Osamu Ino is a great doctor who is beloved in his rural village. His knowledge and dedication make an equally strong impression on his reluctant medical intern, Keisuke Soma. But, Soma and the villagers reconsider their opinion when they learn about a shameful incident from Dr. Ino's past. Now the once-respected doctor must account for his past actions.

A mysterious street-painter, Jouji, wanders aimlessly, homeless. Together with his homeless pals, he makes his living by selling his paintings on the street. His paintings, dynamically exploding on pieces of cardboard, catch the eyes of Kyoko, an art dealer. He can feel alive only if he keeps painting, but unable to find something to fill his void inside, he tries to drown himself in alcohol. Drawn to Jouji, Kyoko commissions him to paint for her. The two travel to a secluded mountain-side, and there Jouji becomes inspired both by the natural surroundings and Kyoko herself.

Kenichi is a half-Japanese, half-Chinese man of the underworld. You can sell him anything except children's organs. His domain is in Kabukicho, a gangland controlled by various Shanghai gangs intent on taking control. His former partner-in-crime, Fu-Chun, is rumored to have returned to Kabukicho, having fled years earlier after killing the number two of gangland boss, Yuan. Yuan wants to get even and attempts to do so by using Kenichi.

Mushi are beings in touch with the essence of life, far more basic and pure than normal living things. Most humans are incapable of perceiving Mushi and are oblivious to their existence, but there are a few who possess the ability to see and interact with Mushi. One such person is Ginko who travels from place to place to research Mushi and aid people suffering from problems caused by them.