A bottom control type specimen filtering container consists of a seal plug (1), a top cap (2), a cylinder body (3), a piston rod (5), pistons (6), a clutch spring (7), a drainage needle (8) and a bottom cap (9). The piston rod (5) is disposed in a central hole (12) at the bottom of the cylinder body (3). The pistons (6) are tightly sleeved on the projections of the piston rod (5). The drainage needle (8) is fixedly connected to the lower end of the piston rod (5) through screw thread. One end of the clutch spring (7) is pressed against the bottom of the cylinder body (3), and the other end is against a flange of the drainage needle (8). Furthermore, a double-layer filtering system composed of a first layer of filter screen (4) and a second layer of filter screen (11) is arranged in the specimen filtering container. The shaft of the first layer of filter screen (4) penetrates through a middle hole of the second layer of filter screen (11) and is fixed in a hole at the top of the piston rod (5). A filtering method comprises the following steps: charging a solution to be filtered into the cylinder body (3); removing the bottom cap (9), and disposing a receiving container below the drainage needle (8); and pushing up the receiving container so as to open the bottom of the cylinder body (3) and discharge the solution from the bottom of the cylinder body (3) to the receiving container.