Uniting microbial modelling with microfluidic soil chips

Empirical soil models reproducing soil characteristics can help to reduce the inherent complexity of soils in experiments. Microengineered or microfluidic soil chips can simulate the soil pore space at microscale in a transparent material that enables direct visual investigation of soil- and soil microbial processes including monitoring of single cells and their interactions in communities. Through the chips it is possible to control and closely monitor microhabitat conditions including oxygen levels and pH, and to single out factors such as spatial relations, pore space structure or resource patch size. They can be designed either close to realistic conditions such as based on µCT measurements, or using simple geometrical patterns that can be frequently replicated and modified within the chip design. They can thus be tailored to fit scenarios of spatially explicit soil computer models and used for iterative in-silico – in-situ experiments. We found amongst others that the geometric shape of a pore space and its connectivity influences bacterial and fungal growth, their interactions and enzymatic activity. We can measure those factors spatially resolved at cellular scale.  We want to initiate a discussion for future collaborations between soil chip experimentalists and computer modelers.