The Japanese manufacturer had been preparing to run the Rookie Racing-entered #32 GR Corolla H2 Concept with liquid hydrogen propulsion for the first time, after two seasons using gaseous hydrogen.
It made its first public appearance in its new guise in last month's official Super Taikyu test at Fuji Speedway.
But just days away from the car's planned race debut at Suzuka, Toyota revealed the car had been damaged by a fire in the engine bay during a subsequent private test and could not be repaired in time for the season opener.
As such, the #32 machine will be replaced by a GR Yaris running on conventional gasoline.
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