Obtain a shelving unit or storage bin made from a different material to keep the wood in. You do not want your plywood to be stored on the ground of a workshop. The typical concrete floors of these places do not remain dry enough and the moisture from the floor can damage the wood under constant contact.
Consider storing the wood somewhere other than the garage. Attics or lofts are a good place because they remain fairly dry. If you must store your wood in the garage or a similarly constructed workshop, try to keep the temperature regulated and seal off windows and doors to help reduce the moisture in the air.
Store the wood in a flat horizontal position if possible. If you must store it vertically, try to have enough wood to fill the storage space so that the wood is as vertical as possible. This helps prevent bowing and warping during storage, which plywood stored vertically and at an angle tends to do.
Write the type and size on the end of each piece so that it can be seen when looking at the stacked pile. This will help you find what you need without having to always dismantle the entire pile.
Cover the finished horizontal stack with a plastic tarp like those laid down during house painting and keep it covered at all times. This helps keep moisture out, preventing warping and ultimately rotting.