ArticleMolecular biology and evolution2022
Positive Selection during Niche Adaptation Results in Large-Scale and Irreversible Rearrangement of Chromosomal Gene Order in Bacteria.
Article in Molecular biology and evolution, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed, 18 citations in OpenAlex.
- Population size modulates the transition from gene amplification-mediated heteroresistance to stable resistance.npj antimicrobials and resistance · 2026Article
- Prevalence and Evolutionary Implications of Genome Rearrangements in Bacteria.Genome biology and evolution · 2026Article
- SegMantX: A Novel Tool for Detecting DNA Duplications Uncovers Prevalent Duplications in Plasmids.Molecular biology and evolution · 2025Article
- Forward-in-time simulation of chromosomal rearrangements: The invisible backbone that sustains long-term adaptation.Molecular ecology · 2024Article
- Diverse Genome Structures among Eukaryotes May Have Arisen in Response to Genetic Conflict.Genome biology and evolution · 2024Review
- Genome engineering on size reduction and complexity simplification: A review.Journal of advanced research · 2024Review
- Large-scale duplication events underpin population-level flexibility in tRNA gene copy number in Pseudomonas fluorescens SBW25.Nucleic acids research · 2024Article
- Bacteria can compensate the fitness costs of amplified resistance genes via a bypass mechanism.Nature communications · 2024Article
- Genome assemblies of two species of porcelain crab, Petrolisthes cinctipes and Petrolisthes manimaculis (Anomura: Porcellanidae).G3 (Bethesda, Md.) · 2024Article
- Molecular Characterization of Indigenous Rhizobia from Kenyan Soils Nodulating with Common Beans.International journal of molecular sciences · 2023Article
- Attempts to limit sporulation in the probiotic strainAccess microbiology · 2023Article
- Evolution of Bacterial Interspecies Hybrids with Enlarged Chromosomes.Genome biology and evolution · 2022Article
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4 authors at 1 institution in 1 country.
Funding
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Abstract
Analysis of bacterial genomes shows that, whereas diverse species share many genes in common, their linear order on the chromosome is often not conserved. Whereas rearrangements in gene order could occur by genetic drift, an alternative hypothesis is rearrangement driven by positive selection during niche adaptation (SNAP). Here, we provide the first experimental support for the SNAP hypothesis. We evolved Salmonella to adapt to growth on malate as the sole carbon source and followed the evolutionary trajectories. The initial adaptation to growth in the new environment involved the duplication of 1.66 Mb, corresponding to one-third of the Salmonella chromosome. This duplication is selected to increase the copy number of a single gene, dctA, involved in the uptake of malate. Continuing selection led to the rapid loss or mutation of duplicate genes from either copy of the duplicated region. After 2000 generations, only 31% of the originally duplicated genes remained intact and the gene order within the Salmonella chromosome has been significantly and irreversibly altered. These results experientially validate predictions made by the SNAP hypothesis and show that SNAP can be a strong driving force for rearrangements in chromosomal gene order.
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