ArticleNature ecology & evolution2020
Repeatable ecological dynamics govern the response of experimental communities to antibiotic pulse perturbation.
Article in Nature ecology & evolution, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Slow spatial migration can help eradicate cooperative antimicrobial resistance in time-varying environments.PLoS computational biology · 2026Article
- Predicting microbial community responses to disturbance using genome-resolved trait-based life-history strategies.The ISME journal · 2026Article
- Eco-evolutionary dynamics and environmental detoxification jointly shape bacterial community response to antibiotic perturbation.The ISME journal · 2026Article
- An experimental outlook on investigating temporal-scale dynamics of microbial communities.ISME communications · 2026Article
- Global prediction of agricultural soil antibiotic susceptibility and safe boundary for biota.iScience · 2025Article
- Pre-exposure of abundant species to disturbance improves resilience in microbial metacommunities.Nature ecology & evolution · 2025Article
- Pre-exposure to disturbance enhances species resilience and protects from change.Nature ecology & evolution · 2025Article
- Temporal Changes in the Role of Species Sorting and Evolution Determine Community Dynamics.Ecology letters · 2025Article
- Parallel ecological and evolutionary responses to selection in a natural bacterial community.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Ecological dependencies and the illusion of cooperation in microbial communities.Microbiology (Reading, England) · 2024Article
- Steering and controlling evolution - from bioengineering to fighting pathogens.Nature reviews. Genetics · 2023Review
- Influence of metabolic guilds on a temporal scale in an experimental fermented food derived microbial community.FEMS microbiology ecology · 2023Article
- Evolutionary repeatability of emergent properties of ecological communities.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2023Review
- Interspecies interaction reduces selection for antibiotic resistance in Escherichia coli.Communications biology · 2023Article
- Dynamics ofFEMS microbes · 2023Article
- Biofilm antimicrobial susceptibility through an experimental evolutionary lens.NPJ biofilms and microbiomes · 2022Review
- Disruption and recovery of river planktonic community during and after the COVID-19 outbreak in Wuhan, China.ISME communications · 2022Article
- Non-antibiotic pharmaceuticals promote conjugative plasmid transfer at a community-wide level.Microbiome · 2022Article
- Quantifying the impact of ecological memory on the dynamics of interacting communities.PLoS computational biology · 2022Article
- Fast growth can counteract antibiotic susceptibility in shaping microbial community resilience to antibiotics.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In an era of pervasive anthropogenic ecological disturbances, there is a pressing need to understand the factors that constitute community response and resilience. A detailed understanding of disturbance response needs to go beyond associations and incorporate features of disturbances, species traits, rapid evolution and dispersal. Multispecies microbial communities that experience antibiotic perturbation represent a key system with important medical dimensions. However, previous microbiome studies on this theme have relied on high-throughput sequencing data from uncultured species without the ability to explicitly account for the role of species traits and immigration. Here, we serially passage a 34-species defined bacterial community through different levels of pulse antibiotic disturbance, manipulating the presence or absence of species immigration. To understand the ecological community response measured using amplicon sequencing, we combine initial trait data measured for each species separately and metagenome sequencing data revealing adaptive mutations during the experiment. We found that the ecological community response was highly repeatable within the experimental treatments, which could be attributed in part to key species traits (antibiotic susceptibility and growth rate). Increasing antibiotic levels were also coupled with an increasing probability of species extinction, making species immigration critical for community resilience. Moreover, we detected signals of antibiotic-resistance evolution occurring within species at the same time scale, leaving evolutionary changes in communities despite recovery at the species compositional level. Together, these observations reveal a disturbance response that presents as classic species sorting, but is nevertheless accompanied by rapid within-species evolution.
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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.