In general ecosystems are built through evolution. The species that make up a give ecosystem have evolved over thousands if not millions of years often in symbiotic relationships to live together. Species evolve to fill niches in the system till we get the beautifully complex interconnected systems we see today. When something disrupts this balance evolution in turn will allow the species to compensate by filling new niches or expanding their own niche. Linked below is an article with some recent findings about some of the more direct impacts of evolution on a given ecosystem, which may go more to the core of your question.
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