Considering the lack of knowledge regarding the paleolimnology and the diatom flora from the sediment in Brazilian aquatic environments, this study aimed to provide information about diatom biodiversity and autoecology in an environment located in the upper Paraná river floodplain. Sediment and periphytic samples were collected from a swamp located in an island of the upper Paraná river floodplain. Sediment samples were obtained by collecting a core of ~2 m with a calibrated date of 726 to 903 cal yr BP near the base. The core was sliced into layers of 2.5 cm, totaling 41 samples. Periphytic diatom samples were obtained by scraping macrophytes' petioles, totaling two samples. The community was represented by 31 species belonging to 15 genera. All of the taxa were found in the sediment record, and 15 were present in the periphyton. The three new records (Eunotia longicamelus, Planothidium bagualensis and Luticola hustedtii) reinforce the importance of paleolimnological and periphytic studies to increase information about the aquatic biodiversity.