Yes leave the bio filter. A bio-filter is the bacteria colonies that consume ammonia and nitrites. They should be everywhere not just in one place.
Bio filtration will not have any impact on plant fertilization, and that the end result is NO3 is even better. You might consider removing charcoal, any ion exchange resins, etc. from the filter.
You also have to keep in mind that we are talking about
ONE of three crucial interrelated things here.
1. Light
2. Ferts
3, Carbon Source
Further we are talking about a High Light more that moderately planted tank otherwise you would not consider CO2 or Light over 2 watts per gallon.
That said, there is no ABC how much of this or that and when. Each tank is going to be different. My Tank has a very high plant mass (look at the pics) therefore it requires more ferts than a less heavily planted tank but only slightly
First Confusing but Essential Concept:
All Major Nutrients must be available at all times during the photo process so as to insure none of them will be deficient or unavailable for uptake anytime. Those nutrients are NO3, PO4, and K (Nitrate, Phosphate, Potassium)
All Macro trace elements (read the Seachem Flourish Label) must be available during the photo process so as to insure none of them will be deficient or unavailable for uptake.
CO2 must be available and rock solid at 30 - 40 ppm during the photo period.
Here is a thread where Aaron and I were discussing light and ferts.
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http://www.fishtankforums.com/7-fish...aquariums.html
Check it out
Regards,
Jay