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A chemometric approach based on Principal Component Analysis (PCA) has been proposed, in order to study chemical features (major and minor ions, total alkalinity, dissolved silica) of surface and deep waters of Lake Como (Northern Italy). The method allowed us to investigate the correlations between the analyzed ions in an easy-to-see way, using bi-dimensional graphs. In wintertime, the ionic composition of Lake Como waters seems to be mainly related to the geological composition of the lake basin, with a crystalline bedrock on the northern side and a sedimentary cover in the southern part. The presence of contaminants such as bromide and nitrite in water columns is also evidenced and discussed. [ABSTRACT FROM AUTHOR]