.