A medical treatment apparatus (10) to join target living tissues in a body, includes an energy source (14) which applies energy to the target living tissues, a first treating portion (62) which joins the target living tissues together when energy is applied thereto from the energy source, the first treating portion including at least a pair of holding members (72, 74) having holding surfaces (82, 84) to hold the target living tissues, and an energy output unit (82b, 84b) which is provided on the holding surfaces of the holding members and which join the target living tissues together when energy is applied thereto from the energy source, a second treating portion (64) which is interposed between the target living tissues and which removes surface portions of tissues in the joint surfaces of the target living tissues, an operation portion (42) having a function of operating the holding members so that at least one of the holding members moves relative to the other, and a controller (24) which controls outputs from the energy output unit.