ArticleNature communications2023
Quantifying the local adaptive landscape of a nascent bacterial community.
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Epistatic impacts of cis- and trans-regulatory mutations on the distribution of mutational effects for gene expression in Saccharomyces cerevisiae.Molecular biology and evolution · 2026Article
- Genotype-fitness mapping of adaptive mutants reveals shifting low-dimensional structure across divergent environments.PLoS biology · 2026Article
- Counting-based inference of mutant growth rates from pooled sequencing across growth regimes.bioRxiv : the preprint server for biology · 2026Article
- The evolution of genetic drift over 50,000 generations.bioRxiv : the preprint server for biology · 2026Article
- Experimental evolution in an era of molecular manipulation.Nature reviews. Genetics · 2026Review
- An empirical long-term competition among natural yeast isolates reveals that short-term fitness largely but not entirely predicts long-term outcomes.bioRxiv : the preprint server for biology · 2025Article
- Ecological diversification in rapidly evolving populations.bioRxiv : the preprint server for biology · 2025Article
- Frequency-dependent fitness effects are ubiquitous.bioRxiv : the preprint server for biology · 2025Article
- An automated high-throughput lighting system for screening photosynthetic microorganisms in plate-based formats.Communications biology · 2025Article
- Asynchronous abundance fluctuations can drive giant genotype frequency fluctuations.Nature ecology & evolution · 2025Article
- Evolution of evolvability in rapidly adapting populations.Nature ecology & evolution · 2024Article
- Article
- Evolution and stability of complex microbial communities driven by trade-offs.Molecular systems biology · 2024Review
- Asynchronous abundance fluctuations can drive giant genotype frequency fluctuations.bioRxiv : the preprint server for biology · 2024Article
- Reversions mask the contribution of adaptive evolution in microbiomes.bioRxiv : the preprint server for biology · 2024Article
- Lineage frequency time series reveal elevated levels of genetic drift in SARS-CoV-2 transmission in England.PLoS pathogens · 2024Article
- Bayesian inference of relative fitness on high-throughput pooled competition assays.PLoS computational biology · 2024Article
- Rediversification following ecotype isolation reveals hidden adaptive potential.Current biology : CB · 2024Article
- Quantifying the adaptive landscape of commensal gut bacteria using high-resolution lineage tracking.Nature communications · 2024Article
- Mutualism reduces the severity of gene disruptions in predictable ways across microbial communities.The ISME journal · 2023Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
The fitness effects of all possible mutations available to an organism largely shape the dynamics of evolutionary adaptation. Yet, whether and how this adaptive landscape changes over evolutionary times, especially upon ecological diversification and changes in community composition, remains poorly understood. We sought to fill this gap by analyzing a stable community of two closely related ecotypes ("L" and "S") shortly after they emerged within the E. coli Long-Term Evolution Experiment (LTEE). We engineered genome-wide barcoded transposon libraries to measure the invasion fitness effects of all possible gene knockouts in the coexisting strains as well as their ancestor, for many different, ecologically relevant conditions. We find consistent statistical patterns of fitness effect variation across both genetic background and community composition, despite the idiosyncratic behavior of individual knockouts. Additionally, fitness effects are correlated with evolutionary outcomes for a number of conditions, possibly revealing shifting patterns of adaptation. Together, our results reveal how ecological and epistatic effects combine to shape the adaptive landscape in a nascent ecological community.
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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.