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The basis is there, but it seems like the dominant strategy is to plant wherever possible (why do some spots not allow planting?) and cycle through stages quickly to build up DNA. I was able to max out the skill tree all at once this way. Achieving a balance is hard in such a short time, so I admire the ambition to make complex game mechanics in 48 hours.

The reason some spots don't allow planting is the idea that they have too much or too little resources for your plant (e.g. too much water and it'll drown, too little and it will die of dehydration)