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Lagunillo del Tejo is a small groundwater-fed sinkhole lake in the karst region of the Iberian Range (central-eastern Spain), which undergoes significant lake level fluctuation in response to rainfall variability. The aim of this study is to understand the record of water level fluctuations in Lagunillo del Tejo over the last two-and-a-half centuries. This information could be used in future studies to interpret longer sedimentary sequences. We analysed photosynthetic pigments, diatoms and cladoceran remains in sediment sequences recovered from the deepest part of the lake. The paleoecological proxies traced two different communities which have switched their prevalence during the past: (1) a planktonic community of algae, including diatoms, chlorophytes, cryptophytes and cyanobacteria, and phototrophic bacteria associated with higher lake level and water column seasonal stratification; (2) a littoral community with the higher levels of macrophyte pigments and associated epiphytic diatoms and chydorids, all of which indicate lower lake level. The levels of coherence between different proxies, each having an independent mechanistic link to lake-level variability, enhance the reliability of palaeolimnological inferences. The high-resolution stratigraphical data from the upper part of the core was compared with lake-level inferences from instrumental rainfall series (1859–2005) to establish the correspondence between Lagunillo del Tejo sediment sequences and climate record. [ABSTRACT FROM AUTHOR]