The strike was the latest test for a fragile ceasefire that has mostly held up since early October, despite claims of violations by both Israel and Hamas. Hamas put out a statement condemning the Israeli strike in Khan Younis.
Earlier Wednesday, Israel received remains of what could be one of the last hostages in Gaza and said it would begin allowing Palestinians to leave the territory through a border crossing with Egypt.
Prime Minister Benjamin Netanyahu said Hamas violated the ceasefire Wednesday when, according to the army, terrorists emerged from a tunnel and attacked Israeli soldiers in an area under their control.
Israel has accused Hamas of ceasefire violations before launching previous airstrikes.
The remains found Wednesday by terrorists in northern Gaza were returned to Israel, where they were being examined by forensics experts. Remmains that the Hamas terrorists handed over Tuesday did not match either of the last two hostages.