Atlantic cod (Gadus morhua L.) in inner and outer coastal zones of northern Norway display divergent genetic signature at non-neutral loci

Fisheries Research

Volumn 85, Issue 3, 2007, Pages 306-315

  Westgaard, Jon Ivar ^a   Fevolden, Svein Erik ^a  

^a UNIVERSITY OF TROMSØ   (Norway)

Author keywords

Atlantic cod; Microsatellites; Population structure; Selection

Indexed keywords

BOREOGADUS; GADUS MORHUA;

EID: 34248642868     PISSN: 01657836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.fishres.2007.04.001     Document Type: Article

References (65)

1. Arnason E., and Palsson S. Mitochondrial cytochrome b DNA sequence variation of Atlantic cod (Gadus morhua), from Norway. Mol. Ecol. 5 (1996) 715-724
2. Beaumont M.A., and Nichols R.A. Evaluating loci for use in the genetic analysis of population structure. Proc. Roy. Soc. Lond. B: Biol. 263 (1996) 1619-1626
3. Berg E., and Albert O.T. Cod in fjords and coastal waters of North Norway: distribution and variation in length and maturity at age. ICES J. Mar. Sci. 60 (2003) 787-797
4. Bergstad O.A., Jorgensen T., and Dragesund O. Life-history and ecology of the gadoid resources of the Barents Sea. Fish Res. 5 (1987) 119-161
5. Berry A., and Kreitman M. Molecular analysis of an allozyme cline-alcohol-dehydrogenase in Drosophila melanogaster on the east-coast of North-America. Genetics 134 (1993) 869-893
6. Brooker A.L., Cook D., Bentzen P., Wright J.M., and Doyle R.W. Organization of microsatellites differs between mammals and cold-water teleost fishes. Can. J. Fish. Aquat. Sci. 51 (1994) 1959-1966
7. Carvalho G.R., and Hauser L. Advances in the molecular analysis of fish population structure. Ital. J. Zool. 65 (1998) 21-33
8. Case R.A.J., Hutchinson W.F., Hauser L., Van Oosterhout C., and Carvalho G.R. Macro- and micro-geographic variation in pantophysin (PanI) allele frequencies in NE Atlantic cod (Gadus morhua). Mar. Ecol. Prog. Ser. 301 (2005) 267-278
9. Case R.A.J., Hutchinson W.F., Hauser L., Buehler V., Clemmesen C., Dahle G., Kjesbu O.S., Moksness E., Ottera H., Paulsen H., Svasand T., Thorsen A., and Carvalho G.R. Association between growth and Pan I* genotype within Atlantic cod full-sibling families. Trans. Am. Fish. Soc. 135 (2006) 241-250
10. Cockerham C.C., and Weir B.S. Estimation of gene flow from F-statistics. Evolution 47 (1993) 855-863
11. Conover D.O., Clarke L.M., Munch S.B., and Wagner G.N. Spatial and temporal scales of adaptive divergence in marine fishes and the implications for conservation. J. Fish Biol. 69 Suppl. C (2006) 21-47
12. Dahle G., and Jorstad K.E. Hemoglobin variation in cod-a reliable marker for Arctic cod (Gadus morhua L.). Fish Res. 16 (1993) 301-311
13. Dupanloup I., Schneider S., and Excoffier L. A simulated annealing approach to define the genetic structure of populations. Mol. Ecol. 11 (2002) 2571-2581
14. Eggvin J. Oceanographical conditions in North-Norway connected with the cod fisheries. Fiskeridirektoratets skrifter, Serie Havundersøkelser 5 (1938) 23-47
15. Estoup A., Jarne P., and Cornuet J.M. Homoplasy and mutation model at microsatellite loci and their consequences for population genetics analysis. Mol. Ecol. 11 (2002) 1591-1604
16. Excoffier L., Laval G., and Schneider S. Arlequin ver. 3.0: an integrated software package for population genetics analysis. Evol. Bioinform. 1 (2005) 47-50
17. Excoffier L., Smouse P.E., and Quattro J.M. Analysis of molecular variance inferred from metric distances among DNA haplotypes-application to human mitochondrial-DNA restriction data. Genetics 131 (1992) 479-491
18. Fevolden S.E., and Pogson G.H. Genetic divergence at the synaptophysin (Syp I) locus among Norwegian coastal and north-east Arctic populations of Atlantic cod. J. Fish Biol. 51 (1997) 895-908
19. Gavrilets S. Perspective: models of speciation: what have we learned in 40 years?. Evolution 57 (2003) 2197-2215
