Restoration works on an 11 km long reach of the Spree River near Cottbus in Germany were accomplished in 2014. The overall objective was to improve the biodiversity, changing the morphological structure from a straight single-thread river to a braiding one with reshaped thalweg, and creating zones with varying flow velocities required for fish spawning. Several interventions were made, among which also two types of groynes were constructed along the reach: impermeable stone groynes, with an inclined crest so that only the tip is typically submerged during normal flow conditions, and wooden groynes made of several large trunks, which are mainly submerged at normal flow conditions. To compare local morphodynamic effects caused by the different types, flow velocities and bed topography were measured at distances of 12 m upstream and 16 m downstream of two selected groynes. The vertical profile was captured by measuring at five levels above the bed. Bed material was sampled at several locations around the groynes. The analysis of the measurements showed the effect of each groyne type on the flow velocity, bed topography and bed material. Furthermore, the differences in the effects of each groyne type on the flow, bed topography and bed material were highlighted.