The aim of this study was to investigate the distribution of chemical elements in topsoil and subsoil, focusing on the identification of natural and anthropogenic element sources in the area of the Crn Drim River Basin, Republic of Macedonia. For that purpose, by using sampling network of 5 × 5 km, 124 soil samples from 62 locations (topsoil and bottom soil) were collected. In total 60 elements were analysed, from which 18 elements (Ag, Al, B, Ba, Ca, Cr, Cu, Fe, K, Li, Mg, Mn, Na, Ni, P, Pb, V и Zn) were analysed by inductively coupled plasma - atomic emission spectrometry (ICP-AES) and an additional 42 elements were analysed by ICP - mass spectrometry (ICP-MS). Multivariate statistical analysis was applied to the obtained data. Factor analysis applied to the ICP-AES results produced four geogenic fac-tors: F1 (Ba and K); F2 (Ag, Cd, Cu, Ni, Pb and Zn), F3 (Cr, Fe, Na, Ni and V) and F4 (Al, Ca, Mg and Mn). Data ob-tained from the distribution maps and data analysis on soil samples, indicate the natural occurrence of the analysed ele-ments as well as low concentrations of heavy metals in the studied area.