Assessing DNA Barcodes for Identification of Pufferfish Species (Tetraodontidae) in Turkish Marine Waters

Year 2017, Volume: 2 Issue: 3, 55 - 66, 19.12.2017

Cemal Turan , Mevlüt Gürlek Deniz Ergüden Ali Uyan Serpil Karan Servet Ahmet Doğdu

https://doi.org/10.28978/nesciences.369538

Cited By: 9

Abstract

In Turkish marine waters, pufferfish belongs to Tetraondontidae family are represented with 8
species, Lagocephalus lagocephalus, L. sceleratus, L. spadiceus, L. suezensis, L. guentheri,
Sphoeroides pachygaster, Torquigener flavimaculosus and Tylerius spinosissimus. DNA
barcoding can be useful in the assessment of cryptic or morphologically similar species of
identification which is widespread in marine environment. DNA barcode identification of the eight
puffer species of the Tetraodontidae family in Turkish marine waters were examined by using
mtDNA sequencing of the amplified partial mitochondrial cytochrome c oxidase I (COI) gene. COI
contained 189 variable and 337 conservative nucleotides of which 183 were parsimony informative
over 526 bp. Mean genetic diversity all species was found 0.18164. The highest and lowest
nucleotide divergence was observed L.spadiceus (0.0022) and between L. sceleratus, L. suezensis,
L. lagocephalus, L. guentheri and S. pachygaster (0.0000) respectively. The number of detected
different haplotypes were 10 out of 23 sequences, and haplotype diversity was found to be 1.000. 

