Abstract: An efficient system and process for removing nitrogen from wastewater while enriching seed sludge in the mainstream treatment process. Bioaugmentation of seed autotrophic organisms facilitate the nitrification reactions by enhancing the rates of reaction advantageously within a smaller volume or within a shorter activated sludge solids retention time. Likewise, bioaugmentation of seed denitrification organisms will also enhance rate of reaction within a smaller volume or shorter activated sludge solids retention time. Separate treatment of high ammonia digester reject water is an efficient method to treat nitrogen in recycle streams as well as to enrich the seed nitrifying and denitrifying cultures.