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Consistent microbial dynamics and functional community patterns derived from first principles

The ISME Journalvolume 13pages263276 (2019) | Download Citation


Microbial communities are key engines that drive earth’s biogeochemical cycles. However, existing ecosystem models have only limited ability to predict microbial dynamics and require the calibration of multiple population-specific empirical equations. In contrast, we build on a new kinetic “Microbial Transition State” (MTS) theory of growth derived from first principles. We show how the theory coupled to simple mass and energy balance calculations provides a framework with intrinsically important qualitative properties to model microbial community dynamics. We first show how the theory can simultaneously account for the influence of all the resources needed for growth (electron donor, acceptor, and nutrients) while still producing consistent dynamics that fulfill the Liebig rule of a single limiting substrate. We also show consistent patterns of energy-dependent microbial successions in mixed culture without the need for calibration of population-specific parameters. We then show how this approach can be used to model a simplified activated sludge community. To this end, we compare MTS-derived dynamics with those of a widely used activated sludge model and show that similar growth yields and overall dynamics can be obtained using two parameters instead of twelve. This new kinetic theory of growth grounded by a set of generic physical principles parsimoniously gives rise to consistent microbial population and community dynamics, thereby paving the way for the development of a new class of more predictive microbial ecosystem models.

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The authors thank D. Bart Haegeman for the very useful comments he made on a preliminary version of this manuscript. The authors are also grateful to Région Ile de France for funding Hadrien Delattre’s PhD in the framework of the DIM R2DS project. The authors thank the French “Agence Nationale de la Recherche” for its financial support through the “THERMOMIC” project ANR-16-CE04-0003-01.

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  1. Irstea, UR HBAN, F-92761, Antony, France

    • Hadrien Delattre
    • , Elie Desmond-Le Quéméner
    • , Christian Duquennoi
    • , Ahlem Filali
    •  & Théodore Bouchez
  2. LBE, University of Montpellier, INRA, Narbonne, France

    • Elie Desmond-Le Quéméner


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Correspondence to Théodore Bouchez.

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