This study was aimed at determining the identity and the genetic diversity of rabbitfish based upon mtDNAmolecular marker. Rabbitfish specimens were collected from Bahu waters (n=17), Manado Bay. DNA was extracted using 10% chelexsolution. FF2d andFR1d primer pairs were used for CO1 gene fragment amplification. PCR applied 30 cycles, and the output was sequenced, blasted, and analyzed using various softwares to achieve the objectives. Results found a total of 8 species,Siganusargenteus, S. virgatus, S. vulpinus, S. doliatus, S. luridus,S. puellus, S. punctatus, and S. punctatissimus. Genetic diversity of Siganid was high, and 13 haplotypes were identified from all sequences. Haplotypeand nucleotide diversity reached 0.97 and 0.06, respectively. Each species possessed different haplotypes. S. vulpinus, S. virgatus, S. luridus, S. doliatus, and S. argenteus had 100% haplotype frequency. S. punctatus was represented by 6 individuals with the haplotype frequency higher than 66%, S. puellus had 50% frequency, and S. Punctatissimus had 100%.
