New view on the population genetic structure of marine fish

Russian Journal of Genetics

Volumn 47, Issue 11, 2011, Pages 1279-1287

  Salmenkova, E A ^a  

^a VAVILOV INSTITUTE OF GENERAL GENETICS   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL BEHAVIOR; ARTICLE; BIODIVERSITY; EVOLUTIONARY ADAPTATION; FISH GENETICS; FUNCTIONAL GENOMICS; GENE EXPRESSION REGULATION; GENE LOCUS; GENETIC ANALYSIS; GENETIC CONSERVATION; GENETIC SELECTION; GENETIC TRAIT; GENETIC VARIABILITY; GEOGRAPHICAL VARIATION (SPECIES); MARINE SPECIES; MOLECULAR EVOLUTION; NONHUMAN; PHENOTYPIC VARIATION; POPULATION ABUNDANCE; POPULATION DYNAMICS; POPULATION GENETIC STRUCTURE; POPULATION MIGRATION; POPULATION SIZE; PRIORITY JOURNAL; REPRODUCTIVE SUCCESS; SINGLE NUCLEOTIDE POLYMORPHISM; SPAWNING; TRANSCRIPTOMICS;

CITRUS MAXIMA; CLUPEA HARENGUS; GADUS MORHUA;

EID: 80855141842     PISSN: 10227954     EISSN: 16083369     Source Type: Journal    
DOI: 10.1134/S1022795411110159     Document Type: Article

References (72)