20. Goudet, J., 2001. FSTAT, a program to estimate and test gene diversities and fixation indices (version 2.9.3).
21. Goudet J., Raymond M., deMeeus T., and Rousset F. Testing differentiation in diploid populations. Genetics 144 (1996) 1933-1940
22. Hjort J. Fluctuations in the great fisheries of the Northern Europe viewed in the light of biological research. Rapports et procés-verbaux Réunion Conseil permanent internationale pour l'Exploration de la Mer 20 (1914) 1-228
23. Hylen A. Coastal cod and skrei in the Lofoten area. Fiskeridirektoratets skrifter, Serie Havundersøkelser 13 (1961) 27-42
24. ICES, 2006. Report of the ICES Advisory Committee on Fishery Management. Advisory Committee on the Marine Environment and Advisory Committee on Ecosystems. ICES advice. Books 1-10, 3, 89 pp.
25. Jakobsen T. Coastal cod in northern Norway. Fish Res. 5 (1987) 223-234
26. Kalinowski S.T. Counting alleles with rarefaction: private alleles and hierarchical sampling designs. Conserv. Genet. 5 (2004) 539-543
27. Kalinowski S.T. HP-RARE 1.0: a computer program for performing rarefaction on measures of allelic richness. Mol. Ecol. Notes 5 (2005) 187-189
28. Karlsson S., and Mork J. Selection-induced variation at the pantophysin locus (PanI) in a Norwegian fjord population of cod (Gadus morhua L.). Mol. Ecol. 12 (2003) 3265-3274
29. Karlsson S., and Mork J. Deviation from Hardy-Weinberg equilibrium, and temporal instability in allele frequencies at microsatellite loci in a local population of Atlantic cod. ICES J. Mar. Sci. 62 (2005) 1588-1596
30. Kashi Y., and Soller M. Functional roles of microsatellites and minisatellites. In: Goldstein D.B., and Schlötterer C.S. (Eds). Microsatellites: Evolution and Applications (1999), Oxford University Press, Oxford, UK 10-23
31. Kauer M.O., Dieringer D., and Schlotterer C. A microsatellite variability screen for positive selection associated with the "Out of Africa" habitat expansion of Drosophila melanogaster. Genetics 165 (2003) 1137-1148
32. Li Y.C., Korol A.B., Fahima T., Beiles A., and Nevo E. Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review. Mol. Ecol. 11 (2002) 2453-2465
33. Lupus, 2006. Sea Environmental data from Northern Norwegian Fjords and Coastal Areas. http://lupus.nfh.uit.no.
34. Løken S., Pedersen T., and Berg E. Vertebrae numbers as an indicator for the recruitment mechanism of coastal cod of northern Norway. ICES Mar. Sci. Symposia 198 (1994) 510-519
35. Miller K.M., Le K.D., and Beacham T.D. Development of tri- and tetranucleotide repeat microsatellite loci in Atlantic cod (Gadus morhua). Mol. Ecol. 9 (2000) 238-239
36. Møller D. Genetic differences between cod groups in the Lofoten area. Nature 212 (1966) 824
37. Møller D. Genetic diversity in spawning cod along the Norwegian coast. Hereditas 60 (1968) 1-32
38. Møller D. The relationship between arctic and coastal cod in their immature stages illustrated by frequencies of genetic characters. Fiskeridirektoratets skrifter, Serie Havundersøkelser 15 (1969) 220-233
39. Mork J., and Giaever M. Genetic structure of cod along the coast of Norway: results from isozyme studies. Sarsia 84 (1999) 157-168
40. Nakken O., and Raknes A. The distribution and growth of northeast Arctic cod in relation to bottom temperatures in the Barents Sea, 1978-1984. Fish Res. 5 (1987) 243-252
41. Nielsen E.E., Hansen M.M., and Meldrup D. Evidence of microsatellite hitch-hiking selection in Atlantic cod (Gadus morhua L.): implications for inferring population structure in nonmodel organisms. Mol. Ecol. 15 (2006) 3219-3229
42. Nostvik F., and Pedersen T. Catching cod for tagging experiments. Fish Res. 42 (1999) 57-66
43. O'Reilly P.T., Canino M.F., Bailey K.M., and Bentzen P. Isolation of twenty low stutter di- and tetranucleotide microsatellites for population analyses of walleye pollock and other gadoids. J. Fish Biol. 56 (2000) 1074-1086
