The objective of this study is to evaluate spatial and temporal patterns of the optical properties of four floodplain lakes in Mamirauá Sustainable Development Reserve (MSDR) through the integration of in situ and laboratory remote sensing data and limnological field data. This study analysed two water phases, receding waters in July/2015, and rising waters in July, August/2016 and March, April/2016. Results indicate that there are great changes on optical and limnological properties in both time and space. During rising waters we observed a higher concentration of inorganic sediments in lakes located near the major tributaries, whereas for the lakes located in the inner rings of the forest there were higher concentration of organic matter. During the receding waters, we found relatively homogeneous conditions for the optical properties. Those changes between the two water phases were also demonstrated with the Remote Sensing Reflectance (Rrs) measured in situ, with a higher magnitude during the rising water. Further analysis about the impact of the variability of optical properties on semi-analytical algorithms are under investigation, and will increase our understanding of the use of remote sensing techniques for monitoring Amazon ecosystems.