1. Nielsen, E. E. and Kenchington, E., A New Approach to Prioritizing Marine Fish and Shellfish Populations for Conservation, Fish Fisheries, 2001, vol. 2, pp. 328-343.
2. Heincke, F. R., Naturgeschichte des Herings: Die Lokalformen und die Wanderungen des Hering in den Europaischen Meeren, Salle, O., Ed., Berlin, 1898.
3. Ryman, N., Lagercrantz, U., Andersson, L., et al., Lack of Correspondence between Genetic and Morphologic Variability Patterns in Atlantic Herring (Clupea harengus), Heredity, 1984, vol. 53, pp. 687-704.
4. King, D. P. F., Ferguson, A., and Moffet, I. J. J., Aspects of Population Genetics of Herring, Clupea harengus, around the British Isles and in the Baltic Sea, Fish. Res., 1987, vol. 6, pp. 35-52.
5. Mork, J., Ryman, N., Stahl, G., et al., Genetic Variation in Atlantic Cod (Gadus morhua) throughout Its Range, Can. J. Fish. Aquat. Sci., 1985, vol. 42, pp. 1580-1587.
6. Dahle, G. and Eriksen, A. G., Spring and Autumn Spawners of Herring (Clupea harengus) in the North Sea, Skagerrak and Kattegat, Population Genetic Analysis, Fish. Res., 1990, vol. 9, pp. 131-141.
7. Smith, P. J., Birley, A. J., Jamieson, B. A., and Bishop, C. A., Mitochondrial DNA in the Atlantic Cod, Gadus morhua: Lack of Genetic Divergence between Eastern and Western Populations, J. Fish. Biol., 1989, vol. 34, pp. 369-373.
8. Arnason, E. and Palsson, S., Mitochondrial Cytochrome B DNA Sequence Variation in Atlantic Cod Gadus morhua from Norway, Mol. Ecol., 1996, vol. 5, pp. 715-724.
9. Jorstad, K. E., King, D. P. F., and Naevdal, G., Population Structure of Atlantic Herring, Clupea harengus L., J. Fish Biol., 1991, vol. 39, pp. 43-52.
10. Turan, C., Carvalho, G. R., and Mork, J., Molecular Genetic Analysis of Atlanto-Scandian Herring (Clupea harengus) Populations Using Allozymes and Mitochondrial DNA Markers, J. Mar. Biol. Ass. UK, 1998, vol. 78, pp. 269-283.
11. Ward, R. D., Woodwark, M., and Skibinski, D. O. F., A Comparison of Genetic Diversity Levels in Marine, Freshwater, Anadromous Fishes, J. Fish. Biol., 1994, vol. 44, pp. 213-232.
12. Shaw, P. W., Turan, C., Wrigh, J. M., et al., Microsatellite DNA Analysis of Population Structure in Atlantic Herring (Clupea harengus) with Direct Comparison to Allozyme and mtDNA RFLP Analysis, Heredity, 1999, vol. 83, pp. 490-499.
13. McPherson, A. A., O'Reilly, P. T., and Taggart, C. T., Genetic Differentiation, Temporal Stability and the Absence of Isolation by Distance among Atlantic Herring Populations, Trans. Am. Fish. Soc., 2004, vol. 133, pp. 434-446.
14. Jorgensen, H. B. H., Hansen, M. M., and Bekkevold, D., et al., Marine Landscapes and Population Genetic Structure of Herring (Clupea harengus L.) in the Baltic Sea, Mol. Ecol., 2005, vol. 14, pp. 3219-3234.
15. Manni, F., Guerard, E., and Heyer, E., Geographical Patterns of (Genetic, Morphologic, Linguistic) Variation: How Barriers Can Be Detected by 'Monmonier's Algorithm', Hum. Biol., 2004, vol. 76, pp. 173-190.
16. Ruzzante, D. E., Mariani, S., Bekkevold, D., et al., Biocomplexity in a Highly Migratory Pelagic Marine Fish, Atlantic Herring, Proc. R. Soc., Ser. B, 2006, vol. 273, pp. 1459-1464.
17. Bentzen, P., Taggart, C. T., Ruzzante, D. E., and Cook, D., Microsatellite Polymorphism and Population Structure of Atlantic Cod (Gadus morhua) in the Northwest Atlantic, Can. J. Fish. Aquat. Sci., 1996, vol. 53, pp. 2706-2721.
18. O'Leary, D. B. O., Coughlan, J., Dillane, E., et al., Microsatellite Variation in Cod Gadus morhua throughout Its Geographic Range, J. Fish. Biol., 2007, vol. 70, suppl. C, pp. 310-335.
19. Skarstein, T. H., Westgaard, J.-I., and Fevolden, S.-E., Comparing Microsatellite Variation in North-East Atlantic Cod (Gadus morhua L.) to Genetic Structuring as Revealed by Pantophysin (Pan I), J. Fish Biol., 2007, vol. 70, suppl. C, pp. 271-290.
20. Beacham, T., Brattey, J., Miller, K. M., et al., Multiple Stock Structure of Atlantic Cod (Gadus morhua) Off Newfoundland and Labrador Determined from Genetic Variation, ICES J. Mar. Sci., 2002, vol. 59, pp. 650-665.
21. Ruzzante, D. E., Wroblewski, J. S., Taggart, C. T., et al., Bay-Scale Population Structure in Coastal Atlantic Cod in Labrador and Newfoundland, J. Fish. Biol., 2000, vol. 56, pp. 431-447.
22. Ruzzante, D. E., Taggart, C. T., and Cook, D. G., A Review of the Evidence for Genetic Structure of Cod (Gadus morhua) Populations in the NW Atlantic and Population Affinities of Larval Cod Off Newfoundland and the Gulf of St. Lawrence, Fish. Res., 1999, vol. 43, pp. 79-97.
