A full color deep layer angiography system and method thereof utilizing acoustic-optic tomography, including: at least an incident light source, a heterodyne interferometer system and a negative display system. Wherein, said at least an incident light source emits light to said heterodyne interferometer system. Said heterodyne interferometer system modulates said incident light into modulated light, and transmits it to a tissue-to-be-measured for scanning, said tissue-to-be-measured absorbs said modulated light to produce an ultra-sonic wave, and an oscilloscope is used to display said ultra-sonic wave. Then, said negative display system receives said ultra-sonic wave transmitted from said oscilloscope, to determine speed of said ultra-sonic wave, and calculate deep layer images of said tissue-to-be-measured, and restore said deep layer images of said tissue-to-be-measured to full color images based on a complimentary spectrum of said incident light.本發明提供一種應用光聲斷層掃描之全彩深層造影系統及其方法,其係利用至少一入射光源發出光線至一外差干涉系統;外差干涉系統將入射光源調變為具有聲音頻率之一調變光源後,射出調變光源至一待測組織進行掃瞄,待測組織吸收光後並產生一超音波,利用一示波器顯示超音波之波形;以及示波器將超音波之波形傳送至一負片顯像系統,判斷超音波之速度以計算出待測組織之深度影像,並根據入射光源之一互補光譜將待測組織之深度影像還原至彩色影像。10‧‧‧入射光源122‧‧‧訊號產生器124‧‧‧聲光驅動器126‧‧‧聲光調制器128‧‧‧鏡片組14‧‧‧待測組織16‧‧‧負片顯像系統18‧‧‧超音波探頭20‧‧‧示波器