Keywords

Pufferfish, catch amount, Aegean Sea, Mediterranean Sea, Turkey

References

• Avise, J.C. 1994. Molecular Markers, Natural History and Evolution. Chapman and Hall, New York, USA, 511 pp.
• El-Sayed, M., Yacout, G. A., El-Samra, M., Ali, A., & Kotb, S. M. 2003. Toxicity of the Red Sea pufferfish Pleuranacanthus sceleratus “El-Karad”. Ecotoxicology and environmental safety, 56(3), 367-372.
• Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 39(4), 783-791. Froese, R., & Pauly, D. 2016. FishBase. Worldwide web electronic publication. 2014.
• Hauser, L., Turan, C., Carvalho, G.R. 2001. Haplotype frequency distribution and discriminatory power of two mtDNA fragments in a marine pelagic teleost (Atlantic herring, Clupea harengus). Heredity, 87: 621–630.
• Hebert, P.D.N., Cywinska, A., Ball, S.L., deWaard, J.R. 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society of London B 270: 313–321.
• Matsuura, K. 2015. Taxonomy and systematics of tetraodontiform fishes: a review focusing primarily on progress in the period from 1980 to 2014. Ichthyological Research, 62(1), 72-113.
• Mohindra, V., Singh, R.K., Palanichamy, M., Ponniah, A.G., Lal, K.K. 2007. Genetic identification of three species of the genus Clarias using allozyme and mitochondrial DNA markers. Journal of Applied Ichthyology, 23:104–109.
• Meyer, A. 1993. Evolution of mitochondrial DNA in fishes. In: Biochemistry and Molecular Biology of Fishes. Elsevier Science Publishers, 2: 1-38.
• Nei, M., &Kumar, S. 2000. Molecular evolution and phylogenetics. Oxford university press.
• Oyaizu, M., Fujimoto, Y., Takenaga, F., & Itoh, S. 2000. Fatty acid composition of total lipids in puffer fish meat. Food Preservation Science, 26(6), 333-338.
• Hall, T.A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41: 95-98.
• Farrag, M. M. S. 2014. Fisheries and Biological studies on Lessepsian pufferfish, Lagocephalus sceleratus (Gmelin, 1789) (Family: Tetraodontidae) in the Egyptian Mediterranean waters. Faculty of Sciences Al-Azhar University (Assiut), Egypt.
• Farrag, M., El-Haweet, A. A., and Moustafa, M. A. 2016. Occurrence of puffer fishes (Tetraodontidae) in the eastern Mediterranean, Egyptian coast-filling in the gap. BioInvasions Record, 5(1).
• Keskin, E., & Atar, H. H. 2013. DNA barcoding commercially important fish species of Turkey. Molecular Ecology Resources, 13(5), 788-797.
• Kumar, S., Stecher, G., & Tamura, K. 2016. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Molecular biology and evolution, 33(7), 1870-1874.
• Kimura, M. (1980) A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16: 111-120.
• Kochzius, M., Nölte, M., Weber, H., Silkenbeumer, N., Hjörleifsdottir, S., Hreggvidsson, G. O., Marteinsson, V., Kappel, K., Planes, S., Tinti, F., Magoulas, A., Garcia Vazquez, E., Turan, C., Hervet, C., Campo Falgueras, D., Antoniou, A., Landi, M., Blohm, D. 2008. DNA microarrays for identifying fishes. Marine Biotechnololgy, 10: 207–217.
• Kochzius, M., Seidel, C., Antoniou, A., Botla, S. K., Campo, D., Cariani, A., Vazquez, E. G., Hauschild, J., Hervet, C., Hjörleıfsdottir, S., Hreggvidsson, G., Kappel, K., Landi, M., Magoulas, A., Marteinsson, V., Nölte, M., Planes, S., Tinti, F., Turan, C., Venugopal, M.N., Weber, H. Blohm, D. 2010. Identifying fishes through DNA barcodes and microarrays. PLoS One, 5 (9): 1-15.
• Kress, W.J., Erickson, D.L. 2008. DNA barcodes: Genes, genomics, and bioinformatics. PNAS: 105 (8): 2761–2762.
• Sato, K., Akai, S., Shoji, H., Sugita, N., Yoshida, S., Nagai, Y., Suzuki, K., Nakamura, Y., Kajihara, Y., Funabashi, M., & Yoshimura, J. 2008. Stereoselective and efficient total synthesis of optically active tetrodotoxin from d-glucose.The Journal of Organic Chemistry, 73, 1234–1242.
• Sanger, F., Nicklen, S., Coulson, A.R. 1977. DNA Sequencing with chainterminating inhibitors. Proceedings of the National Academy of Sciences, 74:5463-5467.
• Santini, F., Nguyen, M. T. T., Sorenson, L., Waltzek, T. B., Lynch Alfaro, J. W., Eastman, J. M., & Alfaro, M. E. 2013. Do habitat shifts drive diversification in teleost fishes? An example from the pufferfishes (Tetraodontidae). Journal of Evolutionary Biology, 26(5), 1003-1018.
• Steinke, D., Connell, A. D., & Hebert, P. D. 2016. Linking adults and immatures of South African marine fishes. Genome, 59(11), 959-967.
• Souissi, J. B., Rifi, M., Ghanem, R., Ghozzi, L., Boughedir, W., & Azzurro, E. 2014. Lagocephalus sceleratus (Gmelin, 1789) expands through the African coasts towards the Western Mediterranean Sea: a call for awareness. Management, 5(4), 357-362.
• Tabata, K., Taniguchi, N. 2000. Differences between Pagrus major and Pagrus auratus through mainly mtDNA control region analysis. Fisheries Science, 66: 9-18.
• Thompson, J. D., Higgins, D.G., Gibson, T.J. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22: 4673–4680.
• Turan, C., Erguden, D., Gürlek, M., Yaglioglu, D., & Keskin, Ç. 2007. Atlas and systematics of marine Bony fishes of Turkey. Nobel, Adana, Turkey.
• Turan, C., Gunduz, I, Gurlek, M., Yaglıoglu, D. 2008. Systematics of Scorpaenidae species in the Mediterranean Sea inferred from mitochondrial 16S rDNA sequence and morphological data. Folia Biologica, 57: 219-226.
• Turan, C., Ergüden, D., Çevik, C., Gürlek, M., Turan, F. 2015a. Molecular systematic analysis of shad species (Alosa spp.) from Turkish marine waters using mtDNA genes. Turkish Journal of Fisheries and Aquatic Sciences, 15 (1): 149-155.
• Turan, C., Gurlek, M., Erguden, D., Yaglioglu, D., Ozturk, B., Uyan, A., Reyhaniye, A. N., Ozbalcilar, B., Erdogan, Z. A., Ivanova, P., Soldo, A. 2015b. Population Genetic Analysis of Atlantic Bonito Sarda sarda (Bloch, 1793) using Sequence Analysis of mtDNA D-Loop Region. Fresenius Environmental Bulletin, 45 (3): 231-237.
• Landi, M., Dimech, M., Arculeo, M., Biondo, G., Martins, R., Carneiro, M., Carvalho, G.R., Brutto, S.L., & Costa, F. O. 2014. DNA barcoding for species assignment: the case of Mediterranean marine fishes. PLoS One, 9(9), 1-9.
• Wang, Z. D., Guo, Y. S., Liu, X. M., Fan, Y. B., & Liu, C. W. 2012. DNA barcoding South China Sea fishes. Mitochondrial DNA, 23(5), 405-410.
• Viñas, J., & Tudela, S. 2009. A validated methodology for genetic identification of tuna species (genus Thunnus). PLOS one, 4(10), 1-10.