Detectives from Hampshire Police charged the teen on Tuesday night after he was arrested that morning.
He is due to seem at Southampton Magistrates’ Court on Wednesday.
The detain came after officers and paramedics were called to Defender Road at 5.05am on Sunday, following reports that a child was in need of medical attention.
The baby child was taken to Southampton General Hospital, where he after died.
An 18-year-old lady was also arrested on guess of murder and stays under investigation, but has been expelled from police custody.