Bolt's executive manager Nugent Walker confirmed the news, less than 20 minutes before the race.
"He, Bolt, is out of the remainder of the championship on medical exemption," Walker said.
Bolt's withdrawal does not mean he will miss the Rio de Janeiro Olympics, where he is expected to defend his titles in the 100m and 200m.
Unlike the United States, where the first three finishers in the trials win Olympic berths, Jamaica's selection policy allows medical exemptions.
