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Beehives serve as homes for bees. Although there are many appearances of bees' homes as worlds, level themes, or background elements, there are some beehives that various characters can interact with to obtain a desired result.
Donkey Kong 3
Beehives technically first appear in Donkey Kong 3, where the titular ape proceeds to knock on them to dispatch the bugs in greenhouses (either with his fists, as is the case in the Blue and Gray Greenhouses, or via coconuts, in the case of the Yellow Greenhouse). In the Yellow Greenhouse, Stanley also forces Donkey Kong into a beehive at the top, which then falls onto his head. In the Arcade version, Donkey Kong, upon the beehive falling onto his head, then twitches and scrambles to get the beehive off, only to fall down to the ground, with the beehive then splitting open and revealing that Donkey Kong's face is partially swollen, with his right eye being puffy (heavily implying that Donkey Kong had been stung by the beehive's occupants).
Mario Party 2
Super Mario Sunshine
Beehives also appear in Super Mario Sunshine. The bees only get angry if Mario gets too close to the beehive or Mario knocks it down by squirting it. Once that happens, the bees attack Mario. The bees will retreat once the beehive reappears after a short amount of time. Having Yoshi eat the bees grants Mario a coin for each one, but a Blue Coin or a 1-Up Mushroom is rewarded from the last bee eaten. Once all bees are eaten, the beehive will still reappear but with no bees to occupy it.
Super Smash Bros. for Nintendo 3DS / Wii U
The beehive from the Animal Crossing series appears as an item in Super Smash Bros. for Nintendo 3DS / Wii U. When thrown, a number of bees appear that chase after swarm around a random opponent, constantly dealing a small amount of damage until they disappear, as well as damaging any nearby opponents. If the beehive hits a specific player, then the bees target that player. The beehive can also be attacked and destroyed, which results in the bees targeting the player that destroys the beehive.