The invention discloses an apparatus for metering microbes in water, and a method for metering microbes in water. The apparatus comprises a power supply port, an operating panel, a groove, a loading position, a microbe metering container, a lower container part, an upper container part, a film, a measured solution, a stirrer, a measuring electrode, a negative electrode, a positive electrode, a microbe collection terminal, a sampling rod, an anti-interference cap, super absorbent resin, magnets, a rotor and a motor, one end of the power supply port is connected with the negative electrode and the positive electrode, and when the other end of the power supply port is connected with the power supply, the microbes in the measured solution are negatively polarized on the negative electrode and are positively polarized on the positive electrode, and adjustment of the microbe collecting voltage and adjustment of the microbe metering voltage are alternately carried out through the operating panel; and the microbe metering apparatus applies an external voltage to make the microbes be polarized in order to make the microbes go through the zigzag electrodes, fall to the microbe collecting terminal and be metered, and the quantity of the microbes is directly displayed through a digital display panel. The apparatus and the method have the advantages of simplicity in operation, difficult interference of external factors to the measurement result, and high accuracy.