Palynological analysis of pollen, Pteridophyta spores and algae deposited in the superficial sediments at Lagoa de Cima and Lagoa do Campelo Lakes, located in the north of Rio de Janeiro state, was used to determine the spatial variation of the palynomorphs deposition. A total of 67 pollen types were identified at Lagoa de Cima, with an expressive contribution of regional arboreous taxa, hydrophytes and ruderal plants of the pastureland. The depositional pattern of palynomorphs depends on the fluvial leakage, the proximity of the local sedimentation to the inlet of the Imbé and Urubu Rivers and the bathymetry of lake bottom. The highest concentrations of palynomorphs were observed in the decentralized and less deeper area, without the interference of the northeastern wind. At Lagoa do Campelo, a total of 58 pollen types were identified, among which the majority of the pollen grains came from hydrophytes, with the highest concentrations found along the northeastern shore. The southeastern shore showed high percentages of pollen and spores with degraded exine and mechanical damage, due to the transport through the lake by the currents caused by the wind, confirmed by the depositional trend of damaged palinomorphs along the same direction as the prevailing winds.