Abstract This study identifies the relationships between the δ13C and δ18O signatures of extant charophyte carbonates (δ13CCARB and δ18OCARB) and the δ13C of dissolved inorganic carbon and δ18O of water (δ13CDIC and δ18OWATER), respectively, and the structure of charophyte beds and the physico‐chemical properties of the ambient water. Inter‐ and intra‐specific differences and lake‐related variability are assessed. Four morphologically different charophyte species (Nitellopsis obtusa, Chara tomentosa, Chara rudis, Chara contraria) were studied in four charophyte‐dominated lakes (Chara‐lakes) in Central Europe. A wide distribution of the species in calcium‐rich freshwater lakes, where they form extensive underwater beds and contribute to the deposition of calcareous sediments, makes the study representative of Chara‐lakes. Charophytes and water above them were sampled monthly (June–September 2008) at permanent study sites. Additionally, three comparative macrophyte‐free pelagic sites were sampled in each lake. For all the charophytes studied, there was a greater variation in the δ13C and δ18O values of the encrustations than of the ambient and pelagic waters. Except for N. obtusa and C. tomentosa, the species differed significantly in the δ13CCARB values. The encrustations were enriched in 13C compared to water DIC. Chara tomentosa encrustations were significantly depleted in 18O compared to N. obtusa and C. contraria. In contrast to Chara species, N. obtusa encrustation was 18O‐enriched compared to surrounding water. The largest isotope differences between carbonate encrustations and surrounding water were found for C. rudis. Considering the δ13CCARB versus δ13CDIC values, only slender species (i.e. N. obtusa and C. contraria) precipitated encrustations close to isotopic equilibrium with water DIC. Based on theoretical δ18OCALCULATED and measured δ18OCARB values, only C. tomentosa precipitated encrustation in equilibrium with the δ18OWATER. Using redundancy analysis, the δ13CCARB values positively correlated with the δ13CDIC and δ18OWATER values and the percent volume of water inhabited by plants. The depth of sites, water mineralisation, alkalinity and fertility were inversely correlated with the δ13CCARB. The redundancy analysis revealed a clear division of samples into species and lakes; lakes were especially distinct. We postulate that the stable C and O isotope compositions of charophyte encrustations are lake‐ rather than species‐specific and that the isotopic signatures of charophyte carbonates are representative of the entire lake epilimnion, not just the vegetated littoral zone. Furthermore, the isotopic signal of bulk sediment can provide environmental information that is as useful as species‐specific isotope values.
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