"If you are against political executions, why did you remain silent to the execution of Motiur Rahman Nizami who was martyred a couple of days ago," Erdogan said in a televised speech in Istanbul.
"Have you heard anything from Europe? ... No. Isn't it called double standards?" Erdogan said.
Nizami, leader of the Jamaat-e-Islami party, was hanged at a Dhaka jail late Tuesday for the massacre of intellectuals during the 1971 independence war with Pakistan.
In protest, Turkey on Thursday recalled its ambassador to Bangladesh for consultations.
Since coming to power in 2002, Turkey's ruling Islamic-rooted Justice and Development Party (AKP) has sought to boost the country's power in the Muslim world.
Last year, Erdogan condemned a death sentence handed to Egypt's deposed Islamist president Mohamed Morsi, who was a close ally of Ankara until he was overthrown by the military in 2013.
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