Kajian Molekuler Ikan Oreochromis spp. dari Perairan Daratan Merauke-Papua, Berdasarkan DNA Mitokondria Fragmen Gen Sitokrom Oksidase Subunit I

https://doi.org/10.22146/jfs.61026

Dandi Saleky(1*), Reny Sianturi(2), Muhammad Dailami(3), Aradea Bujana Kusuma(4)

(1) Departemen Manajemen Sumberdaya Perairan, Fakultas Pertanian, Universitas Musamus Merauke, Merauke, Papua, Indonesia
(2) Departemen Manajemen Sumberdaya Perairan, Fakultas Pertanian, Universitas Musamus Merauke, Merauke, Papua, Indonesia
(3) Program Studi Akuakultur, Fakultas Perikanan dan Ilmu Kelautan, Universitas Brawijaya, Malang, Jawa Timur, Indonesia
(4) Departemen Ilmu Kelautan, Fakultas Perikanan dan Ilmu Kelautan, Universitas Papua, Manokwari, Papua Barat, Indonesia
(*) Corresponding Author

Abstract


Pemanfaatan perikanan secara lestari sangat diperlukan agar sumberdaya perikanan yang ada saat ini bisa terus dimanfaatkan dan juga dalam rangka pemulihan stok perikanan yang telah rusak. Ikan nila (Oreochromis niloticus) dan ikan mujair (Oreochromis mossambicus) secara luas telah dikenal sebagai salah satu spesies ikan air tawar yang penting dalam perikanan budidaya. Penelitian ini dilakukan dengan tujuan identifikasi spesies ikan Oreochromis spp. dari perairan daratan Merauke dengan menggunakan marka gen COI. Amplifikasi DNA dengan gen COI menghasilkan panjang sekuen DNA 656 bp dengan hasil identifikasi adalah O. niloticus dan O. mussambicus dengan tingkat kemiripan 100 % pada masing-masing spesies. Berdasarkan analisis filogenetik dan jarak genetik, sekuen DNA yang dianalisis membentuk clade sesuai dengn hasil indentfikasi dengan jarak genetik 0,000 - 0,002 pada ikan nila dan 0,000 pada ikan mujair. Analisis keragaman genetik ditemukan hanya 1 haplotype dari kedua jenis ikan tersebut. DNA barcode dan filogenetik dapat digunakan dalam mengidentifikasi spesies dalam pengelolaan dan konservasi.


Keywords


Filogenetik; Gen COI; jarak genetik; O. niloticus; O. mossambicus

Full Text:

PDF


References

Abdullah, A & H. Rehbein. 2017. DNA barcoding for the species identification of commercially important fishery products in Indonesian markets. International Journal of Food Science and Technology, 52 (1): 266-274. https://doi.org/10.1111/ijfs.13278

Arifin, O.Z & T. Kurniasih. 2016. Variasi genetik tiga populasi ikan nila (Oreochromis niloticus) berdasarkan polimorfisme mt-DNA. Jurnal Riset Akuakultur. 2 (1): 67. https://doi.org/10.15578/jra.2.1.2007.67-75

Dahruddin, H., A. Hutama, F. Busson, S. Sauri, R. Hanner, P. Keith, R. Hadiaty & N. Hubert. 2017. Revisiting the ichthyodiversity of Java and Bali through DNA barcodes: taxonomic coverage, identification accuracy, cryptic diversity and identification of exotic species. Molecular Ecology Resources. 17 (2): 288-299. https://doi.org/10.1111/1755-0998.12528

Dailami, M., Y. Widyawati & A.H.A. Toha. 2021. Identifikasi genetik ikan teri dari Teluk Cenderawasih dengan pendekatan DNA Barcoding. Musamus Fisheries and Marine Journal. 3 (2): 154-166. https://doi.org/10.35724/mfmj.v3i2.3521

Díaz-Ferguson, E., R. Haney, J. Wares & B. Silliman. 2010. Population genetics of a trochid gastropod broadens picture of caribbean sea connectivity. PLoS ONE, 5 (9): 1-8. https://doi.org/10.1371/journal.pone.0012675

Doğan, İ & N. Doğan. 2016. Genetic distance measures: Review. Turkiye Klinikleri Journal of Biostatistics. 8 (1): 87-93. https://doi.org/10.5336/biostatic.2015-49517

Firmat, C., Alibert, P., Losseau, M., Baroiller, J. F., & Schliewen, U. K. 2013. Successive invasion-mediated interspecific hybridizations and population structure in the endangered cichlid Oreochromis mossambicus. PLoS ONE. 8 (5). https://doi.org/10.1371/journal.pone.0063880

Gabaldón, C., J. Montero-Pau, M. Serra & M.J. Carmona. 2013. Morphological similarity and ecological overlap in two rotifer species. PLoS ONE. 8 (2): 23-25. https://doi.org/10.1371/journal.pone.0057087

Garcia, S.M & A.A. Rosenberg. 2010. Food security and marine capture fisheries: Characteristics, trends, drivers and future perspectives. In Philosophical Transactions of the Royal Society B: Biological Sciences. 365 (1554): 2869-2880. Royal Society. https://doi.org/10.1098/rstb.2010.0171

Gunadi, B., A. Robisalmi & P. Setyawan. 2016. Performa pertumbuhan dan estimasi nilai heterosis juvenil ikan nila (Orochromis niloticus), ikan nila biru (Oreochromis aureus) dan persilangannya yang dipelihara di kolam air tawar. Prosiding Forum Inovasi Tekonologi Akuakultur. 571-577.

