A model was developed simulating reactive transport in groundwater including bioclogging. Results from a bioclogging experiment in a flow cell with a two-dimensional flow field were used as a data base to verify the simulation results of the model. Simulations were performed using three different hydraulic conductivity vs. porosity relations published in literature; two relations derived from pore network simulations assuming the biomass to grow in discrete colonies and as a biofilm, respectively, and a third relation, which did not include pore connectivity in more than one dimension. Best agreement with the experimental data was achieved using a hydraulic conductivity vs. porosity relation derived from pore network simulation assuming the biomass to grow in colonies. The relation derived from pore network simulations assuming biomass to grow as a biofilm was unable to reproduce the experimental data when realistic parameter values were employed. With the third relation the clogging ability of the biomass was strongly underestimated. These findings indicate that the porous medium needs to be treated as a multi-dimensional medium already on the pore scale, and that biomass growth different than in a biofilm must be considered to get an appropriate description of bioclogging.