Mitochondrial DNA and microsatellite genetic differentiation in the European anchovy Engraulis encrasicolus L.

ICES Journal of Marine Science

Volumn 69, Issue 8, 2012, Pages 1357-1371

  Borrell, Yaisel J ^a   Piñera, Jorge A ^a   Sánchez Prado, José A ^a   Blanco, Gloria ^a  

^a DEPARTAMENTO DE BIOQUÍMICA Y BIOLOGÍA MOLECULAR   (Spain)

Author keywords

anchovies; clades; genetic differentiation; microsatellite markers; mitochondrial DNA; multiplex PCR

Indexed keywords

CLUPEOID; CYTOCHROME; DIVERGENCE; FISHING INDUSTRY; GENETIC DIFFERENTIATION; GENETIC MARKER; HOMOGENEITY; MITOCHONDRIAL DNA; OVERFISHING; POLYMERASE CHAIN REACTION;

ADRIATIC SEA; ATLANTIC OCEAN; BASQUE COUNTRY; BAY OF BISCAY; CANTABRIAN BASIN; MEDITERRANEAN SEA; SPAIN;

ENGRAULIDAE; ENGRAULIS ENCRASICOLUS;

EID: 84865461815     PISSN: 10543139     EISSN: 10959289     Source Type: Journal    
DOI: 10.1093/icesjms/fss129     Document Type: Article

References (49)

