The specimen storage apparatus includes: a specimen conveyor line which conveys a specimen for which the pre-processing is completed and which is installed on a specimen conveyance holder; a lift mechanism capable of driving a specimen tray having the specimen installed therein in front-and-back and vertical directions; a specimen chuck mechanism which transfers the specimen from a specimen acquisition position of the specimen conveyor line to the specimen tray on the lift mechanism; a specimen storage unit which receives the specimen tray from the lift mechanism, includes hierarchical specimen storage spaces in a vertical direction, and accommodates a plurality of specimen trays in a lateral direction while keeping them cold; a shutter mechanism which is opened and closed at the time of delivery of the specimen tray between the lift mechanism and the specimen storage unit; and a control unit which controls each of the mechanisms.