ArticleThe ISME journal2022
Experimental evaluation of ecological principles to understand and modulate the outcome of bacterial strain competition in gut microbiomes.
Article in The ISME journal, 2022. 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 46 papers.
What it found
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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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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.
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Who cites it
46 citing papers in PubMed.
- Host metabolism shapes the intestinal microbiota: a top-down paradigm of environmental selection pressure.Gut microbes · 2026Review
- The type VI secretion system governs strain maintenance in a wild mammalian gut microbiome.eLife · 2026Article
- Occupational exposure to Baijiu fermentation environments alters nasal microbiota composition: a comparative analysis of Strong-flavor and Sesame-flavor production systems.Microbiology spectrum · 2026Article
- Tryptophan degradation by intestinal Bacteroides induces anti-tumor immunity and limits melanoma growth.Cell reports. Medicine · 2026Article
- Screening of Lipid-Lowering Acid Bacteria from Traditional Koumiss to Develop a New Probiotic Starter Culture.Probiotics and antimicrobial proteins · 2026Article
- Rapid early life colonization of the intestinal tract by Akkermansia muciniphila after voluntary feeding.BMC microbiology · 2026Article
- Microbial cultures optimize rhizosphere bacterial community in Phyllostachys edulis forests.AMB Express · 2026Article
- Pre-Administration of Akkermansia Muciniphila Prevents the Development of Severe Acute Graft-Versus-Host Disease in Systemic Organs.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Priority effects drive strain-level community composition of honeybee gut microbiota.The ISME journal · 2026Article
- Host and microbial factors influence bacterial colonization of the honey bee gut.The ISME journal · 2026Article
- Perinatal antibiotics in a db/db mouse model impact obesity and hyperglycemia in a microbiome-dependent manner.Frontiers in microbiomes · 2026Article
- Article
- Navigating the duality of Akkermansia muciniphila.Nature microbiology · 2026Review
- Microbial micronutrient sharing, gut redox balance and keystone taxa as a basis for a new perspective to solutions targeting health from the gut.Gut microbes · 2025Review
- Multi-layered ecological interactions determine growth of clinical antibiotic-resistant strains within human microbiomes.Nature communications · 2025Article
- Strainify: Strain-Level Microbiome Profiling for Low-Coverage Short-Read Metagenomic Datasets.bioRxiv : the preprint server for biology · 2025Article
- Identification of strain-specific cues that regulate biofilm formation inMicrobiology spectrum · 2025Article
- The Biology ofAnnual review of microbiology · 2025Review
- Effects of priority on strain-level composition of the honey bee gut community.Applied and environmental microbiology · 2025Article
- The genus Akkermansia is populated by a multitude of biological species with a wide distribution in the animal kingdom.Biology direct · 2025Article
Corrections and comments
- Erratum issued
Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
It is unclear if coexistence theory can be applied to gut microbiomes to understand their characteristics and modulate their composition. Through experiments in gnotobiotic mice with complex microbiomes, we demonstrated that strains of Akkermansia muciniphila and Bacteroides vulgatus could only be established if microbiomes were devoid of these species. Strains of A. muciniphila showed strict competitive exclusion, while B. vulgatus strains coexisted but populations were still influenced by competitive interactions. These differences in competitive behavior were reflective of genomic variation within the two species, indicating considerable niche overlap for A. muciniphila strains and a broader niche space for B. vulgatus strains. Priority effects were detected for both species as strains' competitive fitness increased when colonizing first, which resulted in stable persistence of the A. muciniphila strain colonizing first and competitive exclusion of the strain arriving second. Based on these observations, we devised a subtractive strategy for A. muciniphila using antibiotics and showed that a strain from an assembled community can be stably replaced by another strain. By demonstrating that competitive outcomes in gut ecosystems depend on niche differences and are historically contingent, our study provides novel information to explain the ecological characteristics of gut microbiomes and a basis for their modulation.
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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.