The Algerian Numidia (North-East of Algeria) is composed of twenty freshwater bodies, most of which are marshy and enclosed in forested areas, some of them such as (Lake Tonga, Garaet Hadj-Tahar ....) have a legal protection (Ramsar site). They are rich in aquatic herbarium and attract a wide variety of aquatic birds. They have also the ability to store and restore progressively large amounts of water and allow the supply of groundwater and surface water.The ecological balance of these aquatic ecosystems is threatened by the impact of several factors such as unfavorable climatic changes and anthropogenic impact. In fact, discharges of domestic wastewater, directly, and without any prior treatment in certain water bodies, are the main causes of the ecological imbalance, which have adverse consequences on the environmental, agricultural, economic and health levels.In order to make an assessment of the bacteriological and physicochemical quality of the water of these hydro-systems, we have chosen 6 marshes of this complex: Garaet Beni M'hamed, Garaet Lemsaouessa, Garaet Chichaya, Garaet Sidi Makhlouf, Garaet Hadj Tahar and Garaet Sidi Magroun. For each site we have selected two sampling points.According to the results of the bacteriological and physicochemical analyzes, we found that all the water samples studied had a fair to good quality with minimal contamination at the exception of Garaet Lemsaouessa and Garaet Chichaya. The latter were characterized by the presence of germs, especially indicators of faecal contamination.