"We condemn the massacre of Jews by the Nazis, and we condemn the massacre of Palestinians by the Zionists," Mohammad Javad Zarif wrote on his Facebook page, where he published the text of an interview given to a news agency.
Zarif was also asked whether he wished Jews "Happy Rosh Hashanah" (new year), and had had an exchange about the Holocaust on Twitter.
"I replied to a question from a person who appeared to be the daughter of the ex-speaker of the US House of Representatives," Nancy Pelosi, he wrote.
"Thanks. The new year would be even sweeter if you would end Iran's Holocaust denial, sir," she wrote.
Zarif replied: "Iran never denied it (the Holocaust). The man who was perceived to be denying it is now gone. Happy New Year."
Tehran does not recognise Israel and Ahmadinejad's eight years in office were filled with anti-Israeli diatribes and denial of the Holocaust.
The controversial Ahmadinejad was succeeded as president by Hassan Rowhani, who won a surprise election victory over five conservatives on June 14.
It was not immediately clear, but his announcement would seem to indicate that Zarif, a moderate who has lived in the West and negotiated with it, would take on the role personally.
"Every year we wish happy new year to our Christian compatriots," Zarif told Tasnim.
"We also have a Jewish minority that is represented in parliament by one deputy," he said.
"We have nothing against Jews and Judaism, but we do not allow Zionists to present Iran as being anti-Semitic and bellicose in their propaganda so they can continue to repress the Palestinian people... And have their crimes forgotten," he added.
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