ArticlePLoS computational biology2022
Protein degradation sets the fraction of active ribosomes at vanishing growth.
Article in PLoS computational biology, 2022. 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.
- Coarse-grained resource allocation modeling for decoding and rewiring microbial metabolism.Trends in microbiology · 2026Review
- Bridging energy and proteome allocation models allows prediction of the resource cost of traits across environments.PLoS biology · 2026Article
- E. coli prepares for starvation by dramatically remodeling its proteome in the first hours after loss of nutrients.Molecular systems biology · 2026Article
- Incoherent feedback from coupled amino acids and ribosome pools generates damped oscillations in growing E. coli.Nature communications · 2025Article
- Protein Quality Control is a Master Modulator of Molecular Evolution in Bacteria.Genome biology and evolution · 2025Review
- How total mRNA influences cell growth.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- A coarse-grained bacterial cell model for resource-aware analysis and design of synthetic gene circuits.Nature communications · 2024Article
- Optimal control of ribosome population for gene expression under periodic nutrient intake.Journal of the Royal Society, Interface · 2024Article
- Self-reproduction and doubling time limits of different cellular subsystems.NPJ systems biology and applications · 2023Article
- Out-of-equilibrium gene expression fluctuations in the presence of extrinsic noise.Physical biology · 2023Article
- Dynamic proteome trade-offs regulate bacterial cell size and growth in fluctuating nutrient environments.Communications biology · 2023Article
- Super-exponential growth and stochastic size dynamics in rod-like bacteria.Biophysical journal · 2023Article
- Article
- Multi-scale model suggests the trade-off between protein and ATP demand as a driver of metabolic changes during yeast replicative ageing.PLoS computational biology · 2022Article
- Resource allocation in mammalian systems.Biotechnology advancesReview
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6 authors.
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Abstract
Growing cells adopt common basic strategies to achieve optimal resource allocation under limited resource availability. Our current understanding of such "growth laws" neglects degradation, assuming that it occurs slowly compared to the cell cycle duration. Here we argue that this assumption cannot hold at slow growth, leading to important consequences. We propose a simple framework showing that at slow growth protein degradation is balanced by a fraction of "maintenance" ribosomes. Consequently, active ribosomes do not drop to zero at vanishing growth, but as growth rate diminishes, an increasing fraction of active ribosomes performs maintenance. Through a detailed analysis of compiled data, we show that the predictions of this model agree with data from E. coli and S. cerevisiae. Intriguingly, we also find that protein degradation increases at slow growth, which we interpret as a consequence of active waste management and/or recycling. Our results highlight protein turnover as an underrated factor for our understanding of growth laws across kingdoms.
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