This research investigated the accumulation of metals (Cu, Zn, Cr, Pb, Cd and Fe) in sediment of Gao-ping River and Gao-ping submarine canyon. Both Sediment Quality Guidelines (SQGs) by National Oceanic and Atmospheric Administration (NOAA) and Soil Quality Guidelines by Taiwan Environmental Protection Agency (EPA) were used to assess the extent of risk of these metals to the local ecological system. The results found no significant correlation between concentration of metals and volatile solid as well as particle size. It is noted that significant contaminations in zinc and lead were observed in sediments from both Gao-ping River and the starting point of Gao-ping submarine canyon, which concentrations exceeded the guidelines of Effect Range-Medium (ERM) by NOAA. Very likely, this is resulted from the metal and electroplating factories in the catchment area of Gao-ping River. It also provides evidence of the role of Gao-ping submarine canyon in accumulation of terrestrial and anthropogenic pollutants.