Ammonia should break down naturally from the bacteria in your tank unless your bio-load is too high or feeding too much. Water changes will reduce the nitrates, weekly 10% should be sufficient. I know a number of people who use prime (myself included occasionally) with skimmers with no ill effects. I don't know how effective it actually is at removing nitrates as it claims however. There is a number of products that claim to detoxify nitrates but I have no experience with them, water changes have always worked for me.
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