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Here, we report the results of our preliminary study on deep sea eDNA at fishing ground to approach the fisheries resources abundance at Sulawesi sea by using deep-sea water sampling collected from 10 sites ranging from 110m-200m in depth at front side of the International Coelacanth Research Center and Museum Base at Lolak Waters and Manado Bay North of Sulawesi using Nansen Bottle Sampler (1500 cc). The collected waters were filtered using Power Water Sterivex DNA Isolation Kits and preserved with the DNAiso Reagent then transported to Center for Strategy Research Project, University of the Ryukyus, Okinawa Japan where eDNA analyses were conducted. Our results revealed that the concentrations of eDNA has a good quality were measured with a NanoDrop Lite spectrophotometer, indicating eDNA was successfully extracted. Therefore, by using universal primers for eDNA, MiFish-U-F/R for the 1st-PCR (mt-12S amplification) and 2nd-PCR (tag-indexing) for library preparation to accommodate sequence variations and show that intense signal of MiFish eDNA amplification. Using a high-throughput Illumina MiSeq platform for sequencing analyses, we detected eDNA from 40 fish's species with dominantly by Caranx sexfasciatus, Encrasicholina punctifer.