Wcisło Rafał, Miller S Shea, Dzwinel Witold
AGH University of Science and Technology, 30-059 Kraków, Poland.
Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON Canada, K1A 0C6.
J Theor Biol. 2016 Jan 21;389:110-22. doi: 10.1016/j.jtbi.2015.10.018. Epub 2015 Nov 6.
The multi-scale nature and inherent complexity of biological systems are a great challenge for computer modeling and classical modeling paradigms. We present a novel particle automata modeling metaphor in the context of developing a 3D model of Fusarium graminearum infection in wheat. The system consisting of the host plant and Fusarium pathogen cells can be represented by an ensemble of discrete particles defined by a set of attributes. The cells-particles can interact with each other mimicking mechanical resistance of the cell walls and cell coalescence. The particles can move, while some of their attributes can be changed according to prescribed rules. The rules can represent cellular scales of a complex system, while the integrated particle automata model (PAM) simulates its overall multi-scale behavior. We show that due to the ability of mimicking mechanical interactions of Fusarium tip cells with the host tissue, the model is able to simulate realistic penetration properties of the colonization process reproducing both vertical and lateral Fusarium invasion scenarios. The comparison of simulation results with micrographs from laboratory experiments shows encouraging qualitative agreement between the two.
生物系统的多尺度性质和内在复杂性对计算机建模和传统建模范式构成了巨大挑战。在开发小麦禾谷镰刀菌感染的三维模型的背景下，我们提出了一种新颖的粒子自动机建模隐喻。由宿主植物和镰刀菌病原体细胞组成的系统可以由一组由一组属性定义的离散粒子集合来表示。细胞粒子可以相互作用，模拟细胞壁的机械阻力和细胞聚结。粒子可以移动，而它们的一些属性可以根据规定的规则改变。这些规则可以代表复杂系统的细胞尺度，而集成粒子自动机模型（PAM）模拟其整体多尺度行为。我们表明，由于该模型能够模拟镰刀菌顶端细胞与宿主组织的机械相互作用，因此能够模拟定殖过程中真实的穿透特性，再现垂直和横向的镰刀菌入侵场景。模拟结果与实验室实验显微照片的比较表明两者之间在定性上具有令人鼓舞的一致性。
