Kajian Molekuler Ikan Sembilang (Neosilurus sp.) di Perairan Rawa Padi Kabupaten Merauke

Dandi Saleky, Meyani Anjelita Siruru, Sunarni Sunarni, Rosa Delima Pangaribuan

Abstract


Sembilang is one of the fish that is abundant in Merauke mainland waters. Genetic research needs to be done to prevent the decline of catfish population. DNA barcoding is a taxonomic method that uses short genetic markers in an organism's DNA to identify species. This research aims to identify the Sembilang fish species using the Cytochrome Oxidase I gene. This study is an exploratory survey research. Sample collection was carried out in the waters of Padi Swamp, Merauke Regency. The mitochondrial cytochrome oxidase I (COI) gene was amplified using the Polymerase Chain Reaction (PCR) method with FISH-BCL and FISH-BCH primers. The results of analysis using DNA barcoding revealed that the samples collected were the Sembilang species (Neosilurus ater) with a DNA sequence length of 660 bp. Phylogenetic reconstruction using the Neighbor-Joining method with the 2-Parameter Kimura Model shows sequence grouping based on similarity and genetic distance between species.


Keywords


sembilang, DNA barcoding, phylogenetic, molecular studies

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References


Achmad M. J., Subur R., Supyan, & Akbar N., (2020) DNA Barcode and phylogenetics of green humphead parrotfish (Bolbometopon muricatum) in North Maluku waters. AACL Bioflux 13(5):2779-2787.

Akbar, N., Labenua, R. (2020). Struktur genetik populasi ikan cakalang, Katsuwonus pelamis (Linneaus, 1758) di Perairan Laut Maluku Utara, Indonesia. Jurnal Ilmu dan Teknologi Kelautan Tropis, 12(2), 409–421. https://doi.org/10.29244/jitkt.v12i2.24274

Asriyana, A., & Halili, H. (2021). Aspek Biologi Plotosus canius (Plotosidae: Siluriformes) di Perairan Teluk Kolono, Sulawesi Tenggara. Saintek Perikanan: Indonesian Journal of Fisheries Science and Technology, 17(1), 74-80.

Dawan J, Ahn J. Application of DNA barcoding for ensuring food safety and quality. Food Sci Biotechnol. 2022 Jul 27;31(11):1355-1364. doi: 10.1007/s10068-022-01143-7. PMID: 36060568; PMCID: PMC9433498.

Dewanti, Y. R., Irwani, & Rejeki, S. (2012). Studi reproduksi dan morfometri ikan sembilang (Plotosus canius) betina yang didaratkan di pengepul wilayah Krobokan Semarang. Journal Of Marine Research, 1(2), 135–144.

Galan, G. L., Mendez, N. P., & Cruz, R. Y. Dela. (2018). DNA bacoding of three selected gastropod species using cytochrome oxidase (COI) gene. Annals of West University of Timisoara, Ser. Biology, 21(1), 93–102.

Gao, Z., Liu, Y., Wang, X., Wei, X., & Han, J. (2019). DNA Mini-Barcoding: A Derived Barcoding Method for Herbal Molecular Identification. Frontiers in Plant Science, 10(August). https://doi.org/10.3389/fpls.2019.00987

Hakim, A.A., Rahayu, E.S., Mashar, A., Butet, N.A., Wardiatno, Y., Kamal, M.K., (2023). DNA barcoding untuk validasi spesies paus sperma (Physeter macrocephalus Linnaeus, 1758) dari Perairan Laut Sawu, Nusa Tenggara Timur, Indonesia. COJ (Coastal And Ocean Journal), 7(Juni): 52 – 61.

Hasan, U., & Afriani, D. W. I. T. (2019). Edu Science di Sungai Belawan The Size Class And Sex Ratio Black Eeltail Catfish (Plotosus canius). In The Belawan River Edu Science. 6(1), 26–30.

Heirina, A. (2022). Heirina Literature Review: Ekobiologi Ikan Sembilang (Plotosus sp.). Jurnal Perikanan Darat dan Pesisir (JPDP), 3(1): 1-7.

Jefri, E., Neviaty, P, Z., Beginer, S., Hawis, H. M. (2015). Molecular phylogeny inferred from mitochondrial DNA of the grouper Epinephelus spp. In Indonesia collected from local fish market. Biodiversitas. 16 (2): 254-263.

Kumar, S., Stecher, G., Li, M., Knyaz, C., & Tamura, K. (2018). MEGA X: molecular evolutionary genetics analysis across computing platforms. Molecular biology and evolution, 35(6), 1547.

Kundu, S., Pakrashi, A., Laskar, B. A., Rahaman, I., Tyagi, K., Kumar, V., & Chandra, K. (2019). DNA barcoding reveals distinct population of Plotosus canius (Siluriformes: Plotosidae) in Sundarbans waters. Mitochondrial DNA Part B, 4(1), 1167-1171.

