ArticlePLoS genetics2016
The Genomic Basis of Evolutionary Innovation in Pseudomonas aeruginosa.
Article in PLoS genetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 44 citations in OpenAlex.
- Novel genes arise from genomic deletions across the bacterial tree of life.bioRxiv : the preprint server for biology · 2026Article
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- Evolution Under Thermal Stress AffectsbioRxiv : the preprint server for biology · 2024Article
- Analysis of soft rotFrontiers in microbiology · 2024Article
- Experimental evolution for cell biology.Trends in cell biology · 2023Review
- Impact of transient acquired hypermutability on the inter- and intra-species competitiveness of Pseudomonas aeruginosa.The ISME journal · 2023Article
- Early effects of gene duplication on the robustness and phenotypic variability of gene regulatory networks.BMC bioinformatics · 2022Article
- Environmental complexity is more important than mutation in driving the evolution of latent novel traits in E. coli.Nature communications · 2022Article
- Co-evolutionary adaptations ofEvolutionary applications · 2022Article
- Multiple Novel Traits without Immediate Benefits Originate in Bacteria Evolving on Single Antibiotics.Molecular biology and evolution · 2022Article
- The Role of Ancestral Duplicated Genes in Adaptation to Growth on Lactate, a Non-Fermentable Carbon Source for the YeastInternational journal of molecular sciences · 2021Article
- BLAST from the Past: Impacts of Evolving Approaches on Studies of Evolution by Gene Duplication.Genome biology and evolution · 2021Article
- Evolution of Pseudomonas aeruginosa toward higher fitness under standard laboratory conditions.The ISME journal · 2021Article
- Participation of Acyl-Coenzyme A Synthetase FadD4 ofFrontiers in microbiology · 2021Article
- Review
- Experimental Evolution of Innovation and Novelty.Trends in ecology & evolution · 2019Review
- Enzyme promiscuity shapes adaptation to novel growth substrates.Molecular systems biology · 2019Article
- Evolution of correlated complexity in the radically different courtship signals of birds-of-paradise.PLoS biology · 2018Article
- Hundreds of novel composite genes and chimeric genes with bacterial origins contributed to haloarchaeal evolution.Genome biology · 2018Article
- Ca. Endozoicomonas cretensis: A Novel Fish Pathogen Characterized by Genome Plasticity.Genome biology and evolution · 2018Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 3 countries.
Funding
Abstract
Novel traits play a key role in evolution, but their origins remain poorly understood. Here we address this problem by using experimental evolution to study bacterial innovation in real time. We allowed 380 populations of Pseudomonas aeruginosa to adapt to 95 different carbon sources that challenged bacteria with either evolving novel metabolic traits or optimizing existing traits. Whole genome sequencing of more than 80 clones revealed profound differences in the genetic basis of innovation and optimization. Innovation was associated with the rapid acquisition of mutations in genes involved in transcription and metabolism. Mutations in pre-existing duplicate genes in the P. aeruginosa genome were common during innovation, but not optimization. These duplicate genes may have been acquired by P. aeruginosa due to either spontaneous gene amplification or horizontal gene transfer. High throughput phenotype assays revealed that novelty was associated with increased pleiotropic costs that are likely to constrain innovation. However, mutations in duplicate genes with close homologs in the P. aeruginosa genome were associated with low pleiotropic costs compared to mutations in duplicate genes with distant homologs in the P. aeruginosa genome, suggesting that functional redundancy between duplicates facilitates innovation by buffering pleiotropic costs.
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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.