How much lava rock should be placed under the sand? Will it affect the plants rooting?
Lava rock is calcareous so it may dissolve calcium and magnesium into the water. Then, what if you have fish that will dig down, what will they have to deal with? And in any event, a healthy substrate will (should) have areas of anaerobic activity as well as aerobic. The nitrification does not end with nitrate.
Many aquarists do not seem to grasp the complexities of an aquarium. Every time you add any one substance to the tank, it likely will have a sort of chain reaction with other substances or processes. While the aquarium is a very artificial ecosystem, it is using pure natural science from the moment you put in a fish. The laws of science will not vanish just because it is in an aquarium.