Scaling up microbial dynamics for soil carbon cycling models

Soils are heterogeneous at all scales and so are the biogeochemical reactions driving the cycling of carbon (C) and nutrients in soils. While the microbial processes involved in these reactions occur at the pore scale, what we observe at the soil core or pedon scale depends on how micro-scale processes are integrated in space (and time). This integration step requires accounting for the inherent patchiness of soils, but models used to describe element cycling in soils typically assume that conditions are well-mixed and that kinetics laws developed for laboratory conditions hold. Similarly, the response functions used in models to capture the effects of environmental conditions on C and nutrient fluxes neglect the contribution of spatial heterogeneities, which might alter their shape. There is therefore a need to re-evaluate model structures to test whether they can account for micro-scale heterogeneities. Alternatively, one can ask why some models are clearly successful in capturing observations despite neglecting soil heterogeneities. In this contribution, we present examples of how soil heterogeneities – in particular the spatial placement of soil microorganisms and their substrate – may affect decomposition kinetics and microbial responses to soil drying. We show that the kinetics laws used in current models are different from the kinetics obtained by integrating microbial dynamics at the micro-scale, and that respiration responses to soil drying may vary depending on soil heterogeneity. These results thus highlight structural uncertainties in current models that we propose can be assessed using existing ‘scale-aware’ methods to derive macro-scale model formulations. Model advances will need to be supported by empirical evidence bridging the gap between pore and core (or larger) scales, but can also provide new theory-based hypotheses for novel experiments.