ArticleNature communications2017
Genome-driven evolutionary game theory helps understand the rise of metabolic interdependencies in microbial communities.
Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 61 papers.
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Who cites it
61 citing papers in PubMed, 142 citations in OpenAlex.
- Water kefir as a paradigm for multi-omics and genome-scale metabolic modelling in fermented food.NPJ biofilms and microbiomes · 2026Review
- Ecological and stochastic determinants of the growth and persistence of the oral pathogen Porphyromonas gingivalis.NPJ systems biology and applications · 2026Article
- Exploring cooperation among social pathogens: a computational perspective.FEMS microbiology reviews · 2026Review
- Ecological and Stochastic Determinants of the Growth and Persistence of the Oral Pathogen Porphyromonas gingivalis.bioRxiv : the preprint server for biology · 2025Article
- The role of bacterial metabolism in human gut colonization.International microbiology : the official journal of the Spanish Society for Microbiology · 2025Review
- Empirical evidence of resource dependent evolution of payoff matrices in Saccharomyces cerevisiae populations.Journal of evolutionary biology · 2025Article
- Metabolic modeling of host-microbe interactions.Computational and structural biotechnology journal · 2025Review
- Structure and composition of early biofilms formed on dental implants are complex, diverse, subject-specific and dynamic.NPJ biofilms and microbiomes · 2024Article
- A framework for understanding collective microbiome metabolism.Nature microbiology · 2024Review
- Precision game engineering through reshaping strategic payoffs.Scientific reports · 2024Article
- Cross-biome microbial networks reveal functional redundancy and suggest genome reduction through functional complementarity.Communications biology · 2024Article
- Quantitative principles of microbial metabolism shared across scales.Nature microbiology · 2024Review
- Modeling Microbial Community Networks: Methods and Tools for Studying Microbial Interactions.Microbial ecology · 2024Review
- Strategies for tailoring functional microbial synthetic communities.The ISME journal · 2024Review
- Extinction scenarios in evolutionary processes: a multinomial Wright-Fisher approach.Journal of mathematical biology · 2023Article
- Spontaneously established syntrophic yeast communities improve bioproduction.Nature chemical biology · 2023Article
- Assumptions on decision making and environment can yield multiple steady states in microbial community models.BMC bioinformatics · 2023Article
- Multi-genome metabolic modeling predicts functional inter-dependencies in the Arabidopsis root microbiome.Microbiome · 2022Article
- Shifts in evolutionary balance of phenotypes under environmental changes.Royal Society open science · 2022Article
- Evolutionary instability of selfish learning in repeated games.PNAS nexus · 2022Article
1 more citing papers are in PubMed but not listed here.
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2 authors at 1 institution in 1 country.
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Abstract
Metabolite exchanges in microbial communities give rise to ecological interactions that govern ecosystem diversity and stability. It is unclear, however, how the rise of these interactions varies across metabolites and organisms. Here we address this question by integrating genome-scale models of metabolism with evolutionary game theory. Specifically, we use microbial fitness values estimated by metabolic models to infer evolutionarily stable interactions in multi-species microbial "games". We first validate our approach using a well-characterized yeast cheater-cooperator system. We next perform over 80,000 in silico experiments to infer how metabolic interdependencies mediated by amino acid leakage in Escherichia coli vary across 189 amino acid pairs. While most pairs display shared patterns of inter-species interactions, multiple deviations are caused by pleiotropy and epistasis in metabolism. Furthermore, simulated invasion experiments reveal possible paths to obligate cross-feeding. Our study provides genomically driven insight into the rise of ecological interactions, with implications for microbiome research and synthetic ecology.
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