Variation and divergence between Snappers (Lutjaninae – Perciformes) of the western south Atlantic: mitochondrial Control Region for diagnosis of fishing pressure or new Barcode for fish?

Authors

DOI:

https://doi.org/10.33448/rsd-v9i9.8320

Keywords:

Control Region, Lutjanidae, Snappers, Western South Atlantic

Abstract

Snappers, as the Lutjanidae are known, are widely distributed across the Western Atlantic, especially species of the genus Lutjanus, the most abundant for this region. They represent important fishing resources, being quite caught by commercial fishing. To the coast of Brazil, Western South Atlantic, the most captured species are L. purpureus, L. analis, L. synagris, O. chrysurus e o L. vivanus. The latter is commonly caught together with snapper L. purpureus.

The objective of the work was to gather data of the Mitochondrial Control Region for these five species in order to discuss aspects of the genetic structure of their populations and test its efficiency as a species-specific marker. We analyzed a region of 390 bp of 5 'portion for 827 snappers, being 107 of the species L. analis, 240 of L. purpureus, 272 of L. synagris, 56 of L. vivanus and 152 of O. chrysurus. We observed different levels of genetic diversity for the five species, in addition to the intense sharing of haplotypes in each, suggesting extensive genetic connectivity to the coast of Brazil. We believe that the different patterns of variation observed are related to the evolutionary history of species, allied with the bioecological peculiarities of each, being a product of historical events. That is why, we believe that CR is quite suitable for detecting loss of diversity resulting from historical population bottlenecks, not suitable for the diagnosis of overfishing. Besides that, we proved its usefulness as a species-specific marker, representing a new Barcode possibility for Lutjanidae.

References

Allen, G. R. (1985). Snappers of the World. An annotated and illustrated catalogue of Lutjanid species known to date. Vol 6 ed. Rome: FAO. 208 p.

Allen, G. R.; White, W. T.; Erdmann, M. V. (2013). Two new species of snappers (Pisces: Lutjanidae: Lutjanus) from the Indo-west Pacific. Journal of the Ocean Science Foundation, 6;33-51.

Atarhouch, T.; Rüber, L.; Gonzalez, E. G.; Albert, E. M.; Rami, M.; Dakkak, A.; Zardoya, R. (2006). Signature of an early genetic bottleneck in a population of Moroccan sardines (Sardina pilchardus). Molecular Phylogenetics and Evolution, 39(2); 373–383.

Bandelt, H. J.; Forster, P.; Röhl, A. (1999). Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution, Chicago, 16/1;37-48.

Brown, K. H. (2008). Fish mitochondrial genomics: sequence, inheritance and functional variation. Journal of Fish Biology, 72/2;355-374.

Cervigón, F. et al. (1993). FAO species identification sheets for fishery purpose. Field Guide to the commercial marine and Brackish-wate resources of the northern coast of south America. Rome: FAO, p. 513.

Cervigón, F. (1993). Los peces marinhos de Venezuela. 2. ed. Caracas, Venezuela: Fundacion Científica Los Roques, v. II.

Chan, J.; Li, W.; Hu, X.; Liu, Y.; Xu, Q. (2016). Genetic diversity and population structure analysis of Qinghai-Tibetan plateau schizothoracine fish (Gymnocypris dobula) based on mtDNA D-loop sequences. Biochemical Systematics and Ecology, 69: 152-160.

Costa, P. A. S., Martins, A. S.; Olavo, G. (2005). Pesca e Potenciais de Exploração de Recursos Vivos na Região Central da Zona Econômica Exclusiva Brasileira. Museu Nacional, Rio de Janeiro. Série Livros, Documentos REVIZEE-Score-Central, 247p.

da Silva, R.; Veneza, I.; Sampaio, I.; Araripe, J. Schneider, H.; Gomes, G. (2015). High levels of genetic connectivity among populations of yellowtail snapper, Ocyurus chrysurus (Lutjanidae - Perciformes), in the Western South Ttlantic revealed through multilocus analysis. PloS One, 13: 1 – 19.

da Silva, R.; Sampaio, I.; Schneider, H.; Gomes, G. (2016). Lack of spatial subdivision for the snapper Lutjanus purpureus (Lutjanidae – Perciformes) from southwest Atlantic based on multi-locus analyses. Plos one. 24: 1 – 17.

da Silva, R.; Pedraza-Marrón, C.; Sampaio, I.; Betancur-R, R.; Gomes, G.; Schneider, H. (2020). New insights about species delimitation in red snappers (Lutjanus purpureus and L. campechanus) using multilocus data. Molecular Phylogenetics and Evolution. V 147/106780.

