ArticleBMC microbiology2015
In silico identification of bacteriocin gene clusters in the gastrointestinal tract, based on the Human Microbiome Project's reference genome database.
Article in BMC microbiology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.
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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.
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Who cites it
69 citing papers in PubMed, 138 citations in OpenAlex.
- AApplied and environmental microbiology · 2026Article
- The Hungate1000 prokaryotic culture collection encodes a wide variety of bacteriocins.mSystems · 2026Article
- Lantibiotic-producing bacteria impact microbiome resilience and colonization resistance.Cell host & microbe · 2025Article
- Systematically investigating and identifying bacteriocins in the human gut microbiome.Cell genomics · 2025Article
- Characterization of Antibiotic-Resistance AntarcticMicroorganisms · 2024Article
- In Silico Screening of Bacteriocin Gene Clusters within a Set of MarineInternational journal of molecular sciences · 2024Article
- Revisiting the Multifaceted Roles of Bacteriocins : The Multifaceted Roles of Bacteriocins.Microbial ecology · 2024Review
- High-throughput detection of potential bacteriocin producers in a large strain library using live fluorescent biosensors.Frontiers in bioengineering and biotechnology · 2024Article
- An exploratoryMicrobiome research reports · 2024Review
- Using metabolomics to understand stress responses in Lactic Acid Bacteria and their applications in the food industry.Metabolomics : Official journal of the Metabolomic Society · 2023Review
- Article
- After a century of nisin research - where are we now?FEMS microbiology reviews · 2023Review
- Bioinformatics and its role in the study of the evolution and probiotic potential of lactic acid bacteria.Food science and biotechnology · 2023Review
- Thermophilin 13: In Silico Analysis Provides New Insight in Genes Involved in Bacteriocin Production.Microorganisms · 2023Article
- Bioinformatic mining for RiPP biosynthetic gene clusters in Bacteroidales reveals possible new subfamily architectures and novel natural products.Frontiers in microbiology · 2023Article
- Exploring Bacterial Attributes That Underpin Symbiont Life in the Monogastric Gut.Applied and environmental microbiology · 2022Review
- Mining Biosynthetic Gene Clusters inMicroorganisms · 2022Article
- Microbial metabolites: cause or consequence in gastrointestinal disease?American journal of physiology. Gastrointestinal and liver physiology · 2022Review
- Contrasting Health Effects ofInternational journal of molecular sciences · 2022Article
- In Vitro and In Silico Based Approaches to Identify Potential Novel Bacteriocins from the Athlete Gut Microbiome of an Elite Athlete Cohort.Microorganisms · 2022Article
9 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe human gut microbiota comprises approximately 100 trillion microbial cells which significantly impact many aspects of human physiology - including metabolism, nutrient absorption and immune function. Disturbances in this population have been implicated in many conditions and diseases, including obesity, type-2 diabetes and inflammatory bowel disease. This suggests that targeted manipulation or shaping of the gut microbiota, by bacteriocins and other antimicrobials, has potential as a therapeutic tool for the prevention or treatment of these conditions. With this in mind, several studies have used traditional culture-dependent approaches to successfully identify bacteriocin-producers from the mammalian gut. In silico-based approaches to identify novel gene clusters are now also being utilised to take advantage of the vast amount of data currently being generated by next generation sequencing technologies. In this study, we employed an in silico screening approach to mine potential bacteriocin clusters in genome-sequenced isolates from the gastrointestinal tract (GIT). More specifically, the bacteriocin genome-mining tool BAGEL3 was used to identify potential bacteriocin producers in the genomes of the GIT subset of the Human Microbiome Project's reference genome database. Each of the identified gene clusters were manually annotated and potential bacteriocin-associated genes were evaluated.
resultsWe identified 74 clusters of note from 59 unique members of the Firmicutes, Bacteroidetes, Actinobacteria, Fusobacteria and Synergistetes. The most commonly identified class of bacteriocin was the >10 kDa class, formerly known as bacteriolysins, followed by lantibiotics and sactipeptides.
conclusionsMultiple bacteriocin gene clusters were identified in a dataset representative of the human gut microbiota. Interestingly, many of these were associated with species and genera which are not typically associated with bacteriocin production.
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