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The reason is because the fishes gills have gill stacks inside. These gill stacks are like sheets of paper. They increase the surface area for the oxygen intake as fish have a constant supply of water over the gills the gill stacks do not stick together. When taken out of the water the gill stacks stick together and the fish suffocates as the surface area for oxygen uptake decreases. Some special fish that belong to a group called anabantids, these have an organ called the labyrinth. The labyrinth organ allows them to breathe atmospheric air or oxygen depleted water these are the only fish I know of that can breathe atmospheric air.

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