An aquaculture system contains: a cultivation tank, a vortex separator, a drawing pump, multiple bubble separators, multiple filtering units, an aeration unit, and a collection tank. The cultivation tank includes multiple first plates, multiple second plates, an open accommodation chamber, and a conduit tube. The vortex separator includes an inlet and an outlet. The drawing pump is connected beside the vortex separator and the outlet. Each bubble separator includes a cylindrical container and a micro bubble generating unit. Each filtering unit includes a filtration room, multiple filtering membrane sets, at least one water pipe, multiple dish-shaped bags, and multiple vacuum pumps. The aeration unit includes multiple air supply pipes, and the collection tank is employed to receive residual baits and excrements of little fishes or shrimps and particulate matters from the second discharge orifice of each bubble separator and the filtration room.
