Biological particle sorting is a technology that isolates specific biological particles from complex samples based on their detectable characteristics. This technology has wide-ranging applications in disease diagnosis and treatment, drug development and evaluation, food safety, and environmental monitoring. Here we employed highly focused travelling surface acoustic waves combined with microfluidic chip as a strategy to solve the problem of biological damage and bioaerosol pollution, which can achieve high throughput separation of biological particles at low voltage. A fully functional acoustic FACS instrument consisting of fluorescence detection, sorting feedback, FTSAWs device and pressure control has been constructed. To verify its performance, we sorted fluorescent PS particles from nonfluorescent PS particles with the purity of 97.44±1.29% and the recovery of 96.15%. Further we employed the acoustic-fluorescence-activated sorter to screen transfection cells from initial cells. Fluorescent SGC-7901-GFP cells were sorted from nonfluorescent SGC-7901 cells with the purity of 91.67±1.91% and the recovery of 95.62%, and the viability of the post-sort cells was 97.78±1.01%. In addition, we have developed highly integrated portable equipment that is both low-cost and compact. This design effectively meets the requirements for equipment portability.