Now that we’ve discussed which pipefish are appropriate for the reef aquarium in Pipefish For The Reef Aquarium: Part One, The Pipefish, we can look at acquiring and caring for your pipefish. Picking Your Pipefish When purchasing pipefish, there are a few things you can look out for to ensure you get healthy pipefish. Pipefish are susceptible to bacterial infections, so look for areas of cloudy skin, fins or eyes. Rapid breathing is frequently a sign of distress; although it can be situational i.e. fear from recent acclimation, or it can be a sign of a bigger problem such as parasites or bacterial infection. Flagtail Pipefish should be swimming above the substrate, not resting on the bottom.