Detection of 16S Mitochondrial Gene Polymorphism on Barb Fish (Barbodes binotatus Valenciennes, 1842) from Lake Lebo Taliwang, West Nusa Tenggara

https://doi.org/10.22146/jfs.54064

Tuty Arisuryanti(1*), Astin Alfianti(2), Nadya Ulfa Nida' Firdaus(3), Lukman Hakim(4)

(1) Laboratory of Genetics and Breeding, Faculty of Biology, Universitas Gadjah Mada, Yogyakarta, Indonesia
(2) Laboratory of Genetics and Breeding, Faculty of Biology, Universitas Gadjah Mada, Yogyakarta, Indonesia
(3) Laboratory of Genetics and Breeding, Faculty of Biology, Universitas Gadjah Mada, Yogyakarta, Indonesia
(4) Laboratory of Genetics and Breeding, Faculty of Biology, Universitas Gadjah Mada, Yogyakarta, Indonesia
(*) Corresponding Author

Abstract


The spotted barb fish (Barbodes binotatus), a tropical cyprinid fish, is one of the abundant fishes in Lake Lebo Taliwang commonly consumed due to high nutrition and utilized as an aquarium trade due to their exotic colour. However, no genetic information related to the intra-population genetic variation of the fish species in Lake Lebo Taliwang. Genetic information of the spotted barb fish can play an important role for the fish conservation. Therefore, the objective of this study was to detect 16S mitochondrial gene polymorphism of the spotted barb fish which can be used to detect their genetic variation. The method used in this study was a PCR method with primers 16Sar and 16Sbr. The data was then analysed using MESQUITE, MEGA, DnaSP and PopART to identify 16S mitochondrial gene polymorphism. This study obtained 610 base pairs after alignment of 16S sequences of all samples. Five haplotypes were detected with 9 variable sites and 2 parsimony informative sites. Haplotype diversity and nucleotide diversity of the spotted barb fish were 1.00 and 0.0066 respectively. In addition, genetic distance among the samples was 0.66. This finding exhibited polymorphism on 16S gene sequence among the fish samples and this data indicated genetic variation of the spotted barb from Lake Lebo Taliwang.

Keywords


Barbodes binotatus; 16S gene; polymorphism

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References

Arisuryanti, T., G.A. Pratama, L. Hakim, J.P. Koentjana & F.K. Nazira. 2019a. Genetic characterization of kissing gourami (Helostoma temminckii Cuvier, 1829) in Ogan River, South Sumatra inferred from 16S rRNA and COI mitochondrial genes. Indones. Fish. Res. J. 25 (1): 37-44

Arisuryanti, T., R.L. Hasan, K.L. Ayu, N. Ratman & L. Hakim. 2019b. Genetic identification of freshwater fish species from Lake Lebo Taliwang, West Nusa Tenggara through DNA barcoding. J. Tropical Biodiversity Biotechnology 4 (3): 107-112

Cawthorn, D.M., H.A. Steinman & R.C. Witthuhn. 2012. Evaluation of the 16S and 12S rRNA genes as universal markers for the identification of commercial fish species in South Africa. Gene 491 (1): 40-48

Fišer Pečnikar, Ž. & E.V. Buzan. 2013. 20 years since the introduction of DNA barcoding: from theory to application. J. Appl. Genet. 55 (1): 43-52

Haryani, G. 2013, Kondisi danau di Indonesia dan strategi pengselolaannya. Prosiding Pertemuan Ilmiah Tahunan Masyarakat Limnologi Indonesia. I: 1-19.

Jahan, H., M. Akter, R.A. Begum & R.Md. Shahijahan. 2017. Identification and comparison of three carp fishes based on mitochondrial 16S rRNA gene. Dhaka Univ. J. Biol. Sci. 26 (2): 167-174

Keat-Chuang, C., P. A. Ooi, W. L. Wong, & G. Khoo. 2018. Ichthyofauna checklist (Chordata: Actinopterygii) for indicating water quality in Kampar River catchment, Malaysia. Biodiversitas 19 (6): 2252-2274

Kottelat, M. 2013. The fishes of the inland waters of Southeast Asia: A catalogue and core bibliography of the fishes known to occur in freshwaters, mangroves and estuaries. Raffles B. Zool. Supplement. 27: 1-663

Kumar, S., G. Stecher & K. Tamura. 2016. MEGA7: molecular evolutionary genetic analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 33 (7): 1870-1874

Leigh, J.W. & D. Bryant. 2015. POPOART: full-feature software for haplotype network construction. Methods Ecol. Evol. 6: 1110-1116

Lim, L.S., W.K. Chor, R.F. Firdaus, L. Malitam, J. Ransangan & R. Shapawi. 2015. Proximate and amino acid compositions of the pond-cultured spotted barb, Puntius binotatus. Malaysian Journal of Science. 34 (2): 168-171

Maddison, W.P. & D.R. Maddison. 2018. Mesquite: A modular system for evolutionary analysis. Version 3.51 (http://www.mesquiteproject.org)

Malakar, A.K., W.S. Lakra, M. Singh, M. Goswami & R.M. Mishra. 2009. Genetic characterization of three Ompok species using mitochondrial DNA sequences. J. Indian Fish Assoc. 36: 65-82

Palumbi, S.R. 1996. Nucleic acids II: The polymerase chain reaction. In: Molecular systematics, (Eds.) D.M. Hillis, C.Moritz, B.K. Mable, Sinauer Associates. Sunderland. Massachusetts. p. 205

RIPED, 2008, Lebo Taliwang, kekayaan flora dan fauna Sumbawa Barat, viewed 27 February 2019, http://konservasi4lebotaliwang.blogspot.com.

Rozas, J., A. Ferrer-Matta, J.C. Sanchez-DelBarrio, S. Guirao-Rico, P. Librado, S.E. Ramos-Onsins & A. Sanchez-Gracia. 2017. DnaSP 6: DNA sequence polymorphism analysis of large datasets. Mol. Biol. Evol. 32 (12): 3299-3302

Saad, Y.M. 2019. Analysis of 16S mitochondrial ribosomal DNA sequence variations and phylogenetic relations among some Serranidae fishes. S. Afr. J. Anim. Sci. 49(1): 80-89

Saad, Y.M., A.K.M. Shaikh Omar & W.M. Gharbawi. 2019. Evaluation of molecular diversity in some Red sea parrotfish species based on mitochondrial 16S ribosomal RNA gene sequence variations. Res. J. Biotechnol. 14 (12): 8-21

Yang, L., T. Zongqing, D. Wang, L. Xue, M. Guan, T. Huang & R. Li. 2013. Species identification through mitochondrial rRNA genetic analysis. Sci. Rep. 14: 1-11



DOI: https://doi.org/10.22146/jfs.54064

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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).

 

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