I think we should look closely at phosphatase enzymes. Psilocybin is a prodrug that is dephosphorylated into the active drug psilocin. Prodrugs are good if their absorption is better than the drug, or if they can be put up into a solution that is more stable or tolerable than the drug itself. Plasma phosphatases are very efficient and so you don't lose much, if at all, by taking prodrug. Since psilocybin is more stable in solution that psilocin, you have everything to gain and nothing to lose by preventing the conversion of psilocybin to psilocin while it's still in your tea cup.
The Gartz study suggested that the culprit in a bad extraction is probably phosphatase activity.
"...the high activity of enzymes of the phosphatase type in the aqueous solutions of alcohols was already described in aqueous mycelial extracts of P. cubensis and other psilocybin containing mushrooms many years ago (BOCKS 1968, Gartz 1993, Weber and Horita 1963). These enzymes were also extracted with the water containing solvents and caused a partial dephosphorylation of psilocybin to psilocin (Tables 1 and 3). By using these aqueous soluions it was also observed that in some cases bluish mixtures have been resulted after extraction as a sign of partial oxydation of psilocin (BOCKS 1968, Gartz 1989a, Weber and Horita 1963)."
I take it, methanol does not extract phosphatases very well and is the preferred method advocated by Gartz for laboratory extraction. If you read his data carefully, however, the acetic acid extraction is almost as good, unless it is heated. Phosphatase activity is definitely present in the acid solution so I propose we consider that there is something about a cold acid solution that interferes with phosphatase activity.
I don't know squat about mushroom phosphatases so it's hard to say. With regard to other fungi, I came across one study that identified an extracellular phosphatase in Aspergillus that is only active in a narrow pH range (5-8) and works best at high temps (65C). A similar study in two Glomus species showed that the endogenous phosphatases were active in an even more narrow pH range (5.2-5.8) and were inhibited by low temperatures. If shroomie phosphatase has the same properties, we can explain why low pH is good and high temp is bad.
So my theory, which I'm sure is worth exactly what y'all paid for it, is that lemon juice is good because it: 1. Lowers the pH, thus 2. Inhibiting mushroom phosphatases that convert psilocybin into psilocin.
This increases the effectiveness of the dose because: 1. There is less degradation of active ingredients in solution; and/or 2. Psilocybin may have greater oral bioavailability than psilocin.
References -Gartz. Extraction and analysis of indole derivatives from fungal biomass. Journal of Basic Microbiology. Vol 34, 1994; 17-22 -Yadav et al. An extracellular phosphatase from Aspergillus fumigatus. Indian J Exp Biol. 1996 Dec;34(12):1257-60 -Joner et al. Phosphatase activity of external hyphae of two arbuscular mycorrhizal fungi. Mycol Res 2000, vol. 104 (1), pp. 81-86
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