Adding only ammonia will not help much to install a nitrifying capacity in balance with the needs. Nitrification is the final process of remineralization. using the produced ammonia not used up by the fast growing reducers. A balance is found between reducers and nitrifiers but it will take a few weeks because the nitrifiers are slow growers compared to heterotrophic bacteria, the reducers. Once the balance is installed the produced nitrate should be used up by slower growers, the producers, photo-autotrophs, algae, phyto, cyano, etc..I mean adding ammonia to 2 ppm in order to encourage the growth of autotrophic nitrifying bacteria.
Word play. You know exactly what I mean. I'll stipulate that there are forms of diatoms, cyanobacteria, and dinoflagellates in every healthy system. I just don't want to start a nursery for the forms that tend to muck up a perfectly good looking reef tank..
If you read my article, I advise that tanks be started with what is referred to in the live rock industry as "base" live rock. It contains life required to establish the system but not the more complex life that is prone to die-off. I also advise a process I "borrowed" from @Lasse i.e. adding fish a feeding VERY lightly to supply small amounts of ammonia to maintain the life on the "Base" live rock.
Ii don't believe the substrate the coral is attached to affects its evolved biological processes (holobiont). I also believe if it did, the ceramic frag plug and epoxy I use would insulate it from the rock anyway.
Adding a fish +- 85% of the nitrogen consumed will be released as ammonia. Normally most is removed fast. Most ammonia will be used by heterotrophs braking down the fish's droppings for the carbon they need but which are low in nitrogen.This is essential because nitrafiers are not able to use nitrite as long too much ammonia is present and in the first weeks not enough nitrifiers, bacteria and archaea, will be present to remove all amonia left over after mineralization.
My opinion adding a small healthy strong fish will do the job a lot better compared to adding only ammonia. A better idea is adding some organic fish food ( make it liquid) with a normal to low protein content days before adding the fish, and add the fish when nitrite is gone. The fish and it's feces will introduces all diversity needed to complement the diversity already present.
Will the presence of fresh " live rock" make a difference? it certainly will, positive or negative.
Instead of expensive"live rock", one can use one mussel or oyster. They contain a huge amount of diversity. If one can keep it alive the tank is supportive, if not, the tank will be supportive within a few weeks, containing all diversity needed, if one provides the space.
The substrate on which things grow is important, it has a huge effect on the final result of nitrification and denitrification and growth of organisms, having a huge influencing on the local environmental conditions, pH, alk, Phos, trace elements, etc...
For corals it is not only the substrate which is important, For corrals and all other organisms it is about the competition for nutrients in their new environment and it will for certain make a difference if they are put on a piece of rock on which their holobiont is able to develop or on a piece of rock consuming or and polluting their holobiont. It will have a huge influence on how they will be able to recover of the first chock and the way they will react on their new environment.
The best " alive rock" for a reef aquarium are healthy corals with its substrate, this contain all diversity needed for to keep corals alive.
To be able to adjust to the presence of new competitors, being substrate bound, what would they prefer? A piece of rock full with strange clades of bacteria from an other place in the world or a piece of rock with available space which it 's holobiont is able to colonize in competition with other organisms trying to do the same thing?
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