Kusuma, A. B., Bengen, D. G., Madduppa, H., Subhan, B., & Arafat, D. (2016). Keanekaragaman genetik karang lunak Sarcophyton trocheliophorum pada populasi laut jawa. Nusa tenggara dan Sulawesi. Jurnal Enggano, 1(1), 89-96.

Lakra, W.S., Singh, M., Goswami A., Gopalakrishnan, A, Lal.K., Mohindra, Sarkar, V.U.K., Punia, P.P , Singh, K.V., Bhatt, J.P, Ayyappan, S., (2016). Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis. Taylor & Francis: 27.6 : 4510-4517.

Lestari, Dewi Ayu, Rodiyati Azrianingsih.,& H. Hendrian. (2018). “Filogenetik Jenis-Jenis Annonaceae Dari Jawa Timur Koleksi Kebun Raya Purwodadi Berdasarkan Coding dan Non-Coding Sekuen DNA.” Journal of Tropical Biodiversity and Biotechnology 3(1): 1.

Madduppa, H., Taurusman, A. A., Subhan, B., Anggraini, N. P., Fadillah, R., & Tarman, K. (2017). Short communication: Dna barcoding reveals vulnerable and not evaluated species of sea cucumbers (Holothuroidea and Stichopodidae) from Kepulauan Seribu reefs, Indonesia. Biodiversitas, 18(3), 893–898. https://doi.org/10.13057/biodiv/d180305.

Muharam, D., & Riani, E. (2021). Biologi Reproduksi Ikan Sembilang (Plotosus canius) di Perairan Pantai Majekarta, Indramayu, Jawa Barat.

Prehadi, P., Sembiring, A., Kurniasih, E. M., Rahmad, R., Arafat, D., Subhan, B., & Madduppa, H. H. (2015). DNA barcoding and phylogenetic reconstruction of shark species landed in Muncar fisheries landing site in comparison with Southern Java fishing port. Biodiversitas Journal of Biological Diversity, 16(1).

Purty, R., Chatterjee, S. (2016). DNA Barcoding: An Effective Technique in Molecular Taxonomy. Austin J Biotechnol Bioeng, 3(3), 1059–1.

Saleky, D., Setyobudiandi, I., Toha, H. A., Takdir, M., & Madduppa, H. H. (2016). Length-weight relationship and population genetic of two marine gastropods species (Turbinidae: Turbo sparverius and Turbo bruneus) in the Bird Seascape Papua, Indonesia. Biodiversitas Journal of Biological Diversity, 17(1).

Saleky, D., Sianturi, R., Dailami, M., & Kusuma, A. B. (2021). Kajian Molekuler Ikan Oreochromis spp. dari Perairan Daratan Merauke-Papua, Berdasarkan DNA Mitokondria Fragmen Gen Sitokrom Oksidase Subunit I. Jurnal Perikanan Universitas Gadjah Mada, 23(1), 37-43.

Saleky, D., & Merly, S. L. (2021). Molekuler Filogenetik Cerithidea anticipata (Iredale, 1929) (Molluska: Gastropoda). PLATAX, 9(1), 9–17.

Saleky, D., & Dailami, M. (2021). Konservasi Genetik Ikan Kakap Putih (Lates calcarifer, Bloch, 1790) Melalui Pendekatan DNA Barcoding dan Analisis Filogenetik di Sungai Kumbe Merauke Papua. Jurnal Kelautan Tropis, 24(2), 141-150. https://doi.org/10.14710/jkt.v24i2.10760

Samani, N. K., Esa, Y., Amin, S. N., & Ikhsan, N. F. M. (2016). Phylogenetics and population genetics of Plotosus canius (Siluriformes: Plotosidae) from Malaysian coastal waters. PeerJ, 4, e1930.

Setiamarga, D. H. E., Nakaji, N., Iwamoto, S., Teruya, S., & Sasaki, T. (2019). Dna barcoding study of shelled gastropods in the intertidal rocky coasts of central Wakayama Prefecture, Japan, using two gene markers. International Journal of GEOMATE, 17(62), 9–16. https://doi.org/10.21660/2019.62.4521

Sianturi, R., Muhammad, D., Dandi, S., (2021). Identifikasi dan Analisis Filogenetik Ikan Ekonomis Penting Oreochromis sp. dengan Pendekatan DNA Barcoding. Bioscientist : Jurnal Ilmiah Biologi. 9 (2); 465-476.

Yulianto, T., Atmadja, W. K., Zulpikar, Z., Ariska, R., & Suryanti, A. (2020). Pola pertumbuhan dan faktor kondisi ikan sembilang (Potosus canius) di Teluk Bintan Kepulauan Riau. Depik, 9(3), 452-456.

Zhang, J. B., & Hanner, R. (2011). DNA barcoding is a useful tool for the identification of marine fishes from Japan. Biochemical Systematics and Ecology, 39(1), 31-42.




DOI: https://doi.org/10.33394/bioscientist.v12i2.13387

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