Abstract: A modular aquaculture system, and method of using same, deployable in a body of water having a water column, the system including at least one carrier unit defining at least one chamber in which a plurality of containers can be placed. Each container is capable of holding a plurality of organisms to be cultured, and the chamber has at least one chamber inlet for water intake and at least one chamber outlet. The system further includes support structure having sufficient flotation to suspend the at least one carrier unit in the water column. At least one drive unit actively alters a rate of water flow through the at least one chamber and past the containers.