DNA Barcoding Reveals Species Diversity and Cryptic Lineages of Commercially Important Carangidae in Aceh Waters, Indonesia

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Nur Fadli, Laras Nauna Izzati Daminiyart, Ahmad Sazali A. Sitorus, Rachel Mutia Lonteng, Deby Hadisyafitri, Nissa Aulia Putri, Cut Tria Aswina, Nanda Muhammad Razi, Nanda Ulfa Khaira, Irma Dewiyanti, Mutia Ramadhaniaty, Sri Riska Rahayu, Adrian Damora, Agus Putra Abdul Samad, Mohd Nor Siti-Azizah

2025 International Journal of Design and Nature and Ecodynamics Vol. 20 Issue 11 Article Cited by 0 SDG 14SDG 17 Quartile

Abstract

Trevally (family Carangidae), locally referred to as “Ikan Kuwe” or “Ikan Rambue,” is one of the most commercially valuable marine fish groups in Aceh. Despite their high market demand and economic importance, scientific information on Carangidae species in this region remains limited. Comprehensive data, particularly molecular information, are essential for supporting sustainable fisheries management. In recent years, molecular approaches such as DNA barcoding have become increasingly important for accurate species identification and resource monitoring. This study aimed to identify commercially significant trevally species in Aceh through DNA barcoding using mitochondrial cytochrome c oxidase subunit I (COI) gene markers. Samples were collected from various fish landing sites across Aceh, including Banda Aceh, Lhokseumawe, Langsa, Meulaboh, Simeulue, and Aceh Singkil. DNA was extracted using a modified CTAB protocol, and COI gene sequences were analyzed using MEGA X software. In total, 20 Carangidae species were successfully identified, belonging to 11 genera, including Alectis ciliaris, Atropus armatus, Atropus hedlandensis, Atropus mentalis, Carangichthys oblongus, Caranx heberi, Caranx ignobilis, Caranx melampygus, Caranx sexfasciatus, Caranx sp., Caranx papuensis, Caranx tille, Decapterus macarellus, Decapterus maruadsi, Ferdauia ferdau, Platycaranx malabaricus, Platycaranx talamparoides, Scyris indica, Selar crumenophthalmus, and Turrum coeruleopinnatum, with a total of 140 sequences identified. Among these, Caranx was the most dominant genus, comprising approximately 35% of the total specimens, followed by Atropus, which accounted for 15%. This study provides a crucial molecular baseline for future conservation, fisheries management, and the detection of cryptic diversity in the region. ©2025 The authors.

Affiliations

Faculty of Marine and Fisheries, Universitas Syiah Kuala, Banda Aceh, 23111, Indonesia; Doctoral Program in Mathematics and Applied Sciences, Graduate School, Universitas Syiah Kuala, Banda Aceh, 23111, Indonesia; Faculty of Agriculture, Universitas Samudra, Langsa, 24354, Indonesia; Institute of Climate Adaptation and Marine Biotechnology, Universiti Malaysia Terengganu, Terengganu, 21300, Malaysia

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