The Japanese capital will host the prestigious international meet for the second time. The 1991 extravaganza was staged at the old National Stadium.
Shuhei Tada, Ryota Yamagata, Yoshihide Kiryu and Yuki Koike completed their qualifying heat in 38.16 seconds.
The 25-year-old Ehime Prefecture native completed the race in 2 hours, 4 minutes, 56 seconds. He shattered his previous personal-best time by more than 5 minutes.