Macrophyta are the initial link introducing toxic mercury to the trophic chain. Research was carried out at 24 stations located within the Polish coastal zone of the Southern Baltic, in the years 2006-2012. Fifteen taxa were collected, belonging to four phyla: green algae (Chlorophyta), brown algae (Phaeophyta), red algae (Rhodophyta) and flowering vascular plants (Angiospermophyta), and total mercury concentrations were ascertained. The urbanisation of the coastal zone has influenced the rise in Hg concentrations in macroalgae, and the inflow of contaminants from the river drainage area has contributed to an increase in metal concentration in vascular plants. At the outlets of rivers possessing the largest drainage areas in the Baltic (the Vistula and the Oder), no increases in mercury concentration were observed in macrophyta. Increase in environmental quality and a prolonged vegetative season results in the growing coverage of algae on the seabed and in consequence leads to rapid introduction of contemporary mercury and Hg deposited to sediments over the past decades into the trophic chain. Thriving phytobenthos was found to affect faster integration of Hg into the trophic web.