ArticlePLoS computational biology2016
On the Origins and Control of Community Types in the Human Microbiome.
Article in PLoS computational biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed.
- Deciphering microbial community dynamics using cross-sectional data-informed NeuralODE.Microbiome · 2026Article
- Dynamical Systems-Constrained Metabolic Modeling Enables Forecasting of Host-Microbiome Dynamics.bioRxiv : the preprint server for biology · 2026Article
- Keystone concept revisited: insights into microbial community dynamics and control.Nature reviews. Microbiology · 2026Review
- Emergence of alternative states in a synthetic human gut microbial community.Nature communications · 2025Article
- Functional archetypes in the human gut microbiome reveal metabolic diversity, stability, and influence disease-associated signatures.Microbiome · 2025Article
- Correlation with viruses enhances network complexity and stability of co-occurrence prokaryotes across the oceans.mSystems · 2025Article
- Vitamin biosynthesis in the gut: interplay between mammalian host and its resident microbiota.Microbiology and molecular biology reviews : MMBR · 2025Review
- The core microbiomes and associated metabolic potential of water kefir as revealed by pan multi-omics.Communications biology · 2025Article
- Emergence of alternative stable states in microbial communities undergoing horizontal gene transfer.eLife · 2025Article
- Beyond traditional screening: Unveiling antibiotic potentials of actinomycetes in extreme environments.Heliyon · 2024Article
- Cross-biome microbial networks reveal functional redundancy and suggest genome reduction through functional complementarity.Communications biology · 2024Article
- Data-driven prediction of colonization outcomes for complex microbial communities.Nature communications · 2024Article
- Structured community transitions explain the switching capacity of microbial systems.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- A computational method to dissect colonization resistance of the gut microbiota against pathogens.Cell reports methods · 2023Article
- Evaluation of vaginal microbiome equilibrium states identifies microbial parameters linked to resilience after menses and antibiotic therapy.PLoS computational biology · 2023Article
- Top-down identification of keystone taxa in the microbiome.Nature communications · 2023Article
- Bakdrive: identifying a minimum set of bacterial species driving interactions across multiple microbial communities.Bioinformatics (Oxford, England) · 2023Article
- Controlling the human microbiome.Cell systems · 2023Review
- Stability of human gut microbiome: Comparison of ecological modelling and observational approaches.Computational and structural biotechnology journal · 2023Article
- Estuarine gradients dictate spatiotemporal variations of microbiome networks in the Chesapeake Bay.Environmental microbiome · 2021Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Microbiome-based stratification of healthy individuals into compositional categories, referred to as "enterotypes" or "community types", holds promise for drastically improving personalized medicine. Despite this potential, the existence of community types and the degree of their distinctness have been highly debated. Here we adopted a dynamic systems approach and found that heterogeneity in the interspecific interactions or the presence of strongly interacting species is sufficient to explain community types, independent of the topology of the underlying ecological network. By controlling the presence or absence of these strongly interacting species we can steer the microbial ecosystem to any desired community type. This open-loop control strategy still holds even when the community types are not distinct but appear as dense regions within a continuous gradient. This finding can be used to develop viable therapeutic strategies for shifting the microbial composition to a healthy configuration.
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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.