Tuseday's expulsion came hours after Israeli Prime Minister Benjamin Netanyahu tweeted that Turkish President Recep Tayyip Erdoğan was among Hamas's "biggest supporters".
Mr Erdoğan responded later in the afternoon by describing Israel as an "apartheid state" and advising the Israeli prime minister to read the ten commandments.
Israel and Turkey were once strong allies but relations have become rocky over the past decade, in particular since the Mavi Marmara incident of 2010.
Turkish citizens were killed when the IDF stormed the Mavi Marmara flotilla carrying activists intending to break the sea blockade of the Gaza Strip.
The two countries did not break diplomatic ties but relations were downgraded following the incident.
A Turkish ambassador did not return to Tel Aviv until 2016, after Israel agreed to compensate the victims’ families.
