In the Cosmos, a strange phenomenon has occurred. One day, Gingka and Co. help Yuki, a boy who is attacked by Johannes, a mysterious youth. Even though Yuki is a boy genius and an astronomer, he is a Blader who owns "Anubis". Yuki says that he has come to tell Gingka and his friends about the voice of the Star Fragment. He witnessed the Star Fragment (a meteor) fall from the sky one day. That single light dwells within Anubis and he says that he heard the voice of the Star Fragment that evening. A great evil is trying to revive "The Black Sun" and "Nemesis", the God of Destruction, by using the unknown power of the Star Fragment and with that.... Gingka and Co.'s new adventure begins!!