Water is not relevant, bacteria are on surfaces. If you move the filter over or at least all the media from your filter (put in your new filter) and your plants, you will probably be fine, but I would plan on monitoring ammonia and nitrite every day for 2 weeks just to be sure and doing WC as required. You may have a mini cycle for a couple days.
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Eheim Pimp Club - Member 468 (2217)