Darriba, D.; Taboada, GL.; Doallo, R.; Posada, D. (2012). jModelTest 2: more models, new heuristics and parallel computing. Nature Methods, 9:772.

Dias-Junior, E. A. (2012). Estrutura genética populacional de Lutjanus analis – cioba e Lutjanus jocu – dentão (Lutjanidae) ao longo do litoral brasileiro. Programa de Pós-Graduação em Biotecnologia. Universidade Federal do Rio Grande do Norte. UFRN.

Dias-Neto, J.; Dornelles, L.; Drumond, C. (1996). Diagnóstico da pesca marítima do Brasil. Brasília: Ibama.

Evans, R.D. et al. (2010). Strong genetic but not spatial subdivision of two reef fish species targeted by fishers on the great barrier reef. Fisheries Research. 102:16-25.

Excoffier, L.; Lischer, H. E. L. (2010). Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Molecular ecology resources, 10/3:564-567.

Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the

bootstrap. Evolution, 39: 783-791.

Ferreira, B. P. et al. IN: Lessa, R. P.; Nóbrega, M. F.; Bezerra Junior, J. L. (2004). Dinâmica de Populações e Avaliação dos Estoques dos Recursos Pesqueiros da Região Nordeste. REVIZEE (Programa de Avaliação Sustentável dos Recursos Vivos da Zona Econômica Exclusiva do Brasil). Recife, 246p.

Fonteles-Filho, A. A. (1972). Importância do pargo, Lutjanus purpureus Poey, como recurso pesqueiro do Nordeste brasileiro. Equipesca jornal. caderno 8, p.43.

Frankham, R.; Ballou, J. D. Briscoe, D.A. (2008). Fundamentos de Genética da Conservação. Editora: SBG. Ribeirão Preto - São Paulo.

Frédou, T.& Ferreira, B. P. (2005). Bathymetric trends of northeastern Brazilian snappers (Pisces, Lutjanidae): implications for the reef fishery dynamic. Braz. arch. biol. Technol. Vol. 48, n. 5, p. 787 - 800.

Frédou, T.; Ferreira, B. P. (2009). Letourneur, Y. Assessing the stocks of the primary snappers caught in Northeastern Brazilian reef systems. 1: Traditional modelling approaches. Fisheries Research, 99(2), 90–96.

Freitas, A. S.; da Silva, R.; Sampaio, I.; Schneider, H. (2017). The mitochondrial control region reveals genetic structure in Southern kingcroaker populations on the coast of the Southwestern Atlantic. Fisheries Research. 191, p. 87-94.

Fu, Y. X. (1997). Statistical methods of neutrality of mutations against population growth, kitchhiking and background selection. Genetics. 147, 915-925.

Gaither, M. R. (2011). Phylogeography of the reef fish Cephalopholis argus (Epinephelidae) indicates Pleistocene isolation across the indo-pacific barrier with contemporary overlap in the coral triangle. BMC Evolutionary Biologyvolume. 11, Article number: 189.

Garber, A. F. (2001). Utilization of a hypervariable region as a molecular marker for red snapper, Lutjanus campechanus, stock enhancement. M.Sc. Thesis. University of Southern Mississippi, Hattiesburg.

Garber, A. F.; TringalI, M. D.; Stuck, K. C. (2004). Population structure and variation in red snapper (Lutjanus campechanus) from the Gulf of Mexico and Atlantic coast of Florida as determined from mitochondrial DNA control region sequence. Marine Biotechnology. 6, p. 175-185.

Gil, L. A. (2007). PCR-based methods for fish and fishery products authentication. Food Science & Technology. 18, p. 558-566.

Gomes, G.; Sampaio, I.; Schneider, H. (2012). Population structure of Lutjanus purpureus (Lutjanidae - Perciformes) on the Brazilian coast: further existence evidence of a single species of red snapper in the western Atlantic. Anais da Academia Brasileira de Ciências. v. 84, n. 4, p. 979–999.

