The identification of Middle-Late Holocene palaeoenvironmental conditions of the Marathon coastal plain gained great interest in the last decades due to its high environmental and archaeological importance. Palynological analysis of samples from two boreholes and two trenches along a transect in the marshy area of the Marathon coastal plain, enabled the tracing of the vegetation and the main environmental changes for the last �6000 cal BP. Pollen data suggest a human disturbed environment with Pinus, Quercus, Juniperus and Ericaceae, while a general trend towards Mediterranean vegetation patterns is observed during the last �3000 cal BP. Pollen grains from aquatic and hydrophilous plants, dinoflagellate cysts, algal remains and other palynomorphs were used in order to determine the local depositional environment and its evolution through time.