Children of the Sea(2005)

Kaijuu no Kodomo

When Ruka was younger, she saw a ghost in the water at the aquarium where her dad works. Now she feels drawn toward the aquarium and the two mysterious boys she meets there, Umi and Sora. They were raised by dugongs and hear the same strange calls from the sea as she does.

Ruka's dad and the other adults who work at the aquarium are only distantly aware of what the children are experiencing as they get caught up in the mystery of the worldwide disappearance of the oceans' fish.

(Source: VIZ Media)