To capture the fast-changing fluorescence information during a finite metabolism process in vivo, a dynamic system with the ability of parallel detection was developed based on the merits of high penetration depth and sensitivity of diffuse fluorescence tomography. It adopts the mode of muti-source and muti-detector, and combines photo-multiplier tube detector and lock-in photon-counting technique to achieve high spatial sampling density, high sensitivity, wide dynamic range, as well as better cost-effectiveness. The assessment results show that this system has good performances in stability and ambient light suppression, and the crosstalk-rate of frequency belows 1.39%. The phantom experiment demonstrates the favorable abilities of imaging single and multiple targets. Furtherly, the in vivo experiment on indocyanine green metabolism in healthy mouse liver demonstrates the capability of capturing the fast-changing fluorescence signals in small animals for fluorescence pharmacokinetic study.