Size related changes of phytoplankton biovolume and species composition have been analysed for forward and reverse regime shifts in a shallow, urban, seepage lake. As a consequence of changes in the hydrology, the pelagic switched from a clear water, macrophyte dominated state to a turbid stable phase with an abundant cyanobacterial population. Experimental nutrient reduction forced the system into a recovery phase. Each state change was associated with significant changes in total biovolume, species composition and size structure affecting surface to volume ratios (S/V). Chlorophyll-a content and S/V drastically increased during the early recovering phase due to small cell sized species developing. As expected, state transitions were associated with significant alterations in size structure and composition.