"And I accepted it," he said. "I deeply apologise for his remark to the people in the disaster-hit areas," Abe said, adding he accepted responsibility for appointing Sakurada as minister.
The resignation comes after Sakurada said at a gathering of a member of the ruling Liberal Democratic Party from the disaster-hit northern region that the lawmaker was more important than the recovery of the region, according to the public broadcaster NHK.
The March 2011 tsunami, triggered by a massive undersea quake, killed around 18,000 people and swamped the Fukushima nuclear plant, sending its reactors into meltdown and leading to the world's worst nuclear disaster since Chernobyl.
More than 50,000 people have not returned to their home towns. Japan has dubbed the 2020 Games the "Reconstruction Olympics" and wants to showcase recovery in regions devastated by the disaster.
Sakurada had already come under fire for various gaffes such as commenting that he was very disappointed about teenage swimming star Rikako Ikee announcing her leukaemia diagnosis.
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