The microbial individual-based model INDISIM-YEAST ready to be used in the free access NetLogo modelling environment

X. Portell; A. Gras; C. Prats; M. Ginovart

The microbial individual-based model INDISIM-YEAST ready to be used in the free access NetLogo modelling environment

in Industrial, medical and environmental applications of microorganisms

Autor:innen:

X. Portell

X. Portell ¹Department of Agri-Food Engineering and Biotechnology, Universitat Politècnica de Catalunya, Campus Baix Llobregrat, Esteve Terradas 8, 08860 Castelldefels, Barcelona, Spain

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A. Gras

A. Gras ¹Department of Agri-Food Engineering and Biotechnology, Universitat Politècnica de Catalunya, Campus Baix Llobregrat, Esteve Terradas 8, 08860 Castelldefels, Barcelona, Spain

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C. Prats

C. Prats ²Department of Physics and Nuclear Engineering, Universitat Politècnica de Catalunya, Campus Baix Llobregat, Esteve Terradas 8, 08860 Castelldefels, Barcelona, Spain

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, und

M. Ginovart

M. Ginovart ³Department of Applied Mathematics III, Universitat Politècnica de Catalunya, Campus Baix Llobregat, Esteve Terradas 8, 08860 Castelldefels, Barcelona, Spain; marta.ginovart@upc.edu

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Art:: Kapitel

Seiten:: 686–691

DOI:: https://doi.org/10.3920/9789086867950_123

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Individual-based modelling is beginning to establish itself as a viable alternative for investigating microbial systems. The individual-based model INDISIM-YEAST deals with the evolution of a yeast culture, a population with mother cells of different genealogical ages and daughter cells, by setting up rules of behaviour for each yeast according to its own rules and characteristics. It takes into account the uptake, metabolism, budding reproduction and viability of the yeast cells over a period of time in the bulk of a liquid medium, occupying a closed space with different substrates. A revised and parameterized version of INDISIM-YEAST has been implemented in the widely used, free, open source software platform NetLogo. This provides full access to this simulation model for interested microbiologists and enables them to explore the effects of inoculum characteristics on the first stages of a growing yeast population in silico, taking into account the great influence of the discrete and asymmetrical nature of yeast cellular division. In addition, this increases its overall understandability.

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Industrial, medical and environmental applications of microorganisms

Current status and trends

ISBN:: 9789086867950

Verleger:: Wageningen Academic

Print-Publikationsdatum:: 01 Nov 2014

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The microbial individual-based model INDISIM-YEAST ready to be used in the free access NetLogo modelling environment

Zitierungsangaben

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Industrial, medical and environmental applications of microorganisms

Current status and trends

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