Genetic identifiability of selected populations of Indian mackerel, Rastrelliger kanagurta (Actinopterygii: Perciformes: Scombridae)—Celfish Project—Part 1

• Autorzy: Kielpinski M. , Kempter J. , Panicz R. , Keszka S.
• Języki publikacji: EN

Abstrakty

EN

Background. Genetic traceability of seafood as well as population identification using molecular methods provide useful information about the fish origin and are important for protection of overfished populations, as well as for monitoring illegal, unreported, and unregulated (IUU) fisheries. The presently reported study focused on Indian mackerel, Rastrelliger kanagurta (Cuvier, 1816)—a pelagic species with a wide range of distribution—especially important for many tropical countries, such as India, Philippines, and Thailand. This paper is the first part of a larger project: ”Development of a genetic-based system for identification of food products from fisheries and aquaculture introduced to the European Union customs area”. Materials and Methods. Samples consisting of fin fragments of Indian mackerel were obtained from local markets in Thailand (MTH), Vietnam (SVN), Cambodia (SKH), and Madagascar (SMG) within 2012–2013. Two genes were analysed: nuclear rhodopsin gene (RH1) and mitochondrial D-loop (D-loop) region through RFLP analysis simulation and sequencing. Additionally, the samples from Cambodia and Madagascar were analysed with eight microsatellite loci (SSR). The data processing was aided by GenAlEx 6.5 and GeneClass2 software. Results. A comparison of the RH1 gene section revealed a total homology among the studied samples. A comparative analysis of D-loop sequences in the studied groups revealed intrapopulational diversity for MTH-, SKH-, SMG-, and SVN samples, at the level of 1, 1, 0.5, and 0.6 percentage points, respectively. Furthermore, the D-loop sequences identified a characteristic restriction site for SMG population. Based on the allele frequencies, we randomly assigned selected individuals to their original populations. GeneClass2 software correctly assigned only 16 out of 21 individuals to either the Cambodian or the Madagascar population, which jointly constituted 76% of all samples. We demonstrated, using AMOVA and GenAlEx 6.5, that the highest level of variability occurred among individuals within the respective populations, while the lowest interpopulation diversity was between the SMG and SKH populations. Conclusion. Our results may help the relevant authorities in the countries of the European Union to identify Indian mackerel and especially its products and trace them to the respective locality. Our findings may also be used for species-specific conservation measures hopefully undertaken by fisheries authorities of the countries where we took our samples. Results on other fish species, prepared in the frames of the same project, will be presented in other papers that will follow soon.

• Wydawca: -
• Czasopismo: Acta Ichthyologica et Piscatoria
• Rocznik: 2014
• Tom: 44
• Numer: 2
• Opis fizyczny: p.145-152,fig.,ref.

Twórcy

autor

Kielpinski M.

• Division of Aquaculture, West Pomeranian University of Technology, ul. Kazimierza Krolewicza 4, 71-550 Szczecin, Poland

autor

Kempter J.

• Division of Aquaculture, West Pomeranian University of Technology, ul. Kazimierza Krolewicza 4, 71-550 Szczecin, Poland

autor

Panicz R.

• Division of Aquaculture, West Pomeranian University of Technology, ul. Kazimierza Krolewicza 4, 71-550 Szczecin, Poland

autor

Keszka S.

• Division of Hydrobiology, Ichthyology, and Biotechnology of Breeding, West Pomeranian University of Technology, Szczecin, Poland

