ArticleNucleic acids research2019
ALEdb 1.0: a database of mutations from adaptive laboratory evolution experimentation.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers, 2 of them syntheses that pooled it.
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Who cites it
59 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Meta-analysis Driven Strain Design for Mitigating Oxidative Stresses Important in Biomanufacturing.ACS synthetic biology · 2024Pooled it
- Pooled it
- Growth-coupled microbial biosynthesis of the animal pigment xanthommatin.Nature biotechnology · 2026Article
- Adaptive Laboratory Evolution inMicroorganisms · 2026Review
- Simultaneous optimization of lignocellulosic sugar catabolism via systematic laboratory evolution under complex selection pressure.Nature communications · 2026Article
- Generative design of synthetic gene circuits for functional and evolutionary properties.NPJ systems biology and applications · 2026Article
- Toward a systems metabolic engineering approach to improve thermotolerance of Escherichia coli.Microbial cell factories · 2026Review
- Harnessing a germ‑free mouse gut bioreactor for directed evolution of probiotics to combat non-alcoholic fatty liver disease.Nature communications · 2026Article
- Using TraDIS as a complementary approach to long term evolution for mapping adaptive mutations in Escherichia coli.PLoS genetics · 2026Article
- Differences in GenBank and RefSeq annotations may affect genomics data interpretation formSphere · 2025Article
- Laboratory Evolution Reveals Transcriptional Mechanisms Underlying Thermal Adaptation of Escherichia coli.Genome biology and evolution · 2025Article
- Fast growth and high-titer bioproduction from renewable formate via metal-dependent formate dehydrogenase in Escherichia coli.Nature communications · 2025Article
- Design and implementation of aerobic and ambient CONature communications · 2025Article
- Diversity of Transcriptional Regulatory Adaptation in E. coli.Molecular biology and evolution · 2024Article
- The hallmarks of a tradeoff in transcriptomes that balances stress and growth functions.mSystems · 2024Article
- Article
- Proteome partitioning constraints in long-term laboratory evolution.Nature communications · 2024Article
- Biocomposite thermoplastic polyurethanes containing evolved bacterial spores as living fillers to facilitate polymer disintegration.Nature communications · 2024Article
- Strategies to increase the robustness of microbial cell factories.Advanced biotechnology · 2024Review
- Autotrophic growth ofeLife · 2024Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Adaptive Laboratory Evolution (ALE) has emerged as an experimental approach to discover causal mutations that confer desired phenotypic functions. ALE not only represents a controllable experimental approach to systematically discover genotype-phenotype relationships, but also allows for the revelation of the series of genetic alterations required to acquire the new phenotype. Numerous ALE studies have been published, providing a strong impetus for developing databases to warehouse experimental evolution information and make it retrievable for large-scale analysis. Here, the first step towards establishing this resource is presented: ALEdb (http://aledb.org). This initial release contains over 11 000 mutations that have been discovered from eleven ALE publications. ALEdb (i) is a web-based platform that comprehensively reports on ALE acquired mutations and their conditions, (ii) reports key mutations using previously established trends, (iii) enables a search-driven workflow to enhance user mutation functional analysis through mutation cross-reference, (iv) allows exporting of mutation query results for custom analysis, (v) includes a bibliome describing the databased experiment publications and (vi) contains experimental evolution mutations from multiple model organisms. Thus, ALEdb is an informative platform which will become increasingly revealing as the number of reported ALE experiments and identified mutations continue to expand.
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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.