ArticleNature microbiology2020
Regulation underlying hierarchical and simultaneous utilization of carbon substrates by flux sensors in Escherichia coli.
Article in Nature microbiology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 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
41 citing papers in PubMed.
- Sodium ion stress accelerates cell lysis inApplied and environmental microbiology · 2026Article
- A systems-level atlas of carbon-response transcriptional states inProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Quantitative Coarse-Grained Modeling of Microbial Metabolism: Uncovering Growth Laws, Environmental Responses, and Host-Circuit Coupling.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Real-time simultaneous monitoring of multiple analytes in bacterial cultures.Applied and environmental microbiology · 2025Article
- The master virulence regulator PhoP dictates carbon metabolism by controlling cyclic AMP synthesis in Salmonella.PLoS biology · 2025Article
- Overflow metabolism in bacterial, yeast, and mammalian cells: different names, same game.Molecular systems biology · 2025Review
- Gene-level analysis of core carbohydrate metabolism across the Enterobacteriaceae pan-genome.Communications biology · 2025Article
- Minimization of proteome reallocation explains metabolic transition in hierarchical utilization of carbon sources.mSystems · 2025Article
- Strain-specific galactose utilization by commensal E. coli mitigates Salmonella establishment in the gut.PLoS pathogens · 2025Article
- Controlled burn: interconnections between energy-spilling pathways and metabolic signaling in bacteria.Journal of bacteriology · 2025Review
- Article
- Growth rate controls the sensitivity of gene regulatory circuits.Science advances · 2025Article
- Cytoplasmic MgProceedings of the National Academy of Sciences of the United States of America · 2025Article
- The type of carbon source not the growth rate it supports can determine diauxie in Saccharomyces cerevisiae.Communications biology · 2025Article
- The galactokinase enzyme of yeast senses metabolic flux to stabilize galactose pathway regulation.Nature metabolism · 2025Article
- Repression of microbial arsenite uptake and methylation by dissolved organic carbon.Environmental science & technology letters · 2024Article
- Proteome partitioning constraints in long-term laboratory evolution.Nature communications · 2024Article
- Biodiversity is enhanced by sequential resource utilization and environmental fluctuations via emergent temporal niches.PLoS computational biology · 2024Article
- Increasing the Pentose Phosphate Pathway Flux to Improve Plasmid DNA Production in EngineeredMicroorganisms · 2024Article
- Accelerating Genetic Sensor Development, Scale-up, and Deployment Using Synthetic Biology.Biodesign research · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
Many microorganisms exhibit nutrient preferences, exemplified by the 'hierarchical' consumption of certain carbon substrates. Here, we systematically investigate under which physiological conditions hierarchical substrate utilization occurs and its mechanisms of implementation. We show utilization hierarchy of Escherichia coli to be ordered by the carbon-uptake flux rather than the identity of the substrates. A detailed study of glycerol uptake finds that it is fully suppressed if the uptake flux of another glycolytic substrate exceeds a threshold, which is set to the influx obtained when grown on glycerol alone. Below this threshold, limited glycerol uptake is 'supplemented' such that the total carbon uptake is maintained at the threshold. This behaviour results from total-flux feedback mediated by cAMP-Crp signalling but also requires inhibition by the regulator fructose 1,6-bisphosphate, which senses the upper-glycolytic flux and ensures that glycerol uptake defers to other glycolytic substrates but not to gluconeogenic ones. A quantitative model reproduces all of the observed utilization patterns, including those of key mutants. The proposed mechanism relies on the differential regulation of uptake enzymes and requires a specific operon organization. This organization is found to be conserved across related species for several uptake systems, suggesting the deployment of similar mechanisms for hierarchical substrate utilization by a spectrum of microorganisms.
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.