Identification and phylogenetic inferences on stocks of sharks affected by the fishing industry off the Northern coast of Brazil

Genetics and Molecular Biology

Volumn 32, Issue 2, 2009, Pages 405-413

  da Silva Rodrigues Filho, Luis Fernando ^a   da Rocha, Tainá Carreira ^a   do Rêgo, Péricles Sena ^a,b   Schneider, Horacio ^a   Sampaio, Iracilda ^a   Vallinoto, Marcelo ^a,c  

^a FEDERAL UNIVERSITY OF PARÁ   (Brazil)

^b UNIVERSIDADE ESTADUAL DO MARANHÃO   (Brazil)

^c CENTRO DE INVESTIGAÇÃO EM BIODIVERSIDADE E RECURSOS GENÉTICOS   (Portugal)

Author keywords

Conservation; Molecular identification; mtDNA; Phylogenetic; Sharks

Indexed keywords

DNA; RNA 12S; RNA 16S;

ANIMAL TISSUE; ARTICLE; BRAZIL; CARCHARHINUS POROSUS; CONTROLLED STUDY; DAGGERNOSE SHARK; DNA SEQUENCE; ENVIRONMENTAL EXPLOITATION; FISH STOCK; GENETIC MARKER; GENETIC VARIABILITY; ISOGOMPHODON OXYRHYNCUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; RHIZOPRIONODON; SEQUENCE ANALYSIS; SHARK; SPECIES DIVERSITY; SPECIES IDENTIFICATION;

CARCHARHINUS POROSUS; CHONDRICHTHYES; ELASMOBRANCHII; ISOGOMPHODON; ISOGOMPHODON OXYRHYNCHUS; RHIZOPRIONODON;

EID: 66649119169     PISSN: 14154757     EISSN: 16784685     Source Type: Journal    
DOI: 10.1590/s1415-47572009005000039     Document Type: Article

References (44)

