Genetic Identification of Nilem Fish using the DNA Barcoding Approach

Muhammad Dailami; Ating Yuniarti; Maheno Sri Widodo; Rakhmad Ndaru Pratama; Destia Fitri Ariyani; Marthin Daniel Theo Gratia Siahaan; Antajala Rian Maulana; Surya Dewa Ramadhan; Radwa Fathin H Putri; Shinta Eka Nurcahyani; Sindi Milansari; Corazon Ell Merilia Papuani Mayor

doi:10.64283/jotdiverse.2025.1(1):3

Authors

Muhammad Dailami Program Studi Budidaya Perairan, Departemen Manajemen Sumberdaya Perikanan dan Kelautan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jl. Veteran, Ketawanggede, Lowokwaru, Malang, Jawa Timur, 65145, Indonesia
Ating Yuniarti Program Studi Budidaya Perairan, Departemen Manajemen Sumberdaya Perikanan dan Kelautan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jl. Veteran, Ketawanggede, Lowokwaru, Malang, Jawa Timur, 65145, Indonesia
Maheno Sri Widodo Program Studi Budidaya Perairan, Departemen Manajemen Sumberdaya Perikanan dan Kelautan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jl. Veteran, Ketawanggede, Lowokwaru, Malang, Jawa Timur, 65145, Indonesia
Rakhmad Ndaru Pratama Program Studi Budidaya Perairan, Departemen Manajemen Sumberdaya Perikanan dan Kelautan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jl. Veteran, Ketawanggede, Lowokwaru, Malang, Jawa Timur, 65145, Indonesia
Destia Fitri Ariyani Program Studi Budidaya Perairan, Departemen Manajemen Sumberdaya Perikanan dan Kelautan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jl. Veteran, Ketawanggede, Lowokwaru, Malang, Jawa Timur, 65145, Indonesia
Marthin Daniel Theo Gratia Siahaan Program Studi Budidaya Perairan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jalan Veteran, Malang, Jawa Timur, 65145, Indonesia
Antajala Rian Maulana Program Studi Budidaya Perairan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jalan Veteran, Malang, Jawa Timur, 65145, Indonesia
Surya Dewa Ramadhan Program Studi Budidaya Perairan, Departemen Manajemen Sumberdaya Perikanan dan Kelautan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Jl. Veteran, Ketawanggede, Lowokwaru, Malang, Jawa Timur, 65145, Indonesia
Radwa Fathin H Putri Program Studi Kimia, Fakultas Matematika dan Ilmu Pengetahuan Alam, Universitas Brawijaya, Jalan Veteran, Malang, Jawa Timur, 65145, Indonesia
Shinta Eka Nurcahyani Program Studi Manajemen Sumberdaya Perairan, Jurusan Perikanan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Papua, Jl. Gunung Salju, Amban, Manokwari, Papua Barat, 98314, Indonesia
Sindi Milansari Program Studi Manajemen Sumberdaya Perairan, Jurusan Perikanan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Papua, Jl. Gunung Salju, Amban, Manokwari, Papua Barat, 98314, Indonesia
Corazon Ell Merilia Papuani Mayor Program Studi Sumberdaya Akuatik, Program Pascasarajan, Universitas Papua, Jl. Gunung Salju, Amban, Manokwari, Papua Barat, 98314, Indonesia

DOI:

https://doi.org/10.64283/jotdiverse.2025.1(1):3

Keywords:

Cytochrome Oxidase 1 (COI) gene, DNA Barcoding, Nilem Fish

Abstract

Nilem fish (Osteochilus vittatus) is a species of freshwater fish from the Cyprinidae family which has ecological and economic importance in Indonesia, with its natural habitat in rivers, swamps and stagnant waters. Accurate species identification is very important in biological research and fisheries resource management, but morphological identification methods have several limitations. DNA barcoding is a revolutionary molecular technique that uses short DNA sequences to identify and differentiate species with high accuracy. The use of DNA barcoding in identifying freshwater fish in Indonesia has shown significant development, including in a comprehensive study documenting 1,172 native freshwater fish species. The research "Genetic Identification of Nilem Fish using the DNA Barcoding Approach" aims to characterize the genetics of nilem fish, compare the genetic profiles of various populations, and evaluate the effectiveness of DNA barcoding in distinguishing nilem fish from other Osteochilus species, with the hope of contributing to fish conservation and sustainable management efforts nilem in Indonesia. The DNA sequencing results obtained a sequence with a length of 619 base pairs with the composition of Nucleotides A (27.2%), G (17.6%), C (26.4%), T (28.8%). The BLAST results with the NCBI database showed a similarity of 99.84% with the O. vittatus sequence and 99.83% with O. hasseltii. Both species are synonyms with the official name O. vittatus. Phylogenetic analysis is also in line with the BLAST results which show that the sample sequence is in the same clade as the O. vittatus and O. hasseltii sequences. Identification with molecular markers of the COI gene was successfully used in determining the species of the Nilem fish (O. vittatus).

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