44. O'Reilly P.T., Canino M.F., Bailey K.M., and Bentzen P. Inverse relationship between F-ST and microsatellite polymorphism in the marine fish, walleye pollock (Theragra chalcogramma): implications for resolving weak population structure. Mol. Ecol. 13 (2004) 1799-1814
45. Peakall R., and Smouse P.E. genalex 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol. Ecol. Notes 6 (2006) 288-295
46. Piry S., Alapetite A., Cornuet J.M., Paetkau D., Baudouin L., and Estoup A. GENECLASS2: a software for genetic assignment and first-generation migrant detection. J. Hered. 95 (2004) 536-539
47. Pogson G.H. Nucleotide polymorphism and natural selection at the pantophysin (Pan I) locus in the Atlantic cod, Gadus morhua (L.). Genetics 157 (2001) 317-330
48. Pogson G.H., and Fevolden S.E. Natural selection and the genetic differentiation of coastal and Arctic populations of the Atlantic cod in northern Norway: a test involving nucleotide sequence variation at the pantophysin (PanI) locus. Mol. Ecol. 12 (2003) 63-74
49. Pogson G.H., and Mesa K.A. Positive Darwinian selection at the pantophysin (Pan I) locus in marine gadid fishes. Mol. Biol. Evol. 21 (2004) 65-75
50. Pogson G.H., Mesa K.A., and Boutilier R.G. Genetic population-structure and gene flow in the Atlantic cod Gadus morhua-a comparison of allozyme and nuclear Rflp loci. Genetics 139 (1995) 375-385
51. Rannala B., and Mountain J.L. Detecting immigration by using multilocus genotypes. Proc. Natl. Acad. Sci. U.S.A. 94 (1997) 9197-9201
52. Rice W.R. Analyzing tables of statistical tests. Evolution 43 (1989) 223-225
53. Robichaud D., and Rose G.A. Migratory behaviour and range in Atlantic cod: inference from a century of tagging. Fish Fish. 5 (2004) 185-214
54. Rollefsen G. The cod otolith as a guide to race, sexual development and mortality. Rapports et procés-verbaux Réunion Conseil permanent internationale pour l'Exploration de la Mer 88 (1934) 1-15
55. Sarvas T.H., and Fevolden S.E. Pantophysin (Pan I) locus divergence between inshore v. offshore and northern v. southern populations of Atlantic cod in the north-east Atlantic. J. Fish Biol. 67 (2005) 444-469
56. Sarvas T.H., and Fevolden S.E. The scnDNA locus Pan I reveals concurrent presence of different populations of Atlantic cod (Gadus morhua L.) within a single fjord. Fish Res. 76 (2005) 307-316
57. Schlotterer C. A microsatellite-based multilocus screen for the identification of local selective sweeps. Genetics 160 (2002) 753-763
58. Schmidt P.S., Duvernell D.D., and Eanes W.F. Adaptive evolution of a candidate gene for aging in Drosophila. Proc. Natl. Acad. Sci. U.S.A. 97 (2000) 10861-10865
59. Selkoe K.A., and Toonen R.J. Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecol. Lett. 9 (2006) 615-629
60. Skarstein, T.H., Westgaard, J.I., Fevolden, S.E., in press. Comparing microsatellite variation in north-east Atlantic cod (Gadus morhua L.) to genetic structuring as revealed by the pantophysin (Pan I) locus. J. Fish Biol.
61. Sundby S. A one-dimensional model for the vertical-distribution of pelagic fish eggs in the mixed layer. Deep Sea Res. 30 (1983) 645-661
62. Van Oosterhout C., Hutchinson W.F., Wills D.P.M., and Shipley P. Micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Mol. Ecol. Notes 4 (2004) 535-538
63. Veuille M., Benassi V., Aulard S., and Depaulis F. Allele-specific population structure of Drosophila melanogaster alcohol dehydrogenase at the molecular level. Genetics 149 (1998) 971-981
64. Vikebo F., Sundby S., Adlandsvik B., and Fiksen O. The combined effect of transport and temperature on distribution and growth of larvae and pelagic juveniles of Arcto-Norwegian cod. ICES J. Mar. Sci. 62 (2005) 1375-1386
65. Weir B.S., and Cockerham C.C. Estimating F-statistics for the analysis of population-structure. Evolution 38 (1984) 1358-1370