The men from Birkenhead were charged following an extensive investigation into child sexual exploitation.
Vinothan Rajenthiram, 26, has been charged with two counts of rape and nine counts of sexual activity with a girl under 16, Merseyside Police said.
Ilavarasan Rajenthiram, 25, has been charged with eight counts of sexual activity with a girl under 16 and two counts of sexual assault on a female.
Both men appeared at Wirral Magistrates' Court earlier.
Two brothers have been charged with child sex offences in Merseyside.