The geochemistry of lake sediments provides valuable information on environmental conditions and geochemical processes in polar regions. To characterize geochemical composition and to analyse weathering and provenance, 26 lakes located in six islands of the South Shetland Islands (SSI) and James Ross Archipelago (JRA) were analysed. Regarding major composition, the studied lake sediments correspond to ferruginous mudstones and to a lesser extent to mudstones. The weathering indices indicate incipient chemical alteration (Chemical Index of Alteration = 52.6; Plagioclase Index of Alteration = 57.6). The La-Th-Sc plot shows different provenance signatures. SSI lake sediments correspond to oceanic island arcs, whereas those of JRA denote a signal of continental arcs with mixed sources. In James Ross Island lake sediments are of continental arcs (inland lakes), oceanic island arcs (coastal lakes) and a middle signature (foreland lakes). Multi-elemental analysis indicates that the sediments are enriched from regional basalts in Ba, Rb, Th, Cs and U (typical of silica-rich rocks) and depleted in Cr and Co due to mafic mineral weathering. The geochemical signals identified by principal component analysis enable us to group the sediments according to the studied islands and their geomorphological characteristics. This study underlines the importance of knowing the geochemical background levels in pristine lake sediments to evaluate potential future anthropogenic effects.