Gomes, G.; Santos, S.; Vallinoto, M.; Schneider, H.; Orti, G.; Sampaio, I. (2008). Can Lutjanus purpureus (South red snapper) be “legally” considered a red snapper (Lutjanus campechanus)?. Genetics and Molecular Biology, Vol. 31, p. 372 - 376. 2008.

Grant, W. A. S.; Bowen, B. W. (1998). Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. Journal of Heredity. 89(5), p. 415–426.

Guindon, S., et al. (2010). New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol. v. 59, n. 3, p. 307-321.

HalL, T. A. (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nuc. Ac. Symp. Ser. 41:95-98.

Hebert, P. D. N.; Ratnasingham, S.; DE Waard, J. R. (2003). Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Proceedings of the Royal Society B: Biological Sciences, 270.

Henriques, R. et al. (2014). Population connectivity and phylogeography of a coastal fish, Atractoscion aequidens (Sciaenidae), across the Benguela current region: evidence of an ancient vicariant event. Plos One.

IBAMA; Instituto Brasileiro do Meio Ambiente e dos Recursos

Naturais Renováveis. (2000 – 2008). Estatística da pesca no Brasil: Grandes regiões e unidades

da federação. <https://www.ibama.gov.br/phocadownload/ biodiversidade/

biodiversidade-aquatica/gestao-pesqueira/estatistica-pesqueira/2005-ibama-estatisticada-quicultura-e-pesca-no-brasil.pdf>. Acesso em: agosto de 2019.

Karlsson, S.; Saillant, E. Gold, J. R. (2009). Population Structure and Genetic Variation of Lane Snapper (Lutjanus synagris) in the Northern Gulf of Mexico. Marine Biology. 156: 1841 – 1855.

Kimura, M. (1980). A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16, 111e120

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 – 1549.

Lee, W-J; Conroy, J.; Howell, W. H.; Kocher, T. D. (1995). Structure and Evolution of Teleost Mitochondrial Control Regions. J Mol Evol. v. 41, p. 54–66.

Librado, P.; Rozas, J. (2009). DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics, v. 25, n. 11, p. 1451-1452.

Manickchand-Dass, S. (1987). Reprodution, age and growth of the lane snapper, Lutjanus synagris (Linnaeus), in Trinidad, West Indies. Bulletin of Marine Science. 40(1), p. 22-28.

Martins, K. (2018). Filogeografia e Estrutura Genética Populacional do Dentão Lutjanus jocu (Bloch & Schneider, 1801) (Lutjanidae) do Atlântico Ocidental. Dissertação de Mestrado. Universidade Federal do Pará, Campus de Bragança.

Martins, U. R. (1994). A Coleção Taxonômica. In: PAPAVERO, Nelson. (Org). Fundamentos Práticos de Taxonomia Zoológica: Coleções, Bibliografia, Nomenclatura. São Paulo: Editora da Universidade Estadual Paulista, p.19-43.

Menezes, N. A.; Figueiredo, J. L. (1980). Manual de peixes marinhos do Sudeste do Brasil: IV. Teleostei (3). São Paulo: Museu de Zoologia-Universidade de São Paulo, p.96.

Ministério da Pesca e Aquicultura (MPA). Boletim estatístico da pesca e aquicultura Brasil 2008–2009. 2010. Disponível em: http://www.icmbio.gov.br/cepsul/images/stories/biblioteca/download/estatistica/est_2008_2009_nac_pesca.pdf. Acesso em: julho de 2018.

Ministério da Pesca e Aquicultura (MPA). Boletim estatístico da pesca e aquicultura, Brasil 2010. 2012. Disponível em: http://www.uesc.br/cursos/pos_graduacao/mestrado/animal/bibliografia2013/luis_art4_rousseff.pdf. Acesso em: julho de 2018.

Ministério da Pesca e Aquicultura (MPA). Boletim estatístico da pesca e aquicultura, Brasil 2011. 2013. Disponível em: http://www.icmbio.gov.br/cepsul/images/stories/biblioteca/download/estatistica/est_2011_bol__bra.pdf. Acesso em: julho de 2018.

Moura, R. L. & Lindeman, K. C. (2007). A new species of snapper (Perciformes: Lutjanidae) from Brazil, with comments on the distribution of Lutjanus griseus and L. apodus. Zootaxa. v. 1422, p. 31-43.

