Blue mussels, Mytilus edulis , form dense beds of both commercial and ecological importance, and many attempts have been made to determine their filtration rate. The total time in which mussels actually utilise their filtration capacity in nature varies greatly, making in situ methods for filtration rate measurements relevant. Further, it is being debated to what extend filtration rates measured in the laboratory using cultivated algal cells may apply for mussels in nature. In the present study, we have used an open-top chamber setup in order to allow repeated in situ filtration rate measurements of M. edulis using ambient natural phytoplankton and free-living bacteria. We found that the in situ measured filtration rates are comparable to filtration rates obtained in laboratory studies using different methods and controlled diets of cultivated algal cells. Further, we found that the retention efficiency of free-living bacteria was between 22.2% and 29.9%, in good agreement with values from laboratory studies. Our findings support the assumption that mussels in nature tend to use their filtration capacity when the phytoplankton concentration is above a certain lower trigger level.