Abdul Rahem Faqih, Muhammad Dailami, Diana Aisyah, Septi Anitasari, Cinca Hayyu Putri Satiti
Gobiopterus brachypterus is a small-bodied and transparent freshwater fish from Ranu Grati Lake, East Java, Indonesia, with unique protogynous hermaphroditism. Genomic studies on this species remain limited due to difficulties in obtaining high-quality DNA. Therefore, this study aims to evaluate the performance and quality of genomic DNA extraction from G. brachypterus as a prerequisite for whole-genome sequencing (WGS), extracted by using a standardized genomic DNA isolation protocol optimized for small-bodied fish species. Samples were collected from October to November 2025. DNA extraction and analysis were conducted at the Integrated Research Laboratory, Universitas Brawijaya, using an Implen NanoPhotometer® NP80. Genomic DNA concentrations ranged from 12.70 to 344.25ng/ µL, with the highest value observed in a male sample. DNA purity showed A260/A280 ratios of 1.94–2.08 and A260/A230 ratios of 0.14–2.19. Overall, the DNA quality and quantity met the minimum requirements for downstream molecular applications, including WGS, although additional purification may be required for samples with low A260/A230 ratios. These findings provide baseline genomic DNA quality data for G. brachypterus and support future genomic studies within the Gobiidae family. © 2026, Egyptian Society for the Development of Fisheries and Human Health. All rights reserved.
Aquaculture, Aquatic Resources Management, Master Programme Aquaculture, Faculty of Fisheries and Marine Science, Universitas Brawijaya, Jl. Veteran, East Java, Malang, 65145, Indonesia; PSDKU Aquaculture, Department of Fisheries and Marine Resources Management, Faculty of Fisheries and Marine Science, University of Brawijaya
