Stomatal guard cells play a key role in gas exchange for photosynthesis while minimizing transpirational water loss from plants by opening and closing the stomatal pore. Foliar gas exchange has long been incorporated into mathematical models, several of which are robust enough to recapitulate transpirational characteristics at the whole-plant and community levels. Few models of stomata have been developed from the bottom up, however, and none are sufficiently generalized to be widely applicable in predicting stomatal behavior at a cellular level. We describe here the construction of computational models for the guard cell, building on the wealth of biophysical and kinetic knowledge available for guard cell transport, signaling, and homeostasis. The OnGuard software was constructed with the HoTSig library to incorporate explicitly all of the fundamental properties for transporters at the plasma membrane and tonoplast, the salient features of osmolite metabolism, and the major controls of cytosolic-free Ca 2+ concentration and pH. The library engenders a structured approach to tier and interrelate computational elements, and the OnGuard software allows ready access to parameters and equations 'on the fly' while enabling the network of components within each model to interact computationally. We show that an OnGuard model readily achieves stability in a set of physiologically sensible baseline or Reference States; we also show the robustness of these Reference States in adjusting to changes in environmental parameters and the activities of major groups of transporters both at the tonoplast and plasma membrane. The following article addresses the predictive power of the OnGuard model to generate unexpected and counterintuitive outputs.Stomatal guard cells surround pores in the epidermis of plant leaves and regulate the pore aperture. They open the pore in response to low CO 2 and light to facilitate CO 2 access for photosynthesis, and they close the pore in the dark, under drought stress, and in the presence of the water-stress hormone abscisic acid to minimize water loss through transpiration. Stomata have a profound impact on the water and carbon cycles of the world (Gedney et al., 2006;Betts et al., 2007). Their dynamics have been incorporated into models for transpiration and water use efficiency (Farquhar and Wong, 1984;Ball, 1987;Williams et al., 1996;Eamus and Shanahan, 2002;West et al., 2005), successfully reproducing the gas exchange, CO 2 , and transpirational characteristics of experiments at the plant and community levels. To date, these models have taken a top-down approach. They subsume stomatal movements within a few empirical parameters of linear hydraulic pathways and conductances without reference to the molecular mechanics of the guard cell. No generalized guard cell model has yet to be developed from the bottom up, drawing on the wealth of knowledge available for guard cell transport, signaling, and homeostasis. It is clear that such a model is now needed. The depth and breadth of information ava...