Graph of Cellular Automata as a Metaphor of Fusarium Graminearum Growth Implemented in GPGPU CUDA Computational Environment

Fusarium Graminearum is responsible for Fusarium head blight (FHB) infection which reduces world-wide cereal crop yield. As a consequence of mycotoxin production in cereal grain, it has also serious negative impact on both human and animal health. The main objective of this study is to develop a mechanistic and conceptual metaphor of Fusarium growth. Our model is based on a new realization of Graph of Cellular Automata paradigm (GCA) used before for simulating anastomosing rivers and the process of angiogenesis in solid tumors. We demonstrate that GCA model is a very universal metaphor, which can also be used for mimicking Fusarium type of growth. To enable 3-D interactive simulations of realistic population ensembles (105-107 plant and fungal cells), the GCA model was implemented in GPGPU CUDA environment resulting in one order of magnitude speedup.

[1]  Fordyce A. Davidson,et al.  A positive numerical scheme for a mixed-type partial differential equation model for fungal growth , 2003, Appl. Math. Comput..

[2]  Pawel Topa,et al.  Towards a Two-Scale Cellular Automata Model of Tumour-Induced Angiogenesis , 2006, ACRI.

[3]  E. F. Codd,et al.  Cellular automata , 1968 .

[4]  Witold Dzwinel,et al.  A Multiscale Cellular Automata Model for Simulating Complex Transportation Systems Artificial Neural Networks Systems Based on DFT Parameters and Molecular Field Analysis - Computational Tools for Prediction of Ethylbenzene Dehydrogenase Reaction Kinetics , 2006 .

[5]  Daniel Thalmann,et al.  GPGPU computation and visualization of three-dimensional cellular automata , 2010, The Visual Computer.

[6]  Graeme P. Boswell,et al.  The Development of Fungal Networks in Complex Environments , 2007, Bulletin of mathematical biology.

[7]  R. Silman,et al.  Cellular automata simulations of fungal growth on solid substrates. , 1993, Biotechnology advances.

[8]  S. Harris,et al.  Branching of fungal hyphae: regulation, mechanisms and comparison with other branching systems , 2008, Mycologia.

[9]  Paweł Topa,et al.  Network Systems Modelled by Complex Cellular Automata Paradigm , 2011 .

[10]  A. Salcido.  Cellular Automata - Simplicity Behind Complexity , 2011 .

[11]  Michael P. Hassell,et al.  Competition, succession and pattern in fungal communities: towards a cellular automaton model , 1994 .

[12]  Pawel Topa,et al.  Dynamically Reorganising Vascular Networks Modelled Using Cellular Automata Approach , 2008, ACRI.

[13]  Jaroslaw Was,et al.  Social Distances Model of Pedestrian Dynamics , 2006, ACRI.

[14]  Bastien Chopard,et al.  Cellular Automata Modeling of Physical Systems: Index , 1998 .

[15]  L. Harris,et al.  Use of a Fusarium graminearum strain transformed with green fluorescent protein to study infection in wheat (Triticum aestivum) , 2004 .

[16]  D. Somers,et al.  Fungal development and induction of defense response genes during early infection of wheat spikes by Fusarium graminearum. , 2000, Molecular plant-microbe interactions : MPMI.

[17]  Tsuyoshi Otobe,et al.  CRITICAL SHORT-TIME DYNAMICS IN LATTICE GAUGE THEORY , 2006 .