Once upon a time, a race known as the Shadow Angels attacked Earth to harvest the life force of all those who inhabited the planet. Thanks to some outrageous miracle, the Shadow Angels went dormant, and humanity was able to live another 12,000 years without fearing their presence. But 11 years after a catastrophe dubbed the Holy Genesis brought ruin to the Earth, the Shadow Angels were stirred from their slumber and resumed the attacks once more.

To give humanity somewhat of a chance, an organization known as DEAVA was formed, and use of a robotic weapon named Aquarion has been authorized. In order for the Aquarion to be brought to full power, three pilots must combine their hearts, bodies, and souls into one—a feat few can hope to accomplish. Thus, the search for so-called 'Element Users' was prioritised, hoping to ensure humanity's future.

Sousei no Aquarion follows the story of Apollo, a near-feral young man brought up in poverty, who is believed to be a legendary hero reincarnated. After his best friend is taken by the Shadow Angels, Apollo chooses to become an Aquarion pilot. Will he be able to turn the tides of the war, and free humanity from the threat of the Shadow Angels for once and for all?

In a distant future there is an organization called Deava which had to fight against the so called "Shadow Angels", creatures that had survived for over 12,000 years whose only purpose was to destroy humanity. Apollo, a seemingly normal human, was in fact the reincarnation of a fallen Angel called Apollonius, who in turn had to fight against Touma, a Shadow Angel, along with his comrades in order to prevent the destruction of the Earth.

[Source: Anime News Network]

This movie is an alternative version of the TV series; it is composed of the two 2007 OVAs, edited to improve the pacing of the plot, and an extra segment akin to a TV episode where the cast are given the task of studying flowers.

The plot has several differences to the TV series.

A special released with the Blu-ray edition of the movie containing alternate events after the end of the TV series.

The "Abductors" Invaders from Altea come to Earth with only one purpose, to harvest humans. DEAVA the Aquaria Academy exists to train men and women to use Aquaria, but they cannot ever merge because of Guize stones, these block an "unholy union" between genders. The story follows Amata and Mikono in their enrollment into DEAVA, and fight their fight with Abductors.

[Source: FUNimation]

In the spring of 1966, Shin Tsukishima, who is travelling to get a crystal radio, meets Yuno Kawazu, a girl crying on a beach in Izu. Shin and Yuno are guided by the Book of Genesis and meet each other halfway. The boundaries between three worlds begin to distort.

[Source: Anime News Network]

Long ago, the human voice defined the true nature of everything. That is, until text came along and opened up the Logos World, a futuristic battlefield where monsters loom. These monsters, known as M.J.B.K., are spawned from texts injected with the magical syringe of Master Sougon, the mysterious gatekeeper of all written word. When these texts are injected, their concept on Earth is erased, and an M.J.B.K. is born in the Logos World. Lucky for humanity, there are a group of young-gun heroes known as the Verbalism Club who counter the text monsters with their Aquarion vectors and the art of voice. It’s up to self-proclaimed savior Akira Kaibuki and the rest of the Verbalism Club to protect the world from being erased as long as their silly antics don’t get in the way.

[Source: Funimation]