23. Poulsen, N. A., Nielsen, E. E., Schierup, M. H., et al., Long-Term Stability and Effective Population Size in North Sea and Baltic Sea Cod (Gadus morhua), Mol. Ecol., 2006, vol. 15, pp. 321-331.
24. Knutsen, H., Jorde, P. E., Andre, C., and Stenseth, N. C., Fine-Scaled Geographical Population Structuring in a Highly Mobile Marine Species: The Atlantic Cod, Mol. Ecol., 2003, vol. 12, pp. 385-394.
25. Jorde, P. E., Knutsen, H., Espeland, S. H., and Stenseth, N. C., Spatial Scale of Genetic Structuring in Coastal Cod Gadus morhua and Geographic Extent of Local Populations, Mar. Ecol. Proc. Ser., 2007, vol. 343, pp. 229-237.
26. Olsen, E. M., Knutsen, H., Gjorseter, J., et al., Small-Scale Biocomplexity in Coastal Atlantic Cod Supporting a Darwinian Perspective on Fisheries Management, Evol. App., 2008, vol. 1, pp. 524-533.
27. Knutsen, H., Olsen, E. M., Jorde, P. E., et al., Are Low but Statistically Significant Levels of Genetic Differentiation in Marine Fishes 'Biologically Meaningful?' A Case Study of Coastal Atlantic Cod, Mol. Ecol., 2011, vol. 20, pp. 768-783.
28. Larsson, L. C., Laikre, L., Palm, S., et al., Concordance of Allozyme and Microsatellite Differentiation in a Marine Fish, but Evidence of Selection at Micro-satellite Locus, Mol. Ecol., 2007, vol. 16, pp. 1135-1147.
29. Bradbury, I. R., Laurel, B., Snelgrove, P. V. R., et al., Global Patterns in Marine Dispersal Estimates: The Influence of Geography, Taxonomic Category and Life-History, Proc. R. Soc., Ser. B, 2008, vol. 275, pp. 1803-1809.
30. Wright, P. J., Neat, F. C., Gibb, F. M., et al., Evidence for Metapopulation Structure in Cod from the West of Scotland and North Sea, J. Fish Biol., 2006, vol. 69, pp. 181-199.
31. Thorrold, S. R., Latkoczy, C., Swart, P. K., and Jones, C. M., Natal Homing in a Marine Fish Metapopulation, Science, 2001, vol. 291, pp. 297-299.
32. Hauser, L. and Carvalho, G. R., Paradigm Shifts in Marine Fisheries Genetics: Ugly Hypotheses Slain by Beautiful Facts, Fish Fisheries, 2008, vol. 9, pp. 333-362.
33. Frankham, R., Effective Population Size Adult Population Size Ratios in Wildlife-a Review, Genet. Res., 1995, vol. 66, pp. 95-107.
34. Nielsen, E. E., Hemmer-Hansen, J., Larsen, P. F., and Bekkevold, D., Population Genomics of Marine Fishes: Identifying Adaptive Variation in Space and Time, Mol. Ecol., 2009, vol. 18, pp. 3128-3150.
35. 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., 2006, vol. 69, suppl. C, pp. 271-290.
36. Hutchings, J. A., Swain, D. P., Rowe, S., et al., Genetic Variation in Life-History Reaction Norms in a Marine Fish, Proc. R. Soc., Ser. B, 2007, vol. 274, pp. 21-47.
37. Bekkevold, D., Andre, C., Dahlgren, T. G., et al., Environmental Correlates of Population Differentiation in Atlantic Herring, Evolution, 2005, vol. 59, pp. 2656-2668.
38. Nielsen, E. E., Nielsen, P. H., Meldrup, D., and Hansen, M. M., Genetic Population Structure of Turbot (Scophthalmus maximus L.) Supports the Presence of Multiple Hybrid Zones for Marine Fishes in the Transition Zone between the Baltic Sea and North Sea, Mol. Ecol., 2004, vol. 13, pp. 585-595.
39. Manel, S., Schwartz, M., Luikart, G., and Taberlet, P., Landscape Genetics: Combining Landscape Ecology and Population Genetics, Trends Ecol. Evol., 2003, vol. 18, pp. 189-197.
40. Selkoe, K. A., Henzler, C. M., and Gaines, S. D., Seascape Genetics and Spatial Ecology of Marine Populations, Fish Fisheries, 2008, vol. 9, pp. 363-377.
41. Beaumont, M. A. and Nichols, R. A., Evaluating Loci for Use in the Genetic Analysis of Population Structure, Proc. R. Soc., Ser. B, 1996, vol. 263, pp. 1619-1626.
42. Lewontin, R. C. and Krakauer, J., Distribution of Gene Frequencies as a Test of the Theory of the Selective Neutrality of Polymorphism, Genetics, 1973, vol. 74, pp. 175-195.
43. Rychkov, Yu. G. and Balanovskaya, E. V., Ethnogenetics: On Alignment of Adaptive and Selectively-Neutral Genetic Differentiation in Ethnoses, Genetika, 1990, vol. 26, pp. 541-549.
44. Altukhov, Yu. P., Geneticheskie protsessy v populyatsiyakh (Genetic Processes in Populations), Moscow: Akademkniga, 2003.
45. Beaumont, M. A., Adaptation and Speciation: What Can FST Tell Us?, Trends Ecol. Evol., 2005, vol. 20, pp. 435-440.
46. Moen, T., Hayes, B., Nilsen, F., et al., Identification and Characterization of Novel SNP Markers in Atlantic Cod: Evidence of Directional Selection, BMC Genet., 2008, vol. 9, p. 18.
47. 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, 1995, vol. 139, pp. 375-385.