Hänfling, B. 2007. Understanding the establishment success of non-indigenous fishes: Lessons from population genetics. Journal of Fish Biology. 71 (SUPPL. D), 115-135. https://doi.org/10.1111/j.1095-8649.2007.01685.x

Hebert, P., A. Cywinska, S. Ball & J. deWaard. 2003. Biological identifications through DNA barcodes. Proc R Soc Lond B Biol Sci, 270.

Hebert, P.D.N., A. Cywinska, S.L. Ball & J.R. DeWaard. 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society B: Biological Sciences. 270 (1512): 313-321. https://doi.org/10.1098/rspb.2002.2218

Jefri, E., N.P. Zamani, B. Subhan & H.H. Madduppa. 2015. Molecular phylogeny inferred from mitochondrial DNA of the grouper epinephelus spp. In Indonesia collected from local fish market. Biodiversitas. 16 (2): 254-263. https://doi.org/10.13057/biodiv/d160221

Kenchington, E.L. 2010. The effects of fishing on species and genetic diversity. Responsible Fisheries in the Marine Ecosystem. 235-253. https://doi.org/10.1079/9780851996332.0235

Khayra, A., Z.A. Muchlisin & M.A. Sarong. 2016. Morfometrik lima spesies ikan yang dominan tertangkap di Danau Aneuk Laot, Kota Sabang. DEPIK Jurnal Ilmu-Ilmu. 5 (2): 57-66. http://jurnal.unsyiah.ac.id/depik/article/view/4907

Kibria, Md.G., Sweety, A.J, Md. S. Islam & Md.S. Alam. 2016. Population genetic structure of the nile tilapia (Oreochromis niloticus) revealed by microsatellite DNA marker analysis. J. Aqua Trop. 29 (1-2): 9-19.

Kumar, S., G. Stecher & K. Tamura. 2016. MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Molecular Biology and Evolution. 33 (7): 1870-1874. https://doi.org/10.1093/molbev/msw054

Kumar, S.V. 2013. Computational analysis of distance and character based phylogenetic tree for capsid proteins of human herpes virus. Journal of Data Mining in Genomics & Proteomics. 4 (02). https://doi.org/10.4172/2153-0602.1000128

Kusuma, A.B., D.G. Bengen, H.H. Madduppa, B. Subhan & D. Arafat. 2016. Keanekaragaman genetik karang lunak Sarcophyton trocheliophorum pada populasi laut Jawa, Nusa Tenggara dan Sulawesi. Jurnal Enggano. 1 (1): 89-96. https://doi.org/10.31186/jenggano.1.1.89-96

Layton, K.K.S., A.L. Martel & P.D. Hebert. 2014. Patterns of DNA barcode variation in canadian marine molluscs. PLoS ONE. 9 (4), e95003. https://doi.org/10.1371/journal.pone.0095003

Leatemia, S.P., A.W. Manumpil, D. Saleky & M. Dailami. 2018. DNA barcode dan molekuler filogeni Turbo sp. di Perairan Manokwari Papua Barat. Prosiding Seminar Nasional MIPA UNIPA. 3 (1): 103-114. https://prosiding.fmipa.unipa.ac.id/index.php/SNMIPAUNIPA/article/view/12

Manel, S., P.E. Guerin, D. Mouillot, S. Blanchet, L. Velez, C. Albouy & L. Pellissier. 2020. Global determinants of freshwater and marine fish genetic diversity. Nature Communications. 11 (1): 1-9. https://doi.org/10.1038/s41467-020-14409-7

Muchlisin, Z.A., Z. Thomy, N. Fadli, M.A. Sarong & M.N.S. Azizah. 2013. DNA barcoding of freshwater fishes from Lake Laut Tawar, Aceh Province, Indonesia. Acta Ichthyologica et Piscatoria. 43 (1): 21-29. https://doi.org/10.3750/AIP2013.43.1.04

Nakkina, M. 2016. Study of growth rate in nile tilapia (Oreochromis niloticus). Journal of Aquaculture Research & Development. 7 (8): 8-11. https://doi.org/10.4172/2155-9546.1000440

Nuryanto, A & D.D. Solihin. 2006. Variasi sekuens gen mitokondrial sitokrom C Oksidase I (COI) dari siput lola (Trochus niloticus). Biosfera. 23 (1): 31-37.

