In freshwater or estuarine systems close to land, nitrate can reach concentrations that are lethal to fish. While nitrate is much less toxic than ammonia, levels over 30 ppm of nitrate can inhibit growth, impair the immune system and cause stress in some aquatic species. Nitrate toxicity remains a subject of debate.
In most cases of excess nitrate concentrations in aquatic systems, the primary sources are wastewater discharges, as well as surface runoff from agricultural or landscaped areas that have received excess nitrate fertilizer. The resulting eutrophication and algae blooms result in anoxia and dead zones. As a consequence, as nitrate forms a component of total dissolved solids, they are widely used as an indicator of water quality.