Abstract: An algae bioreactor having a system and method for the efficient cultivation of algae in systems using in part or in full bioreactor chambers and other units wherein algae are grown in the presence of light and are then harvested for various uses including, but not limited to, for producing specific molecules, including recombinant molecules and other molecules produced from algae especially adapted to produce such molecules (including, but not limited to, nutraceuticals and industrial polymers and polymer subunits), as food products and components of food products, and as biofuel or components of biofuel. Further wherein the pH of the algae slurry is manipulated to allow for automated removal of algae adhered to the light permeable surfaces of the bioreactor.