Modulation of antibiotic effects on microbial communities by resource competition.
Modulation of antibiotic effects on microbial communities by resource competition.
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DOI：
10.1038/s41467-023-37895-x
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发表时间：
2023-04-26
影响因子：
16.6
通讯作者：
Huang, Kerwyn Casey
中科院分区：
文献类型：
--
作者：
Newton, Daniel P.;Ho, Po-Yi;Huang, Kerwyn Casey
抗生素治疗显著影响人类肠道微生物群，但缺乏抗生素如何影响群落多样性的定量理解。在这里，我们建立了资源竞争的经典生态模型，以调查群落对抗生素活性或其他生长抑制因子（如噬菌体）诱导的物种特异性死亡率的反应。我们的分析强调了物种共存的复杂依赖性，这可能源于资源竞争和抗生素活性的相互作用，独立于其他生物机制。特别是，我们确定了资源竞争结构，导致丰富程度取决于抗生素的顺序应用（非传递性），以及多种抗生素同时应用时出现的协同和拮抗效应（非可加性）。这些复杂的行为可能很普遍，特别是当目标是多面手消费者时。社区可能倾向于协同作用或对抗作用，但通常不会两者兼而有之，对抗作用更为常见。此外，我们发现在抗生素序列中导致非传递性的竞争结构和在抗生素组合中导致非可加性的竞争结构中存在显著的重叠。总之，我们的研究结果为预测有害扰动下微生物群落动态建立了一个广泛适用的框架。抗生素以复杂的方式影响肠道微生物群。在这里，Newton等人利用资源竞争的生态模型阐明了资源竞争和物种特异性死亡率下的物种共存模式，为预测有害扰动下的微生物群动态提供了一个模型。
Antibiotic treatment significantly impacts the human gut microbiota, but quantitative understanding of how antibiotics affect community diversity is lacking. Here, we build on classical ecological models of resource competition to investigate community responses to species-specific death rates, as induced by antibiotic activity or other growth-inhibiting factors such as bacteriophages. Our analyses highlight the complex dependence of species coexistence that can arise from the interplay of resource competition and antibiotic activity, independent of other biological mechanisms. In particular, we identify resource competition structures that cause richness to depend on the order of sequential application of antibiotics (non-transitivity), and the emergence of synergistic and antagonistic effects under simultaneous application of multiple antibiotics (non-additivity). These complex behaviors can be prevalent, especially when generalist consumers are targeted. Communities can be prone to either synergism or antagonism, but typically not both, and antagonism is more common. Furthermore, we identify a striking overlap in competition structures that lead to non-transitivity during antibiotic sequences and those that lead to non-additivity during antibiotic combination. In sum, our results establish a broadly applicable framework for predicting microbial community dynamics under deleterious perturbations. Antibiotics impact the gut microbiota in complex ways. Here, employing ecological models of resource competition, Newton et al. elucidate species coexistence patterns under resource competition and species-specific death rates, providing a model to predict microbiota dynamics under deleterious perturbations.
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