ArticleNature communications2023
Functional decomposition of metabolism allows a system-level quantification of fluxes and protein allocation towards specific metabolic functions.
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
20 citing papers in PubMed, 32 citations in OpenAlex.
- Cell geometry and membrane protein crowding constrain Escherichia coli growth rate, overflow metabolism, respiration, and maintenance energy.FEBS letters · 2026Article
- On the conditions for shifts in metabolic strategies.PLoS computational biology · 2026Review
- Energetic gradients emerge in developing motor-microtubule structures.bioRxiv : the preprint server for biology · 2026Article
- Lifestyle-dependent evolution and CtrA-mediated lifestyle transitions shape phage resistance in marine Roseobacter.Nature communications · 2026Article
- The return of metabolism: biochemistry and physiology of glycolysis.Biological reviews of the Cambridge Philosophical Society · 2026Review
- Glycolytic ATP production enables rapid mammalian cell growth.bioRxiv : the preprint server for biology · 2025Article
- Thermodynamic dissipation constrains metabolic versatility of unicellular growth.Nature communications · 2025Article
- Recent advances in metabolic engineering of Escherichia coli for riboflavin biosynthesis.World journal of microbiology & biotechnology · 2025Review
- Cell Geometry and Membrane Protein Crowding Constrain Growth Rate, Overflow Metabolism, Respiration, and Maintenance Energy.bioRxiv : the preprint server for biology · 2025Article
- Bioenergetic stress potentiates antimicrobial resistance and persistence.Nature communications · 2025Article
- Spatiotemporal development of expanding bacterial colonies driven by emergent mechanical constraints and nutrient gradients.Nature communications · 2025Article
- Biosensor characterization: formal methods from the perspective of proteome fractions.Synthetic biology (Oxford, England) · 2025Article
- Understanding the triacylglycerol-based carbon anabolic differentiation in Cyperus esculentus and Cyperus rotundus developing tubers via transcriptomic and metabolomic approaches.BMC plant biology · 2024Article
- A framework for understanding collective microbiome metabolism.Nature microbiology · 2024Review
- Unveiling Metabolic Engineering Strategies by Quantitative Heterologous Pathway Design.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Flexibility and sensitivity in gene regulation out of equilibrium.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Free-energy transduction mechanisms shape the flux space of metabolic networks.Biophysical journal · 2024Article
- A quantitative description of light-limited cyanobacterial growth using flux balance analysis.PLoS computational biology · 2024Article
- Functional decomposition of metabolism allows a system-level quantification of fluxes and protein allocation towards specific metabolic functions.Nature communications · 2023Article
- Stress-induced metabolic exchanges between complementary bacterial types underly a dynamic mechanism of inter-species stress resistance.Nature communications · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
Quantifying the contribution of individual molecular components to complex cellular processes is a grand challenge in systems biology. Here we establish a general theoretical framework (Functional Decomposition of Metabolism, FDM) to quantify the contribution of every metabolic reaction to metabolic functions, e.g. the synthesis of biomass building blocks. FDM allowed for a detailed quantification of the energy and biosynthesis budget for growing Escherichia coli cells. Surprisingly, the ATP generated during the biosynthesis of building blocks from glucose almost balances the demand from protein synthesis, the largest energy expenditure known for growing cells. This leaves the bulk of the energy generated by fermentation and respiration unaccounted for, thus challenging the common notion that energy is a key growth-limiting resource. Moreover, FDM together with proteomics enables the quantification of enzymes contributing towards each metabolic function, allowing for a first-principle formulation of a coarse-grained model of global protein allocation based on the structure of the metabolic network.
Indexed as
Identifiers
What OpenQuestion holds
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.