Bibliografia

• Abdussamad E.M., Pillai N.G.K., Kasim H.M., Habeeb Mohamed O.M.M.J., Jeyabalan K. 2010. Fishery, biology and population characteristics of the Indian mackerel, Rastrelliger kanagurta (Cuvier) exploited along the Tuticorin coast. Indian Journal of Fisheries 57 (1): 17–21.
• Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. 1990. Basic local alignment search tool. Journal Molecular Biology 215 (3) 403–410. DOI: 10.1016/S0022-2836(05)80360-2
• Collette B.B. 2001. Scombridae. Pp. 3721–3756. In: Carpenter K.E.,Niem V. (eds.) FAO species identification guide for fishery purposes. The Living Marine Resources of the Western Central Pacific. Vol. 6. Bony fishes part 4 (Labridae to Latimeriidae), estuarine crocodiles, sea turtles, sea Snake and marine mammals. FAO, Rome, Italy.
• Collette B., Di Natale A., Fox W., Juan Jorda M., Nelson R. 2011. Rastrelliger kanagurta. In: IUCN Red List of Threatened Species. Version 2013.2. Downloaded on 14 May 2014. http://www.iucnredlist.org/details/170328/0
• DarlinaM.N.,Masazurah A.R., Jayasankar P., Jamsari A.F.J.,Siti A.M.N. 2011. Morphometric and molecular analysis of mackerel (Rastrelliger spp) from the west coast of Peninsular Malaysia. Genetics and Molecular Research 10 (3): 2078–2092.
• Anonymous 2013. Capture production 1950–2011. In: FishStat Plus—Universal software for fishery statistics time series. Version 2.32. FAO, Rome, Italy. Available at:www.fao.org/fishery/statistics/software/fishstat/en
• Fisher J. (ed.) 2013. Fish identification tools for biodiversity and fisheries assessments. Review and guidance for decision-makers. FAO Fisheries and Aquaculture Technical Paper 585. FAO, Rome, Italy.
• Froese R., Pauly D. (Eds) 2014. FishBase. World Wide Web electronic publication. www.fishbase.org, version (04/2014).
• Ghazali A.F., Zailan Abidin D.H., Nor S.A.M., Naim M.D.2012. Genetic variation of Indian Mackerel (Rastrelliger kanagurta) (Cuvier, 1816) of Sabah waters based on mitochondria D-loop region: A preliminary study. Asian Journal of Biology and Biotechnology 1 (1): e100 (10 pages).
• Gotoh R.O., Tamate S., Yokoyama J., Tamate H.B., Hanzawa N. 2013. Characterization of comparative genome-derived simple sequence repeats for acanthopterygian fishes. Molecular Ecology Resources 13 (3): 461–472.DOI: 10.1111/1755-0998.12070
• Gupta A.C. 2010. A dynamic analysis for investigating the linkages between fish biodiversity and profitability. Pp.235–244. In: Proceedings: International Conference on Applied Economics (ICOAE 2010), 26–28 August 2010,Athens, Greece.
• 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 (1): 95–98.
• Hansen M.M., Kenchington E., Nielsen E.E. 2001. Assigning individual fish to populations using microsatellite DNA markers. Fish and Fisheries 2 (2): 93–112. DOI: 10.1046/j.1467-2960.2001.00043.x
• Imsiridou A., Apostolidis A.P., Durand J.-D., Briolay J., Bouvet Y., Triantaphyllidis C. 1998. Genetic differentiation and phylogenetic relationship among Greek chub Leuciscus cephalus L. (Pisces Cyprinidae) populations as revealed by RFLP analysis of mitochondrial DNA. Biochemical Systematic and Ecology 26 (4): 415–429. DOI: 10.1016/S0305-1978(97)00123-3
• Jayasankar P., Thomas P.C., Paulton M.P., Mathew J. 2004. Morphometric and genetic analyzes of Indian mackerel (Rastrelliger kanagurta) from Peninsular India. Asian Fisheries Science 17 (3): 201–215.
• Mehanna S.F. 2001. Dynamics and management of the Indian mackerel Rastrelliger kanagurta (Cuvier, 1816) in the Gulf of Suez, Egypt. Egyptian Journal of Aquatic Biology and Fisheries 5 (3): 179–194.
• Menezes M.R., Naik S., Martins M. 1993. Genetic divergence in the Indian mackerel Rastrelliger kanagurta (Cuv) from the coastal waters of Peninsular India and the Andaman Sea. Indian Journal of Fisheries 40 (3): 135–141.
• Noble A., Geetha P. 1992. The Indian mackerel Rastrelliger kanagurta (Cuvier) An annotated bibliography. CMFRI Special Publication No. 52, Central Marine Fisheries Institute, Cochin, India.
• Peakall R., Smouse P.E. 2012. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—An update. Bioinformatics 28 (19): 2537–2539. DOI: 10.1093/bioinformatics/bts460
• Piry S., Alapetite A., Cornuet J.-M., Paetkau D., Baudouin L., Estoup A. 2004. GENECLASS2: A software for genetic assignment and first-generation migrant detection. Journal of Heredity 95 (6): 536–539. DOI: 10.1093/jhered/esh074
• Rohit P., Gupta A.C. 2004. Fishery, biology and stock of the Indian mackerel Rastrelliger kanagurta off Mangalore-Malpe in Karnataka, India. Journal of the Marine Biological Association of India 46 (2): 185–191.
• Sevilla R.G., Diez A., Norén M., Mouchel O., Jérôme M., Verrez-Bagnis V., van Pelt H., Favre-Krey L., Krey G.,the Fishtrace Consortium, Bautista J.M. 2007. Primers and polymerase chain reaction conditions for DNA barcoding teleost fish based on the mitochondrial cytochrome b and nuclear rhodopsin genes. Molecular Ecology Notes 7 (5): 730–734. DOI: 10.1111/j.1471-8286.2007.01863.x
• Sivadas M., Radhakrishnan Nair P.N., Balasubramanian K.K.,Bhaskaran M.M. 2006. Length weight relationship, relative condition, size at first maturity and sex ratio of Indian mackerel Rastrelliger kanagurta from Calicut. Journal of the Marine Biological Association of India 48 (2): 274–277.
• Tampubolon G.H., Merta I.G.S. 1987. Mackerel fisheries In the Malacca straits. Pp. 101–116. Investigations on the mackerel and scad resources of the Malacca Straits. Bay of Bengal Programme, Marine Fishery Resources Management BOBP/REP/39 RAS/81/051. FAO, Colombo, Sri Lanka.
• Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Molecular Biology and Evolution 28 (10): 2731–2739. DOI: 10.1093/molbev/msr121
• Vincze T., Posfai J., Roberts R.J. 2003. NEBcutter: a program to cleave DNA with restriction enzymes. Nucleic AIDS Research 31 (13): 3688–3691. DOI: 10.1093/nar/gkg526