Nitrate (NO) sources and discharge were investigated using isotope and hydrochemical analyses in three river catchments draining Lake Victoria basin, Kenya. Hierarchical cluster analysis grouped Nyando, Nzoia and Sondu Miriu River stations into clusters corresponding to major land use classes of the catchments. Mixed agriculture (MA) in Nyando showed higher NO compared to the other land uses. Nitrate levels obtained (0.1-11.6 mg L) are higher than those reported in previous studies. Hydrochemistry support isotope data indicating that ammonium-based fertilizers and soil N were the major NO sources in tea dominated areas with average δN (6.5 ± 1.3 ‰), δO (6.7 ± 2.3 ‰) values. Manure/sewage were the main source in MA areas with average δN (8.4 ± 2.4 ‰), δO (7.8 ± 5.4 ‰) values. Sewage was the likely source in urban, residential & industrial areas recording average δN (10.0 ± 2.4 ‰), δO (6.9 ± 3.7 ‰) values. δN between land uses were significantly different ( < 0.0001) while δO were similar ( = 0.4). Seasonally, inorganic/organic fertilizers influenced river NO mostly in the wet cropping season. Lower NO concentrations observed in Nyando and Sondu Miriu during dry or start-wet season could be a result of denitrification.
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