1. Agostini, V. N., and Bakun, A. 2002. 'Ocean triads' in the Mediterranean Sea: physical mechanisms potentially structuring reproductive habitat suitability (with example application to European anchovy, Engraulis encrasicolus). Fisheries Oceanography, 11: 129-142.
2. Bandelt, H.-J., Forster, P., and Röhl, A. 1999.Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution, 16: 37-48.
3. Blaxter, J. H. S., and Hunter, J. R. 1982. The biology of clupeoid fishes. Advances in Marine Biology, 20: 1223.
4. Borrell, Y. J., Alvarez, J., Blanco, G., De Murguía, A. M., Lee, D., Fernández, C., Martínez, C., et al. 2011. A parentage study using microsatellite loci in a pilot project for aquaculture of the European anchovy Engraulis encrasicolus L. Aquaculture, 310(3-4): 305-311.
5. Bowen, B. W., and Grant, W. S. 1997. Phylogeography of the sardines (Sardinops spp.): assessing biogeographic models and population histories in temperate upwelling zones. Evolution, 51: 1510-1601.
6. Brown, K. M., Baltazar, G. A., and Hamilton, M. B. 2005. Reconciling nuclear microsatellite and mitochondrial marker estimates of population structure: breeding population structure of Chesapeake Bay striped bass (Morone saxatilis). Heredity, 94: 606-615.
7. Chapuis, M. P., and Estoup, A. 2007. Microsatellites null alleles and estimation of population differentiation. Molecular Biology and Evolution, 24: 621-631.
8. Chiu, T. S., Lee, Y. J., Huang, S. W., and Yu, H. T. 2002. Polymorphic microsatellite markers for stock identification in Japanese anchovy (Engraulis japonica). Molecular Ecology Notes, 2(1): 49-50.
9. Cohen, K. M., and Gibbard, P. 2011. Global Chronostratigraphical Correlation Table for the Last 2.7 Million Years. Subcommission on Quaternary Stratigraphy (International Commission on Stratigraphy), Cambridge, UK.
10. Cornuet, J. M., and Luikart, G. 1996. Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics, 144: 2001-2014.
11. Drummond, A. J., and Rambaut, A. 2007. BEAST: Bayesian evolutionary analysis sampling trees. BMC Evolutionary Biology, 7: 214.
12. Excoffier, L., Laval, G., and Schneider, S. 2005. Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evolution, Bioinformatics and Evolutionary Bioinformatics Online, 1: 47-50.
13. Excoffier, L., Smouse, P. E., and Quattro, J. M. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics, 86: 991-1000.
14. FAO. 2005. Review of the State of World Marine Fishery Resources. FAO Fisheries Technical Paper 457.
15. Felsenstein, J. 1993. PHYLIP (phylogeny inference package). Department of Genetics, University of Washington, Seattle.
16. Guillot, G., Mortier, F., and Estoup, A. 2005. Geneland: a computer package for landscape genetics. Molecular Ecology Notes, 5: 708-711.
17. Goudet, J. 1995. FSTAT (vers. 1.2): a computer program to calculate F-statistics. Journal of Heredity, 86: 485-486.
18. Grant, W. S. 2005. A second look at mitochondrial DNA variability in European anchovy (Engraulis encrasicolus): assessing model of population structure and the Black sea isolation hypothesis. Genetica, 125: 293-309.
19. Hauser, L., and Ward, R. D. 1998. Population identification in pelagic fish: the limits of molecular markers. In Advances in Molecular Ecology, pp. 191-216. Ed. G. R Carvalho. ISO Press.
20. Ho, S. Y., Lanfear, R., Bromham, L., Phillips, M. J., Soubrier, J., Rodrigo, A. G., and Cooper, A. 2001. Time-dependent rates of molecular evolution. Molecular Ecology, 20: 3087-3101.
21. Holleley, C. E., and Geerts, P. G. 2009. Multiplex Manager 1.0: a crossplatform computer program that plans and optimizes multiplex PCR. Biotechniques, 46: 511-517.
22. ICES. 2011. Report of the Working Group on Anchovy and Sardine (WGANSA), 24-28 June 2011, Vigo, Spain. ICES Document CM 2011/ACOM: 16.
23. Jérôme, M., Lemaire, C., Bautista, J. M., Fleurence, J., and Etienne, M. 2003. Molecular phylogeny and species identification of sardines. Journal of Agricultural and Food Chemistry, 51: 43-50.
24. Junquera, S., and Pérez-Gándaras, G. 1993. Population diversity in Bay of Biscay anchova Engraulis encrasicolus L. 1758 as revealed by multivariate analysis of morphometric and meristic characters. ICES Journal of Marine Science, 50: 383-391.
25. Landi, M., Garoia, F., Piccinetti, C., and Tinti, F. 2005. Isolation of polymorphic microsatellite loci from the European anchovy, Engraulis encrasicolus. Molecular Ecology Notes, 5: 266-268.
26. Magoulas, A., Castillho, R., Caetano, S., Marcato, S., and Patarnello, T. 2006. Mitochondrial DNA reveals a mosaic pattern of phylogeographical structure in Atlantic and Mediterranean populations of anchovy (Engraulis encrasicolus). Molecular Phylogenetics and Evolution, 39: 734-746.
27. Magoulas, A., Tsimenides, N., and Zouros, E. 1996. Mitochondrial DNA phylogeny and the reconstruction of the population history of a species: the case of the European anchovy (Engraulis encrasicolus). Molecular Biology and Evolution, 13: 178-190.
28. Mantel, N. 1967. The detection of disease clustering and a generalized regression approach. Cancer Research, 27: 209-220.
29. Miya, M., and Nishida, M. 2000. Use of mitogenomic information in teleostean molecular phylogenetics: a tree-based exploration under the maximum-parsimony optimality criterion. Molecular Phylogenetics and Evolution, 17: 437-455.
30. Motos, L., Uriarte, A., and Valencia, V. 1996. The spawning environment of the Bay of Biscay anchovy (Engraulis encrasicolus L.). Sciencia Marina, 60: 117-140.
31. Nei, M. 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics, 89: 583-590.
32. Nei, M. 1987. Molecular Evolutionary Genetics. Columbia University Press, New York.
33. O'Reilly, P. T., Canino, M. F., Bailey, K. M., and Bentzen, P. 2004. Inverse relationship between FST and microsatellite polymorphism in the marine fish, walleye pollock (Theragra chalcogramma): implications for resolving weak population structure. Molecular Ecology, 13: 1799-1814.
34. Pakaki, V., Magoulas, A., and Kasapidis, P. 2009. New polymorphic microsatellite loci for population studies in the European anchovy, Engraulis encrasicolus (L.). Molecular Ecology Resources, 9: 1406-1409.
35. Philippart, C. J. M., Anadon, R., Danovaro, R., Dippner, J. W., Drinkwater, K. F., Hawkins, S. J., Oguz, T., et al. 2011. Impacts of climate change on European marine ecosystems: observations, expectations and indicators. Journal of Experimental Marine Biology and Ecology, 400: 52-69.
36. Posada, D. 1998-2006. Collapse: Describing Haplotypes from Sequence Alignments (http://darwin.uvigo.es/software/collapse. html).
37. Posada, D. 2008. jModelTest: Phylogenetic Model Averaging. Molecular Biology and Evolution 25: 1253-1256.
38. Reiss, H., Hoarau, G., Dickey-Collas, M., and Wolff, W. J. 2009. Genetic population structure of marine fish: mismatch between biological and fisheries management units. Fish and Fisheries, 10: 361-395.
39. Rice, W. R. 1989. Analysing tables of statistical tests. Evolution, 43: 223-225.
40. Rogers, A. R., and Harpending, H. 1992. Population growth makes waves in the distribution of pairwise genetic differences. Molecular Biology and Evolution, 9: 552-569.
41. Sanz, N., García-Marín, J. L., Viñas, J., Roldan, M., and Pla, C. 2008. Spawning groups of European anchovy: population structure and management implications. ICES Journal of Marine Science, 65: 1635-1644.
42. Silva, A., Skagen, D., Uriarte, A., Massé, J., Santos, M. B., Marques, V., Carrera, P., et al. 2009. Geographic variability of sardine dynamics in the Iberian Biscay region. ICES Journal of Marine Science, 66: 495-508.
43. Slatkin, M. 1995. A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139: 457-462.
44. Tajima, F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 123: 585-595.
45. Uriarte, A., Prellezo, R., Punzó n, A., Aranda, M., and Villamor, B. 2008. The Spanish Fishery on Anchovy in the Bay of Biscay: Analysis of the Relationship Between Fishing Capacity, Effort, and Mortality. ICES Document CM 2008/I: 18. 20 pp.
46. Van Oosterhout, C., Hutchinson,W. F.,Wills, D. P. M., and Shipley, P. 2004. Micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Molecular Ecology Notes, 4: 535-538.
47. Waples, R. 1998. Separating the wheat from the chaff: patterns of genetic differentiation in high gene flow species. Journal of Heredity, 89: 438-450.
48. Weir, B. S., and Cockerham, C. C. 1984. Estimating F-statistics for the analysis of population structure. Evolution, 38: 1358-1370.
49. Zarraonaindia, I., Pardo, M. A., Iriondo, M., Manzano, C., and Estonba, A. 2009. Microsatellite variability in European anchovy (Engraulis encrasicolus) calls for further investigation of its genetic structure and biogeography. ICES Journal of Marine Science, 66: 2176-2182.