The aim of this study is to describe ostracods from freshwater habitats in the Siberian Arctic in order to estimate the present-day relationships between the environmental setting and the geochemical properties of ostracod calcite. A special focus is on the element ratios (Mg/Ca, Sr/Ca), and the stable isotope composition (δ18O, δ13C), in both ambient waters and ostracod calcite. The most common species are Fabaeformiscandona pedata and F. harmsworthi with the highest frequency in all studied waters. Average partition coefficients D(Sr) of F. pedata are 0.33 ± 0.06 (1σ) in females, and 0.32 ± 0.06 (1σ) in males. A near 1:1 relationship of δ18O was found, with a mean shift of Δmean= 2.2‰ ± 0.5 (1σ) to heavier values in ostracod calcite of F. pedata as compared to ambient waters. The shift is not dependent on δ18Owater, and is caused by metabolic (vital) and temperature effects. Temperature-dependence is reflected in the variations of this shift. For ostracod calcite of F. pedata a vital effect as compared to inorganic calcite in equilibrium was quantified with 1.4‰. Results of this study are valuable for the palaeoenvironmental interpretation of geochemical data of fossil ostracods from permafrost deposits. © 2007 Springer Science+Business Media B.V.