Nelson, J. S.; Grande, T. C.; Wilson, M. V. H. (2016). Fishes of the world. 5th. ed.

Paithankar, K. R.; Prasad, K. S. (1991). Precipitation of DNA by polyethylene glycol and ethanol. Nucleic acids research, v. 19, n. 6, p. 1346.

Paiva, M. P. (1997). Recursos pesqueiros estuarinos e marinhos do Brasil. UFC. Edições, Fortaleza, 278.

Palmeira, C. A. M.; Rodrigues-Filho, L. F. S.; Sales, J. B. L.; Vallinoto, M.; Schneider, H.; Sampaio, I. (2013). Commercialization of a critically endangered species large tooth sawfish, Pristis perotteti in fish markets of northern Brazil: authenticity by DNA analysis. Food Control, 34, 249-252.

Pedraza-Marrón, et al. (2019). Genomics overrules mitochondrial DNA, siding with morphology on a controversial case of species delimitation. Proceedings of the Royal Society B: Biological Sciences, v. 286, p. 20182924.

Pinheiro, L. A.; Frédou, F. L. (2004). Caracterização geral da pesca industrial desembarcada no estado do Pará. Rev Cien UFPA, v. 4, n. 1, p. 16.

Polovina, J.J.& Ralston, S. (1987). Tropical snappers and groupers: biology and fisheries management. Westview Press, Oceans Resources and Marine., 659 p.

Puillandre, N.; Lambert, A.; Brouillet, S.; Achaz, G. (2012). ABGD, Automatic Barcode Gap Discovery for primary species delimitation. Molecular Ecology. 21, p. 1864-1877.

Qiu, F. et al. (2015). Phylogeography of the inshore fish, Bostrychus sinensis, along the Pacific coastline of China. Molecular Phylogenetics and Evolution.

Quraishia, S. F. et al. (2015). Molecular characterization of Malaysian marine fish species using partial sequence of mitochondrial DNA 12S and 16S rRNA markers. Sains Malaysiana. 44(8), 1119-1123.

Rambaut, A. (2016). Edit. FigTree Version 1.4.3. Disponível em: http://tree.bio.ed.ac.uk/software/figtree/. Acesso em: janeiro de 2018.

Rezende, S. M. (2008). Evolução das capturas, idade, crescimento e recrutamento de espécies de Lutjanidae do nordeste do Brasil. Tese de Doutorado. Universidade Federal de Pernambuco. Programa de Pós-Graduação em Oceanografia.

Rodrigues, R. et al. (2008). Low levels of genetic diversity depicted from mitochondrial DNA sequences in a heavily exploited marine fish (Cynoscion acoupa, Sciaenidae) from the northern coast of Brazil. Genetics and Molecular Biology. 31: 487-492.

Sambrook, J. & RusseL, D. W. (2001). Molecular Cloning: A Laboratory Manual. Vol. 1. 3ª Ed. Cold Spring Habor Laboratory Press. New York. 21p.

Sanger, F. et al. (1977). DNA Sequencing with Chain- Termination Inhibitors. Proceeding of the National Academy of Science of the USA, 74, 5463-5468.

Santos, S. et al. (2006). Population genetic structuring of the king weakfish, Macrodon ancylodon (Sciaenidae), in Atlantic coastal waters of South America: deep genetic divergence without morphological change. Molecular Ecology, v. 15, n. 14, p. 4361-4373.

Shulzitski, K.; Mccartney, M. A.; Burton, M. L. (2009). Population connectivity among Dry Tortugas, Florida, and Caribbean populations of mutton snapper (Lutjanus analis), inferred from multiple microsatellite loci. Fishery Bulletin. 107, p. 501-509.

Silva, D. et al. (2018). Genetic differentiation in populations e lane snapper (Lutjanus synagris – Lutjanidae) from western Atlantic as revealed by multilocus analysis. Fisheries Research.

Silva-Oliveira, G. C. et al. (2008). Genetic characterisation of populations of the critically endangered goliath grouper (Epinephelus itajara, Serranidae) from the Northern Brazilian coast through analyses of mtDNA. Genetic and Molecular Biology. 31. 4. p. 988-994.

