ArticleMicrobiology (Reading, England)2015
Physiological, biomass elemental composition and proteomic analyses of Escherichia coli ammonium-limited chemostat growth, and comparison with iron- and glucose-limited chemostat growth.
Article in Microbiology (Reading, England), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 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
29 citing papers in PubMed.
- EINN: An enzyme-informed neural network guided by an enzyme-constrained genome-scale metabolic model.Synthetic and systems biotechnology · 2027Article
- Cell geometry and membrane protein crowding constrain Escherichia coli growth rate, overflow metabolism, respiration, and maintenance energy.FEBS letters · 2026Article
- Nitrogen management in the optimization of microbial plastic waste upcycling.Bioresources and bioprocessing · 2026Article
- Integrative Thermodynamic Strategies in Microbial Metabolism.International journal of molecular sciences · 2025Article
- Cell Geometry and Membrane Protein Crowding Constrain Growth Rate, Overflow Metabolism, Respiration, and Maintenance Energy.bioRxiv : the preprint server for biology · 2025Article
- Nutrient colimitation is a quantitative, dynamic property of microbial populations.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Dynamic Energy Budget model for E. coli growth in carbon and nitrogen limitation conditions.Applied microbiology and biotechnology · 2024Article
- Resource allocation accounts for the large variability of rate-yield phenotypes across bacterial strains.eLife · 2023Article
- Stress-induced metabolic exchanges between complementary bacterial types underly a dynamic mechanism of inter-species stress resistance.Nature communications · 2023Article
- Assessing the growth kinetics and stoichiometry ofEngineering in life sciences · 2023Article
- Engineering Nitrogenases for Synthetic Nitrogen Fixation: From Pathway Engineering to Directed Evolution.Biodesign research · 2023Review
- Iron availability enhances the cellular energetics of aerobic Escherichia coli cultures while upregulating anaerobic respiratory chains.New biotechnology · 2022Article
- Nutrient-Limited Operational Strategies for the Microbial Production of Biochemicals.Microorganisms · 2022Review
- Article
- Experimental determination of Escherichia coli biomass composition for constraint-based metabolic modeling.PloS one · 2022Article
- Genome-scale metabolic modelling when changes in environmental conditions affect biomass composition.PLoS computational biology · 2021Article
- Understanding FBA Solutions under Multiple Nutrient Limitations.Metabolites · 2021Article
- Proteome Regulation Patterns Determine Escherichia coli Wild-Type and Mutant Phenotypes.mSystems · 2021Article
- Pseudomonas aeruginosa reverse diauxie is a multidimensional, optimized, resource utilization strategy.Scientific reports · 2021Article
- Enhanced Protocatechuic Acid Production From Glucose UsingFrontiers in bioengineering and biotechnology · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
Escherichia coli physiological, biomass elemental composition and proteome acclimations to ammonium-limited chemostat growth were measured at four levels of nutrient scarcity controlled via chemostat dilution rate. These data were compared with published iron- and glucose-limited growth data collected from the same strain and at the same dilution rates to quantify general and nutrient-specific responses. Severe nutrient scarcity resulted in an overflow metabolism with differing organic byproduct profiles based on limiting nutrient and dilution rate. Ammonium-limited cultures secreted up to 35% of the metabolized glucose carbon as organic byproducts with acetate representing the largest fraction; in comparison, iron-limited cultures secreted up to 70 % of the metabolized glucose carbon as lactate, and glucose-limited cultures secreted up to 4% of the metabolized glucose carbon as formate. Biomass elemental composition differed with nutrient limitation; biomass from ammonium-limited cultures had a lower nitrogen content than biomass from either iron- or glucose-limited cultures. Proteomic analysis of central metabolism enzymes revealed that ammonium- and iron-limited cultures had a lower abundance of key tricarboxylic acid (TCA) cycle enzymes and higher abundance of key glycolysis enzymes compared with glucose-limited cultures. The overall results are largely consistent with cellular economics concepts, including metabolic tradeoff theory where the limiting nutrient is invested into essential pathways such as glycolysis instead of higher ATP-yielding, but non-essential, pathways such as the TCA cycle. The data provide a detailed insight into ecologically competitive metabolic strategies selected by evolution, templates for controlling metabolism for bioprocesses and a comprehensive dataset for validating in silico representations of metabolism.
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.