The negative sign is in there because we are concerned with the faster moving liquid (top in figure), which is being slowed by the slower liquid (bottom in figure). By Newton's third law of motion, the force on the slower liquid is equal and opposite (no negative sign) to the force on the faster liquid. This equation assumes that the area of contact is so large that we can ignore any effects from the edges and that the fluids behave as Newtonian fluids.