The double gold medallist said he will now ride Sam, the 16-year-old he won with in London in 2012, after his first choice Takinou suffered an infection.
However, Germany's eventing team trainer Chris Bartle, a Briton, told the Horse and Hound website that the replacement had yet to be decided with Rocana another option.
"Today I have to write the worst news of the year," said Jung on his Facebook page. "Takinou has suffered a febrile infection after his victory in Aachen (last week) and cannot fly to Rio."
Only two horse and rider pairings have ever won back-to-back individual Olympic gold medals in eventing, the most recent being New Zealander Mark Todd on Charisma in 1984 and 1988.
(Reporting by Alan Baldwin, editing by Tony Jimenez)
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