If the filter would shut off, the top tank would drain through the filter and into the bottom tank over flowing it. So...this won't work.I could work if the tanks were stacked. You would need the top tank to over flow into the bottom one. The FX5 would draw water from the lower tank and return it to the upper tank.
You could connect the two tanks using a u bend or something filled with water. Have both tanks side by side at even level and then run the filter. Intake in one tank, output in the other.
Now I said no this won't work due to the bio capacity of the filter.