Ordoñez, J.F.F., M.F.H. Ventolero & M.D. Santos. 2017. Maternal mismatches in farmed tilapia strains (Oreochromis spp.) in the Philippines as revealed by mitochondrial COI gene. Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis. 28 (4): 526-535. https://doi.org/10.3109/24701394.2016.1149824

Panprommin, D., K. Soontornprasit, S. Tuncharoen, S. Pithakpol & J. Keereelang. 2019. DNA barcodes for the identification of species diversity in fish from Kwan Phayao, Thailand. Journal of Asia-Pacific Biodiversity. 12 (3): 382-389. https://doi.org/10.1016/j.japb.2019.05.003

Pantow, J.G.L., S. Suhaeni & M. Wasak. 2017. Analisis usaha budidaya ikan nila pada CV Tiga Mas di Desa Talawaan Kecamatan Talawaan Kabupaten Minahasa Utara. AkulturasI (Jurnal Ilmiah Agrobisnis Perikanan). 5 (9). https://doi.org/10.35800/akulturasi.5.9.2017.16979

Pardi, F., O.Gascuel, F. Pardi & O. Gascuel. 2016. Distance-based methods in phylogenetics To cite this version : Encyclopedia of Evolutionary Biology. 458-465.

Purnamasari, L., A. Farajallah & D. Wowor. 2016. Application of DNA barcode in determination of shrimp species of fresh water from the Province of Jambi. Biocencetta. 2 (1): 50-59.

Rumanta, M., R.M. Kunda, S.D. Volkandari, I. Indriawati & P. Kakisina. 2020. Genetic characterization and phylogenetic study of Lakor goat from Southwest maluku regency based on mitochondrial COI gene. Veterinary World. 13 (6): 1209-1220. https://doi.org/10.14202/vetworld.2020.1209-1220

Saleky, D., S.P.O. Leatemia, T.F. Pattiasina, I. Isma, R.D. Pangaribuan, M.A. Welliken, E.H.P. Melmambessy & M. Dailami. 2020. Analisis pola pertumbuhan dan pendekatan DNA barcoding untuk identifikasi Turbo stenogyrus P. Fischer, 1873 (Mollusca: Gastropoda). Biotropika - Journal of Tropical Biology. 8 (2): 79-86. https://doi.org/10.21776/ub.biotropika.2020.008.02.03

Sun, S., Q. Li, L. Kong, H. Yu, X. Zheng, R. Yu, L. Dai, Y. Sun, J. Chen, J. Liu, L. Ni, Y. Feng, Z. Yu, S. Zou & J. Lin. 2016. DNA barcoding reveal patterns of species diversity among northwestern Pacific molluscs. Scientific Reports, 6(August), 1–17. https://doi.org/10.1038/srep33367

Suriana, S., M. Marwansyah & A. Amirullah, A. 2019. Karakteristik segmen gen sitokrom C oksidase subunit I (COI) ngengat Plusia chalcites (Lepidoptera: Noctuidae). BioWallacea : Jurnal Penelitian Biologi (Journal of Biological Research). 6 (2): 985. https://doi.org/10.33772/biowallacea.v6i2.8824

Walsh, P.S., D.A. Metzger & R. Higuchi. 2018. Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. BioTechniques. 54 (3): 506-513. https://doi.org/10.2144/000114018

Ward, R.D. 2000. Genetics in fisheries management. Hydrobiologia. 420 (1): 191-201. https://doi.org/10.1023/A:1003928327503

Ward, R., T. Zemlak, B. Innes, P. Last & P. Hebert. 2005. DNA barcoding Australia & apos. Philos Trans R Soc Lond B, 360.

Wargasasmita, S. 2005. Ancaman invasi ikan asing terhadap keanekaragaman ikan asli. Jurnal Iktiologi Indonesia. 5 (1): 510.

Wibowo, A., R. Affandi, K. Soewardi & S. Sudarto. 2010. Genetic differentiation of the kampar river’s giant featherback (Chitala Lopis Bleeker 1851) Base on mitochondrial DNA analysis. Lnd.Fish Res.J. 16 (2): 49-58.

Yustysi, D.P., F. Basuki, T. Susilowati & T. Yuniarti. 2016. Analisis karakter reproduksi dan performa benih hibrid ikan nila pandu f6 dengan ikan nila nilasa (Oreochromis niloticus). T Indonesian Journal of Fisheries Science and Technology. 12 (1): 19-23.

Zemlak, T.S., R.D. Ward, A.D. Connell, B.H. Holmes & P.D.N. Hebert. 2009. DNA barcoding reveals overlooked marine fishes. Molecular Ecology Resources. 9 (SUPPL. 1), 237–242. https://doi.org/10.1111/j.1755-0998.2009.02649.



DOI: https://doi.org/10.22146/jfs.61026

Article Metrics

Abstract views : 5054 | views : 27465

Refbacks

  • There are currently no refbacks.




Copyright (c) 2021 Jurnal Perikanan Universitas Gadjah Mada

Creative Commons License
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.

Jurnal Perikanan Universitas Gadjah Mada (print ISSN 0853-6384; online ISSN 2502-5066) is published by Department of Fisheries, Universitas Gadjah Mada in collaboration with Semnaskan UGM (Seminar Nasional Tahunan Hasil Perikanan dan Kelautan) and ISMFR (International Symposium on Marine and Fisheries Research).

 

View My Stats