The evaluation of metal pollution level of Logone River at Moundou (Chad) was done by measuring the amount of Iron (Fe), Copper (Cu), Manganese (Mn), Chromium (Cr), Cadmium (Cd) and lead (Pb). The water, sediments and fish samples were collected around the river at 4 sites and the concentrations were determined by spectrophotometric UV-Visible analyses. The results obtained showed that iron (Fe) had the highest concentration in water with average of 0.77±0.03mg/L followed by Mn (0.13±0.01 mg/L). In contrast, in the sediments Mn had a highest concentration followed by Fe with an average content of 33.17±0.04mg/kg and 7.61±0.02mg/kg respectively. In both cases, Cd had the lowest concentration of 0.52±0.03µg/kg and 0.43±0.02µg/L in the sediment and water respectively. The lowest values of enrichment factor (0-0.88) and average contamination indexes (0.74 to 0.88) indicates that the sediment are not polluted by As, Cd, Cr and Pb. However, Mn is highly found in sediment with an EF of 76.88% and 100% at AM and COT sampling site respectively at which suggest the origin of this heavy metal by Coton tchad activities. The values of bioconcentration factor (BCF) of Cd, Cr, Fe and Mn proved that the fishes are under bioaccumulation step. This study proved that the various waste generated by industries (CotonTchad and Brewery of Chad) and agriculture practices at Moundou affect significantly the quality of Logone River ecosystem.