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Modeling in Microbial Ecology

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Environmental Microbiology: Fundamentals and Applications

Abstract

The bases and the principles of modeling in microbial community ecology and biogeochemistry are presented and discussed. Several examples are given. Among them, the fermentation process is largely developed, thus demonstrating how the model allows determining the microbial population growth rate, the death rate, and the maintenance rate. More generally, these models have been used to increase the development of bioenergetic formulations which are presently used in biogeochemical models (Monod, Droop, DEB models). Different types of interactions (competition, predation, and virus–bacteria) are also developed. For each topic, a complete view of the models used in the literature cannot be presented. Consequently, the focus has been done on the demonstration how to build a model instead of providing a long list of existing models. Some recent results in sediment biogeochemistry are provided to illustrate the application of such models.

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Authors and Affiliations

  1. Institut Méditerranéen d’Océanologie (MIO), UM 110, CNRS 7294 IRD 235, Université de Toulon, Aix-Marseille Université, Campus de Luminy, 13288, Marseille Cedex 9, France

    Jean-Christophe Poggiale

  2. Laboratoire des procédés alimentaires et microbiologiques, UMR PAM, AgroSup Dijon et Université de Bourgogne, 21000, Dijon, France

    Philippe Dantigny

  3. Écologie des systèmes marins côtiers (ECOSYM, UMR5119), Universités Montpellier 2 et 1, CNRS-Ifremer-IRD, 34095, Montpellier Cedex 05, France

    Rutger De Wit

  4. Pôle des Interactions Plante-Microorganismes, INRA UMR 1347 Agroécologie, AgroSup-INRA-Université de Bourgogne, BP 86510, 21065, Dijon Cedex, France

    Christian Steinberg

Authors
  1. Jean-Christophe Poggiale
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  2. Philippe Dantigny
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  3. Rutger De Wit
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  4. Christian Steinberg
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Corresponding author

Correspondence to Jean-Christophe Poggiale .

Editor information

Editors and Affiliations

  1. Université de Toulon, Aix-Marseille Université, Institut Méditerranéen d’Océanologie (MIO), UM 110, CNRS 7294 IRD 235, Cedex 9, Marseille, France

    Jean-Claude Bertrand

  2. Université de Pau et des Pays de l’Adour, Institut des Sciences Analytiques et de Physico-chimie pour l’Environnement et les Matériaux (IPREM), UM 110, CNRS 5254, Pau Cedex, France

    Pierre Caumette

  3. Observatoire Océanologique de Banyuls, Laboratoire de Biodiversité et Biotechnologie Microbiennes (LBBM), Sorbonne Universités, UPMC Univ, Paris 06, USR CNRS 3579, Banyuls-sur-Mer, France

    Philippe Lebaron

  4. Institut Méditerranéen de Biodiversité et d’Ecologie marine et continentale (IMBE), UMR-CNRS-IRD 7263, Aix-Marseille Université, Cedex 20, Marseille, France

    Robert Matheron

  5. Microbial Ecology Center, UMR CNRS 5557/USC INRA 1364, Villeubanne, France

    Philippe Normand

  6. Laboratoire Microorganismes: Génome et Environnement (LMGE), UMR CNRS 6023, Université Blaise Pascal, Clermont Université, Aubère Cedex, France

    Télesphore Sime-Ngando

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Poggiale, JC., Dantigny, P., De Wit, R., Steinberg, C. (2015). Modeling in Microbial Ecology. In: Bertrand, JC., Caumette, P., Lebaron, P., Matheron, R., Normand, P., Sime-Ngando, T. (eds) Environmental Microbiology: Fundamentals and Applications. Springer, Dordrecht. https://doi.org/10.1007/978-94-017-9118-2_19

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