Sousa-Júnior, V. B.; Silva, J. R. F.; Salles, R. (2008). Análise ovariana do ariacó, Lutjanus synagris (Actinopterygii: lutjanidae), e considerações sobre sua reprodução no estado do ceará. Arquivos de Ciências do Mar. 41(1).

Souza, R. (2002). Dinâmica Populacional do pargo, Lutjanus purpureus Poey, 1875 (Pisces: Lutjanidae) na Plataforma Norte do Brasil. Dissertação de mestrado. Universidade Federal do Pará.

Stockley, B.; Menezes, G.; Pinho, M. R.; Rogers, A. D. (2005). Genetic population structure in the black-spot sea bream (Pagellus bogaraveo Brünnich, 1768) from the NE Atlantic. Marine Biology. 146(4), 793-804.

Szpilman, M. (2000). Peixes marinhos do Brasil: guia prático de identificação. Rio de Janeiro: Mauad. 288p.

Tajima, F. (1989). Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics. 123: 585–595.

Templeton, A.R. (2006). Population Genetics and Microevolutionary Theory. John Wiley & Sons, Inc, New Jersey.

Thompson, J. D. et al. (1997). The CLUSTALX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research. 24: 4876-4882.

Van Herwerden, L. et al. (2009). A comparison of the population genetics of Lethrinus miniatus and Lutjjanus sebae from the east and west coasts os Australia: Evidence for panmixia and isolation. Fisheries Research. 100, p. 148-155.

Veneza, I. et al. (2019). Multiloci analyses suggest synonymy among Rhomboplites, Ocyurus and Lutjanus and reveal the phylogenetic position of Lutjanus alexandrei (Lutjanidae: Perciformes). Neotropical Ichthyology. 17(1).

Veneza, I. (2019). Filogenia Molecular de Lutjaninae e análise filogeográfica de Lutjanus alexandrei (Lutjanidae - Perciformes) do Atlântico ocidental. Tese de Doutorado. Universidade Federal do Pará. Programa de Pós-Graduação em Biologia Ambiental.

Veneza, I.; da Silva, R.; Sampaio, I.; Schneider, H.; Gomes, G. (2017). Molecular Protocol for authentication of snappers (Lutjanidae - Perciformes) based on multiplex PCR. Food Chemistry.

Veneza, I.; Felipe, B.; Oliveira, J.; Silva, R.; Sampaio, I.; Schneider, H.; Gomes, G. (2014). A barcode for the authentication of the snappers (Lutjanidae) of the western Atlantic: rDNA 5S or mitochondrial COI?. Food Control. 38, p. 116-23.

Von der heyden, S.; Lipinski, M.; Matthee, C. A. (2010). Remarkably low mtDNA control region diversity in an abundant demersal fish. Molecular Phylogenetic and Evolution. 55, p. 1183-1188.

Wang, Z. et al. (2016). Shallow mitochondrial phylogeographycal pattern and high levels os genetic connectivity os Thamnaconus hypargyreus in the south China sea and the east China sea. Biochemical Systematics and Ecology. 67, p. 110-118.

Ward, Robert D. et al. (2005). DNA barcoding Australia's fish species. Philosophical Transactions of the Royal Society B: Biological Sciences, v. 360, n. 1462, p. 1847-1857.

Weir, B. S. & Hill, W. G. (2002). Estimating F-statistics. Annual Review of Genetics, 36: 721-750.

Yang, L. et al. (2014). Species identification through mitochondrial rRNA genetic analysis. Scientific Reports. 4: 4089.

Zhang, J.; Cai, Z.; Huang, L. (2006). Population genetic structure of crimson snapper Lutjanus erythropterus in east Asia, revealed by analysis of the mitochondrial control region. Journal of Marine Science. 63, p. 693-704.

Published

14/09/2020

How to Cite

Evangelista-Gomes, G., Oliveira, J. ., Miranda, J., Lutz, Ítalo, Veneza, I., da Silva, R., Silva, D., Martins, K., & Sampaio, I. (2020). Variation and divergence between Snappers (Lutjaninae – Perciformes) of the western south Atlantic: mitochondrial Control Region for diagnosis of fishing pressure or new Barcode for fish?. Research, Society and Development, 9(9), e977998320. https://doi.org/10.33448/rsd-v9i9.8320

Issue

Section

Agrarian and Biological Sciences