An animal treatment method comprises flushing the animal waste from a barn to a holding tank where the waste is mixed with an alkaline solution to kill pathogens. After neutralization, the solution is separated into solids and liquids. The liquid is treated and recycled as flushing water to clean the barns and/or drinking water for the animals. The solids are separated into digested and undigested feed. The digested feed is further processed for use as a fertilizer and the undigested feed is processed for use as animal feed.