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Design and modelling of an engineered bacteria-based, pressure-sensitive soil

机译：基于工程细菌的压敏土壤的设计与建模

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摘要

In this paper, we describe the first steps in the design of a synthetic biological system based on the use of genetically modified bacteria to detect elevated pressures in soils and respond by cementing soil particles. Such a system might, for example, enable a self-constructed foundation to form in response to load using engineered bacteria which could be seeded and grown in the soils. This process would reduce the need for large-scale excavations and may be the basis for a new generation of self-assembling and responsive bio-based materials. A prototype computational model is presented which integrates experimental data from a pressure sensitive gene within Escherichia coli bacteria with geotechnical models of soil loading and pore water pressure. The results from the integrated model are visualised by mapping expected gene expression values onto the soil volume. We also use our experimental data to design a two component system where one type of bacteria acts as a sensor and signals to another material synthesis bacteria. The simulation demonstrates the potential of computational models which integrate multiple scales from macro stresses in soils to the expression of individual genes to inform new types of design process. The work also illustrates the combination of in silico (silicon based computing) computation with in vivo (in the living) computation.
机译：在本文中，我们描述了基于使用转基因细菌的合成生物系统设计的第一步，以检测土壤中升高的压力并通过粘合土壤颗粒进行响应。例如，这种系统可以使自建立的基础能够响应于使用可以在土壤中种植和生长的工程化细菌来形成响应于负荷。该过程将减少对大规模挖掘的需求，并且可以是新一代自组装和响应生物基材料的基础。提出了一种原型计算模型，其将实验数据与大肠杆菌细菌内的压敏基因与土壤载荷和孔隙水压力的岩土学模型集成在大肠杆菌细菌内。通过将预期的基因表达值映射到土壤体积上来可视化来自综合模型的结果。我们还使用实验数据来设计一种两个组成系统，其中一种类型的细菌充当传感器和信号到另一个材料合成细菌。仿真展示了计算模型的潜力，该计算模型与土壤中的宏观应力集成到各个基因的表达，以通知新型的设计过程。该工作还示出了在硅（基于硅基的计算）计算中的组合，其中包含体内（在生活中）计算。

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