ArticleThe ISME journal2015
Microbial catabolic activities are naturally selected by metabolic energy harvest rate.
Article in The ISME journal, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Soil microbiome prediction using traditional machine learning and deep learning models.Scientific reports · 2026Article
- LambdaPy and LambdaR: Thermodynamics-Based Biogeochemical Reaction Modeling Packages for Integrating High-Resolution Mass Spectrometry Data.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Energetic investigations of Acidianus ambivalens metabolism during anaerobic sulfur reduction and comparisons to aerobic sulfur oxidation.Extremophiles : life under extreme conditions · 2025Article
- Functional convergence in slow-growing microbial communities arises from thermodynamic constraints.The ISME journal · 2023Article
- Optimal evaluation of energy yield and driving force in microbial metabolic pathway variants.PLoS computational biology · 2023Article
- Predicting microbial community compositions in wastewater treatment plants using artificial neural networks.Microbiome · 2023Article
- Diversity and metabolic energy in bacteria.FEMS microbiology letters · 2023Article
- Biochemistry shapes growth kinetics of nitrifiers and defines their activity under specific environmental conditions.Biotechnology and bioengineering · 2022Article
- Distinguishing the molecular diversity, nutrient content, and energetic potential of exometabolomes produced by macroalgae and reef-building corals.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Unchanged nitrate and nitrite isotope fractionation during heterotrophic and Fe(II)-mixotrophic denitrification suggest a non-enzymatic link between denitrification and Fe(II) oxidation.Frontiers in microbiology · 2022Article
- Obligate cross-feeding expands the metabolic niche of bacteria.Nature ecology & evolution · 2021Article
- Fed-BatchFrontiers in bioengineering and biotechnology · 2021Article
- Semiquantitative Detection of Hydrogen-Associated or Hydrogen-Free Electron Transfer within Methanogenic Biofilm of Microbial Electrosynthesis.Applied and environmental microbiology · 2020Article
- Co-evolution of primitive methane-cycling ecosystems and early Earth's atmosphere and climate.Nature communications · 2020Article
- Thermodynamic modelling of synthetic communities predicts minimum free energy requirements for sulfate reduction and methanogenesis.Journal of the Royal Society, Interface · 2020Article
- Biosurfactant Production in Sub-Oxic Conditions Detected in Hydrocarbon-Degrading Isolates from Marine and Estuarine Sediments.International journal of environmental research and public health · 2020Article
- Competition Between Butyrate Fermenters and Chain-Elongating Bacteria Limits the Efficiency of Medium-Chain Carboxylate Production.Frontiers in microbiology · 2020Article
- NUFEB: A massively parallel simulator for individual-based modelling of microbial communities.PLoS computational biology · 2019Article
- Consistent microbial dynamics and functional community patterns derived from first principles.The ISME journal · 2019Article
- Individual Based Model Links Thermodynamics, Chemical Speciation and Environmental Conditions to Microbial Growth.Frontiers in microbiology · 2019Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The fundamental trade-off between yield and rate of energy harvest per unit of substrate has been largely discussed as a main characteristic for microbial established cooperation or competition. In this study, this point is addressed by developing a generalized model that simulates competition between existing and not experimentally reported microbial catabolic activities defined only based on well-known biochemical pathways. No specific microbial physiological adaptations are considered, growth yield is calculated coupled to catabolism energetics and a common maximum biomass-specific catabolism rate (expressed as electron transfer rate) is assumed for all microbial groups. Under this approach, successful microbial metabolisms are predicted in line with experimental observations under the hypothesis of maximum energy harvest rate. Two microbial ecosystems, typically found in wastewater treatment plants, are simulated, namely: (i) the anaerobic fermentation of glucose and (ii) the oxidation and reduction of nitrogen under aerobic autotrophic (nitrification) and anoxic heterotrophic and autotrophic (denitrification) conditions. The experimentally observed cross feeding in glucose fermentation, through multiple intermediate fermentation pathways, towards ultimately methane and carbon dioxide is predicted. Analogously, two-stage nitrification (by ammonium and nitrite oxidizers) is predicted as prevailing over nitrification in one stage. Conversely, denitrification is predicted in one stage (by denitrifiers) as well as anammox (anaerobic ammonium oxidation). The model results suggest that these observations are a direct consequence of the different energy yields per electron transferred at the different steps of the pathways. Overall, our results theoretically support the hypothesis that successful microbial catabolic activities are selected by an overall maximum energy harvest rate.
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