Police deny the allegation from leaders of a cause that sparked a civil war in the 1960s in which a million people died.
Police shot protesters in southeastern Aba city, after protests erupted in cities in six southern states, Uchenna Madu, leader of the Movement for the Actualisation of the State of Biafra, said.
But Abia state police spokesman Ezekiel Onyeke said no one was killed and police fired only tear gas and smoke grenades to disperse protesters after some lobbed petrol bombs at security forces. It was not possible to verify the contradictory claims.
Fourteen other protesters and two police officers have been killed and about 200 people detained across the country since the demonstrations started three months ago, according to the separatists and police. They began after intelligence agents detained the director of banned Radio Biafra, Nnamdi Kanu, on October 17. He was initially accused of criminal conspiracy and hate speech but the charges were escalated to terrorism and financing terrorism.
A Federal High Court ordered Kanu's unconditional release on December 17 but President Muhammadu Buhari said two weeks ago that his government would not release Kanu.