ArticleGenome biology and evolution2018
Metabolic Determinants of Enzyme Evolution in a Genome-Scale Bacterial Metabolic Network.
Article in Genome biology and evolution, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed, 25 citations in OpenAlex.
- Why structural divergence varies among residues in enzyme evolution: contributions of mutation, stability, and activity constraints.Molecular biology and evolution · 2026Article
- Dissecting a two-domain alginate lyase of family PL6 reveals a mechanistic basis for substrate specificity and enzyme activity.The Journal of biological chemistry · 2026Article
- The Architecture of Metabolic Networks Constrains the Evolution of Microbial Resource Hierarchies.Molecular biology and evolution · 2023Article
- Functional comparison of metabolic networks across species.Nature communications · 2023Article
- Article
- Nutrition or nature: using elementary flux modes to disentangle the complex forces shaping prokaryote pan-genomes.BMC ecology and evolution · 2022Article
- The Influence of Codon Usage, Protein Abundance, and Protein Stability on Protein Evolution Vary by Evolutionary Distance and the Type of Protein.The protein journal · 2022Article
- Evolutionary Ecology of Natural ComammoxmSystems · 2022Article
- Variables Influencing Differences in Sequence Conservation in the Fission Yeast Schizosaccharomyces pombe.Journal of molecular evolution · 2021Article
- Evolutionary coupling range varies widely among enzymes depending on selection pressure.Biophysical journal · 2021Article
- Adaptive Enrichment of a Thermophilic Bacterial Isolate for Enhanced Enzymatic Activity.Microorganisms · 2020Article
- A Tale of Two Families: Whole Genome and Segmental Duplications Underlie Glutamine Synthetase and Phosphoenolpyruvate Carboxylase Diversity in Narrow-Leafed Lupin (International journal of molecular sciences · 2020Article
- Gene connectivity and enzyme evolution in the human metabolic network.Biology direct · 2019Article
- Molecular Chaperones Accelerate the Evolution of Their Protein Clients in Yeast.Genome biology and evolution · 2019Article
- Network hubs affect evolvability.PLoS biology · 2019Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Different genes and proteins evolve at very different rates. To identify the factors that explain these differences is an important aspect of research in molecular evolution. One such factor is the role a protein plays in a large molecular network. Here, we analyze the evolutionary rates of enzyme-coding genes in the genome-scale metabolic network of Escherichia coli to find the evolutionary constraints imposed by the structure and function of this complex metabolic system. Central and highly connected enzymes appear to evolve more slowly than less connected enzymes, but we find that they do so as a by-product of their high abundance, and not because of their position in the metabolic network. In contrast, enzymes catalyzing reactions with high metabolic flux-high substrate to product conversion rates-evolve slowly even after we account for their abundance. Moreover, enzymes catalyzing reactions that are difficult to by-pass through alternative pathways, such that they are essential in many different genetic backgrounds, also evolve more slowly. Our analyses show that an enzyme's role in the function of a metabolic network affects its evolution more than its place in the network's structure. They highlight the value of a system-level perspective for studies of molecular evolution.
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