1. Abercrombie DL, Clarke SC and Shivji MS (2005) Global-scale genetic identification of hammerhead sharks: Application to assessment of the international fin trade and law enforcement. Conserv Genet 6:775-788.
2. Baum JK, Myers RA, Kehler DG, Worm B, Harley SJ and Doherty PA (2003) Collapse and conservation of shark populations in the northwest Atlantic. Science 299:389-392.
3. Baum JK and Myers RA (2004) Shifting baselines and the decline of pelagic sharks in the Gulf of Mexico. Ecol Lett 7:135-145.
4. Camhi M, Fowler S, Musick J and Bräutigan FS (1998) Sharks & their relatives. Ecology and Conservation. IUCN/SSC Shark Specialist Group. IUCN, Gland, and Cambridge, 39 pp.
5. Castro JI (1993) A Field Guide to the Sharks Commonly Caught in Commercial Fisheries of the Southeastern United States. NOAA Technical Memorandum NMFS-SEFSC-338. National Oceanic and Atmospheric Administration, Miami, 47 pp.
6. Clarke SC, Magnussen JE, Abercrombie DL, Mcallister MD and Shivji MS (2006a) Identification of shark species composition and proportion in the Hong Kong shark fin market based on molecular genetics and trade records. Conserv Biol 20:201-211.
7. Clarke SC, McAllister MK, Milner-Gulland EJ, Kirkwood GP, Michielsens CGJ, Agnew DJ, Pikitch EK, Nakano H and Shivji MS (2006b) Global estimates of shark catches using trade records from commercial markets. Ecol Lett 9:1115-1126.
8. Chan RWK, Dixon PI, Pepperell JGD and Reid D (2003) Application of DNA-based techniques for the identification of whaler sharks (Carcharhinus spp) caught in protective beach meshing and by recreational fisheries off the coast of New South Wales. Fish Bull 101:910-914.
9. Coelho R and Erzini K (2008) Identification of deep water lantern sharks (Chondrichthyes, Etmopteridae) using morphometric data and multivariate analysis. J Mar Biol Assoc UK 88:199-204.
10. Compagno LJV (1984) FAO species catalogue. v. 4. Sharks of the world. An annotated and illustrated catalogue of shark species known to date. Part 2. Carcharhiniformes. FAO Fish Synop 4:251-655.
11. Cortés E (2002) Stock assessment of small coastal sharks in the U.S. Atlantic and Gulf of Mexico. Conserv Biol 16:1048-1062.
12. Douady CJ, Dosay M, Shivji MS and Stanhope MJ (2003) Molecular phylogenetic evidence refuting the hypothesis of Batoidea (rays and skates) as derived sharks. Mol Phylogenet Evol 26:215-221.
13. Dulvy NK, Sadovy Y and Reynolds JD (2003) Extinction vulnerability in marine populations. Fish Fish 4:25-64.
14. Fundação PROZEE (2006) Relatório Final do Projeto de Monitoramento da Atividade Pesqueira no Litoral do Brasil - Projeto Estatpesca. SEAP, Brasilia, 328 pp.
15. FAO (Food and Agriculture Organization) (2000) Conservation and Management of Sharks. FAO Tech Guide Resp Fish 4:1-37.
16. Greig TW, Moore MK, Woodley CM and Quattro JM (2005) Mitochondrial gene sequences useful for species identification of western North Atlantic Ocean sharks. Fish Bull 103:516-523.
17. Hall TA (1999) BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95-98.
18. Heist EJ and Gold JR (1999) Genetic identification of sharks in the U.S. Atlantic large coastal shark fishery. Fish Bull 97:53-61.
19. Hoelzel AR (2001) Shark fishing in fin soup. Conserv Genet 2:69-72.
20. Hoenig JM and Gruber SH (1990) Life-history patterns in the elasmobranchs: Implications for fisheries management. In: Pratt HL and Gruber SH (eds) Elasmobranchs as Living Resources: Advances in the Biology, Ecology, Systematics, and the Status of the Fisheries. Proceedings of the Second United States-Japan Workshop East-West Center, Honolulu, pp 1-16.
21. Iglésias SP, Lecointre G and Sellos DY (2005) Extensive paraphylies within sharks of the order Carcharhiniformes inferred from nuclear and mitochondrial genes. Mol Phylogenet Evol 34:569-583.
22. Lessa R and Santana FM (1998) Age determination and growth of the smalltail shark, Carcharhinus porosus, from northern Brazil. Mar Freshw Res 49:705-711.
23. Magnussen JE, Pikitch EK, Clarke SC, Nicholson C, Hoelzel AR and Shivji MS (2007) Genetic tracking of basking shark products in international trade. Anim Conserv 10:199-207.
24. Myers RA, Baum JK, Shepherd TD, Powers SP and Peterson CH (2007) Cascading effects of the loss of apex predatory sharks from a coastal ocean. Science 315:1846-1850.
25. Paiva MP (1997) Recursos Pesqueiros Estuarinos e Marinhos do Brasil. Edições UFC, Fortaleza, 286 pp.
26. Pank M, Stanhope M, Natanson L, Kohler N and Shivji M (2001) Rapid and simultaneous identification of body parts from the morphologically similar sharks Carcharhinus obscurus and Carcharhinus plumbeus (Carcharhinidae) using multiplex PCR. Mar Biotechnol 3:231-240.
27. Pinhal D, Gadig OBF, Wasko AP, Oliveira C, Ron E, Foresti F and Martins C (2008) Discrimination of Shark species by simple PCR of 5S rDNA repeats. Genet Mol Biol 31:361-365.
28. Quattro JM, Stone DS, Driggers WB, Anderson CA, Priede KA, Hoppmann EC, Campbell NH, Duncan KM and Grady JM (2006) Genetic evidence of cryptic speciation within hammerhead sharks (Genus Sphyrna). Mar Biol 148:1143-1155.
29. Rambaut A and Drummond AJ (2004) Tracer, v. 1.1. University of Oxford, Oxford.
30. Ronquist F and Huelsenbeck JP (2003) MrBayes 3: Bayesian inference of phylogenetic trees. Bioinformatics 19:1572-1574.
31. Sambrook J, Fritsch EF and Maniatis T (1989) Molecular Cloning: A Laboratory Manual. 2nd edition. Cold Spring Harbor Laboratory Press, New York, pp 1453.
32. Sanger F, Nichlen S and Coulson AR (1977) DNA sequencing with chain-termination inhibitors. Proc Natl Acad Sci USA 74:5463-5468.
33. Schneider H (2007) Métodos de Análise Filogenética: Um Guia Prático. Holos Editora e Sociedade Brasileira de Genética, Riberão Preto, pp 144.
34. Shepherd TD and Myers RA (2005) Direct and indirect fishery effects on small coastal elasmobranchs in the northern Gulf of Mexico. Ecol Lett 8:1095-1104.
35. Shivji MS, Clarke S, Pank M, Natanson L, Kohler N and Stanhope M (2002) Genetic identification of pelagic shark body parts for conservation and trade monitoring. Conserv Biol 16:1036-1047.
36. Shivji MS, Chapman DD, Pikitch EK and Raymond PW (2005) Genetic profiling reveals illegal international trade in fins of the great white shark, Carcharodon carcharias. Conserv Genet 6:1035-1039.
37. Stevens JD and Wayte SE (1998) A review of Australia's pelagic shark resources. FRDC Project n. 98/107. Fisheries Research and Development Corporation, Canberra, 64 pp.
38. Stevens JD, Bonfil R, Dulvy NK and Walker PA (2000) The effects of fishing on sharks, rays, and chimaeras (Chondrichthyans) and the implications for marine ecosystems. ICES J Mar Sci 57:476-494.
39. Szpilman M (2004) Tubarões no Brasil: Guia Prático de Identificação. Editora Aqualittera, Rio de Janeiro, 160 pp.
40. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin J and Higgins DG (1997) The clustal- windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:76-4882.
41. Valenzuela A, Bustamante C and Lamilla J (2008) Morphological characteristics of five bycatch sharks caught by southern Chilean demersal longline fisheries. Sci Mar 72:231-237.
42. Xia X and Xie Z (2001) DAMBE: Data analysis in molecular biology and evolution. J Hered 92:371-373.
43. Ward RD (2000) Genetics in fisheries management. Hydrobiologia 420:191-201.
44. Ward RD, Holmes BH, William TW and Last PR (2008) DNA barcoding Australasian chondrichthyans: Results and potential uses in conservation. Mar Freshw Res 59:57-71.