ArticleApplied and environmental microbiology2017
A Model for Designing Adaptive Laboratory Evolution Experiments.
Article in Applied and environmental microbiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed.
- Simultaneous optimization of lignocellulosic sugar catabolism via systematic laboratory evolution under complex selection pressure.Nature communications · 2026Article
- The evolution of azole resistance through a reduced spore dormancy pathway associated with loss of SUMOylation function inApplied and environmental microbiology · 2026Article
- EnvZ/OmpR-driven cooperative behavior promotes cefiderocol resistance in a hanging-droplet evolution system.Science advances · 2026Article
- Whole-cell modeling predicts alternative proteome allocation strategies in the archaeon Methanococcus maripaludis.Scientific reports · 2026Article
- Microbial response and resistance mechanisms against diverse anthropogenic pollutants.Frontiers in microbiology · 2026Review
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- High-Throughput Screening of Industrial Brewing Yeast with Lower Synthetic Level of Acetaldehyde During Beer Production.Foods (Basel, Switzerland) · 2025Article
- Isolation ofACS synthetic biology · 2025Article
- Enzyme promiscuity in the field of synthetic biology applied to white biotechnology: Opportunities and weaknesses.Biodesign research · 2025Review
- Data-driven synthetic microbes for sustainable future.NPJ systems biology and applications · 2025Review
- Optimisation strategies for directed evolution without sequencing.PLoS computational biology · 2024Article
- Development of specialized devices for microbial experimental evolution.Development, growth & differentiation · 2024Review
- The evolution of antimicrobial peptide resistance in Pseudomonas aeruginosa is severely constrained by random peptide mixtures.PLoS biology · 2024Article
- Improving 5-(hydroxymethyl)furfural (HMF) tolerance ofMetabolic engineering communications · 2024Article
- Adaptive laboratory evolution of Clostridium autoethanogenum to metabolize COMicrobial biotechnology · 2024Article
- Signatures of selection inEvolutionary applications · 2024Article
- Open-endedness in synthetic biology: A route to continual innovation for biological design.Science advances · 2024Review
- Have you tried turning it off and on again? Oscillating selection to enhance fitness-landscape traversal in adaptive laboratory evolution experiments.Metabolic engineering communications · 2023Review
- FromJournal of fungi (Basel, Switzerland) · 2023Review
- Laboratory evolution, transcriptomics, and modeling reveal mechanisms of paraquat tolerance.Cell reports · 2023Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The occurrence of mutations is a cornerstone of the evolutionary theory of adaptation, capitalizing on the rare chance that a mutation confers a fitness benefit. Natural selection is increasingly being leveraged in laboratory settings for industrial and basic science applications. Despite increasing deployment, there are no standardized procedures available for designing and performing adaptive laboratory evolution (ALE) experiments. Thus, there is a need to optimize the experimental design, specifically for determining when to consider an experiment complete and for balancing outcomes with available resources (i.e., laboratory supplies, personnel, and time). To design and to better understand ALE experiments, a simulator, ALEsim, was developed, validated, and applied to the optimization of ALE experiments. The effects of various passage sizes were experimentally determined and subsequently evaluated with ALEsim, to explain differences in experimental outcomes. Furthermore, a beneficial mutation rate of 10
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