Additionally, CO is a metabolite for some methanogenic bacteria, specifically in production of acetyl CoA [3].
My point is, as long as enough diversity has survived in the ecosystem, it is quite possible that not only CO2/H20/O2 are able to maintain a balance, but _most_ common molecules would be able to remain at nontoxic levels for the plant.
[1]: http://en.wikipedia.org/wiki/Methanogen [2]: http://en.wikipedia.org/wiki/Methanotroph [3]: http://textbookofbacteriology.net/metabolism_7.html
By that logic if you had sufficient biodiversity to start there would be some limiting nutrient that would fix the stable state biomass of the whole system.
To me, metabolism is one of the most interesting biological topics. It is fascinating how intricate of a system has evolved and it shows how difficult it truly is to know the end consequences of changing literally any chemical concentration in the body.
Here is one of the more intricate maps for solely human metabolism: http://www.cc.gatech.edu/~turk/bio_sim/articles/metabolic_pa.... Crazy stuff.
They can be pretty small and made to fit in nicely. The cheapest way to power them would probably be to use a simple coated electrical cable (through a layer of wax, or through something less leaky), I suppose.
Having them relay data in some fashion while having all the electronics not be exposed to erosion/etc might be a bit tricky.. ideally, just the actual sensor surfaces themselves would reside within; coated wires would all go through the seal, etc. Or, the devices could be (not very easily) shielded, and just the sensor surfaces be exposed..
Of course the most fun way to do this would be to have a whole self-sustaining arduino/whatever running inside, relaying data wirelessly, and having it be powered by small solar panels (would still need to take care of erosion/etc.)
Collect all data, plot it (including the light levels), and see if you can make anything out of it. :)
edit actually, I can now imagine a really large aquarium, with not much light passing into the very middle; for mostly entertainment purposes, it would be nice to also be able to place a cheapo camera there which could take (infrequent, like once every 5min or 20min) timelapses. Another camera with IR lens if needed, for neat composite images.. etc etc. Not sure of possible scientific value re: the latter, but hey!
That said, even if it falls short of a 100% perfect hermetic seal it's still darn impressive.
I've looked all over the google and can't find anything that points to this being false.