ArticleMolecular systems biology2022
Glycolysis/gluconeogenesis specialization in microbes is driven by biochemical constraints of flux sensing.
Article in Molecular systems biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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41 citing papers in PubMed, 0 citations in OpenAlex.
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- Microbial Metabolism: Primary and Secondary Metabolites.Progress in molecular and subcellular biology · 2026Review
- Slower-growing species promote interspecific cooperation and coexistence under acid stress through cross-feeding.Nature communications · 2025Article
- Glyceraldehyde-3-phosphate dehydrogenase homologs as bifunctional gatekeepers of metabolic segregation inProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Phenotypic heterogeneity in lag reflects an evolutionarily stable bet-hedging strategy.bioRxiv : the preprint server for biology · 2025Article
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- Resource-use plasticity governs the causal relationship between traits and community structure in model microbial communities.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Controlled burn: interconnections between energy-spilling pathways and metabolic signaling in bacteria.Journal of bacteriology · 2025Review
- The glycosomal ATP-dependent phosphofructokinase of Trypanosoma brucei operates also in the gluconeogenic direction.PLoS biology · 2025Article
- Basal Xenobot transcriptomics reveals changes and novel control modality in cells freed from organismal influence.Communications biology · 2025Article
Corrections and comments
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Authors and funding
9 authors at 2 institutions in 2 countries.
Funding
Abstract
Central carbon metabolism is highly conserved across microbial species, but can catalyze very different pathways depending on the organism and their ecological niche. Here, we study the dynamic reorganization of central metabolism after switches between the two major opposing pathway configurations of central carbon metabolism, glycolysis, and gluconeogenesis in Escherichia coli, Pseudomonas aeruginosa, and Pseudomonas putida. We combined growth dynamics and dynamic changes in intracellular metabolite levels with a coarse-grained model that integrates fluxes, regulation, protein synthesis, and growth and uncovered fundamental limitations of the regulatory network: After nutrient shifts, metabolite concentrations collapse to their equilibrium, rendering the cell unable to sense which direction the flux is supposed to flow through the metabolic network. The cell can partially alleviate this by picking a preferred direction of regulation at the expense of increasing lag times in the opposite direction. Moreover, decreasing both lag times simultaneously comes at the cost of reduced growth rate or higher futile cycling between metabolic enzymes. These three trade-offs can explain why microorganisms specialize for either glycolytic or gluconeogenic substrates and can help elucidate the complex growth patterns exhibited by different microbial species.
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