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 (Pan I) Locus, Mol. Ecol., 2003, vol. 12, pp. 63-74.
49. Canino, M. F., O'Reilly, P. T., Hauser, L., and Bentzen, P., Genetic Differentiation in Walleye Pollock (Theragra halcogramma) in Response to Selection at the Pantophysin (Pan I) Locus, Can. J. Fish. Aquat. Sci., 2005, vol. 62, pp. 2519-2529.
50. Moller, D., Genetic Differences between Cod Groups in the Lofoten Area, Nature, 1966, vol. 212, p. 824.
51. Karpov, A. K. and Novikov, G. G., Hemoglobin Alloforms in Cod, Gadus morhua, Their Functional Characteristics and Occurrence in Populations, J. Ichthyol., 1980, vol. 6, pp. 45-49.
52. Andersen, O. M., Wetten, O. F., De Rosa, M. C., et al., Haemoglobin Polymorphisms Affect the Oxygen-Binding Properties in Atlantic Cod Populations, Proc. R. Soc., Ser. B, 2009, vol. 276, pp. 833-841.
53. Mitton, J. B. and Koehn, R. K., Genetic Organization and Adaptive Response of Allozymes to Ecological Variables in Fundulus heteroclitus, Genetics, 1975, vol. 79, pp. 97-111.
54. Schulte, P. M., Glemet, H. C., Fiebig, A. A., and Powers, D. A., Adaptive Variation in Lactate Dehydrogenase-B-Gene Expression: Role of a Stress-Responsive Regulatory Element, Proc. Natl. Acad. Sci. USA, 2000, vol. 97, pp. 6597-6602.
55. Hemmer-Hansen, J., Nielsen, E. E., Gronkjaer, P., and Loeschcke, V., Evolutionary Mechanisms Shaping the Genetic Population Structure of Marine Fishes: Lessons from the European Flounder (Platichthys flesus), Mol. Ecol., 2007, vol. 16, no. 15, pp. 3104-3118.
56. Cohen, S., Strong Positive Selection and Habitat-Specific Amino Acid Substitution Patterns in MHC from an Estuarine Fish under Intense Pollution Stress, Mol. Biol. Evol., 2002, vol. 19, pp. 1870-1880.
57. Haass, N. K., Kartenbeck, J., and Leube, R., Pantophysin Is a Ubiquitously Expressed Synaptophysin Homologue and Defines Constitutive Transport Vesicles, J. Cell Biol., 1996, vol. 134, pp. 731-746.
58. 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., 2005, vol. 67, pp. 444-469.
59. Case, R. A. J., Hutchinson, W. F., Hauser, L., et al., Macro- and Micro-Geographic Variation in Pantophysin (Pan I) Allele Frequencies in NE Atlantic Cod Gadus morhua, Mar. Ecol. Progr. Ser., 2005, vol. 301, pp. 267-278.
60. Krutovskii, K. V., From Population Genetics to Population Genomics of Forest Trees: Integrated Population Genomics Approach, Russ. J. Genet., vol. 44, no. 10, pp. 1088-1100.
61. Beaumont, M. A. and Balding, D., Identifying Adaptive Genetic Divergence among Populations from Genome Scans, Mol. Ecol., 2004, vol. 13, pp. 969-980.
62. Foll, M. and Gaggiotti, O., A Genome Scan Method to Identify Selected Loci to Appropriate for Both Dominant and Co-Dominant Markers: A Bayesian Perspective, Genetics, 2008, vol. 180, pp. 977-993.
63. Bradbury, I. R., Hubert, S., Higgins, B., et al., Parallel Adaptive Evolution of Atlantic Cod on Both Sides of the Atlantic Ocean in Response to Temperature, Proc. R. Soc., Ser. B, 2010, vol. 277, no. 1701, pp. 3725-3734.
64. Hemmer-Hansen, J., Nielsen, E. E., Meldrup, D., and Mittelholzer, C., Identification of Single Nucleotide Polymorphism in Candidate Genes for Growth and Reproduction in a Nonmodel Organism: Atlantic Cod, Gadus morhua, Mol. Ecol. Resour., 2011, vol. 11, suppl. 1, pp. 71-80.
65. Whitehead, A. and Crawford, D. L., Neutral and Adaptive Variation in Gene Expression, Proc. Natl. Acad. Sci. USA, 2006, vol. 103, pp. 5425-5430.
66. De-Santis, C. and Jerry, D. R., Candidate Growth Genes in Finfish-Where Should We Be Looking?, Aquaculture, 2007, vol. 272, pp. 22-38.
67. Larsen, P. F., Schulte, R. M., and Nielsen, E. E., Gene Expression Analysis for the Identification of Selection and Local Adaptation in Fishes, J. Fish. Biol., 2011, vol. 78, pp. 1-22.
68. Williams, L. M. and Oleksiak, M. F., Signatures of Selection in Natural Populations Adapted to Chronic Pollution, BMC Evol. Biol., 2008, vol. 8, p. 282.
69. Altukhov, Yu. P. and Rychkov, Yu. G., Population Systems and Their Structural Components: Genetic Stability and Variation, Zh. Obshch. Biol., 1970, vol. 31, pp. 507-525.
70. Altukhov, Yu. P., Populyatsionnaya genetika ryb (Population Genetics of Fish), Moscow: Pishchevaya Promyshlennost', 1974.
71. Dinamika populyatsionnykh genofondov pri antropogennykh vozdeistviyakh (Dynamics of Population Gene Pools under Anthropogenic Impact), Altukhov, Yu. P., Ed., Moscow: Nauka, 2004.
72. Hilborn, R., Quinn, T., Schindler, D. E., and Rogers, D. E., Biocomplexity and Fisheries Sustainability, Proc. Natl. Acad. Sci. USA, 2003, vol. 100, pp. 6564-6568.