In most cases, a biological filter is nothing more than a chemically inert porous sponge, which provides a greatly enlarged surface area on which these bacteria can develop. These bacterial colonies take several weeks to form, during which time the aquarium is vulnerable to a condition commonly known as "new tank syndrome" if stocked with fish too quickly. Some systems incorporate bacteria capable of converting nitrates into nitrogen gas.

Accumulation of toxic ammonia from decomposing wastes is the largest cause of fish mortality in new,