Microsatellite DNA analysis of population structure in Atlantic herring (Clupea harengus), with direct comparison to allozyme and mtDNA RFLP analyses

Heredity

Volumn 83, Issue 4, 1999, Pages 490-499

  Shaw, P W ^a   Turan, C ^a,c   Wright, J M ^b   O'Connell, M ^b   Carvalho, G R ^a  

^a UNIVERSITY OF HULL   (United Kingdom)

^b DALHOUSIE UNIVERSITY   (Canada)

^c MUSTAFA KEMAL UNIVERSITY   (Turkey)

Author keywords

Allozymes; Atlantic herring; Microsatellites; mtDNA; Pelagic fish; Population structure

Indexed keywords

HETEROZYGOSITY; MICROSATELLITE DNA; POPULATION GENETICS; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; STATISTICAL ANALYSIS;

DNA; GENETIC VARIATION; POPULATION STRUCTURE;

AVES; CLUPEA HARENGUS; CLUPEA PALLASI; MARTES PENNANTI;

EID: 0032711071     PISSN: 0018067X     EISSN: None     Source Type: Journal    
DOI: 10.1038/sj.hdy.6885860     Document Type: Article

References (53)

1. BENTZEN, P., HARRIS, A. AND WRIGHT, J. M. 1991. Cloning of hypervariable minisatellite and simple sequence microsatellite repeats for DNA fingerprinting of important aquacultural species. In: Burke, T., Dolf, G. A., Jeffreys, A. J. and Wolf, R. (eds) DNA Fingerprinting: Approaches and Applications, pp. 243-262. Birkhäuser, Basel.
2. BROOKER, A. L., COOK, D., BENTZEN, P., WRIGHT, J. M. AND DOYLE, R. W. 1994. Organisation of microsatellites differs between mammals and cold-water teleost fishes. Can. J. Fish. Aquat. Sci., 51, 1959-1966.
3. CARR, S. M. AND MARSHALL, H. D. 1991. Detection of intraspecific DNA-sequence variation in the mitochondrial cytochrome-B gene of Atlantic cod (Gadus morhua) by the polymerase chain reaction. Can. J. Fish. Aquat. Sci., 48, 48-52.
4. DAHLE, G. AND ERIKSEN, A. G. 1990. Spring and autumn spawners of herring (Clupea harengus) in the North Sea. Skagerrak and Kattegat, population genetic analysis. Fish. Res., 9, 131-141.
5. DEBARROS, P. AND HOLST, J. C. 1995. Identification of geographic origin of Norwegian spring-spawning herring (Clupea harengus L.) based on measurements of scale annuli. ICES J. Mar. Sci., 52, 863-872.
6. DOMANICO, M. J., PHILLIPS, R. B. AND SCHWEIGERT, J. F. 1996. Sequence variation in ribosomal DNA of Pacific (Clupea pallasi) and Atlantic (Clupea harengus) herring. Can. J. Fish. Aquat. Sci., 53, 2418-2423.
7. ESTOUP, A., ROUSSET, F., MICHALAKIS, Y., CORNUET, J.-M., ADRIAMANGA, M. AND GUYOMARD, R. 1998. Comparative analysis of microsatellite and allozyme markers: a case study investigating microgeographic differentiation in brown trout (Salmo trutta). Mol. Ecol., 7, 339-353.
8. 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 data. Genetics, 131, 479-491.
9. FISHER, R. A. 1954. Statistical Methods for Research Workers, 12th edn. Oliver & Boyd, Edinburgh.
10. FRIDRIKSSON, A. 1958. The tribes of the north coast herring of Iceland with special reference to the period, 1948-55. Rapp. Proces-Verb. Réunions; Cons. Int. Explor. Mer. Copenhag., 143, 36-44.
11. GARCÍA DE LEON, F. J., CHIKHI, L. AND BONHOMME, F. 1997. Microsatellite polymorphism and population subdivision in natural populations of European sea bass, Dicentrarchus labrax (Linnaeus, 1958). Mol. Ecol., 6, 51-62.
12. GARZA, J. C., SLATKIN, M. AND FREIMER, N. B. 1995. Evolution and mutation of microsatellites in humans and chimpanzees. Am. J. Hum. Genet., 57, 929.
13. GOLDSTEIN, D B., RUIZ LINARES, A., CAVALLI-SFORZA, L. L. AND FELDMAN, M. W. 1995. An evaluation of genetic distances for use with microsatellite loci. Genetics, 139, 463-471.
14. GOODMAN, S. J. 1997. RST CALC: a collection of computer programs for calculating unbiased estimates of genetic differentiation and gene flow from microsatellite data and determining their significance. Mol. Ecol., 6, 881-885.
15. GOUDET, J. 1996. F-STAT (version 1.2): a computer program to calculate F-statistics. J. Hered., 86, 485-486.
16. GOUDET, J., RAYMOND, M., DE MEEUS, T. AND ROUSSET, F. 1996. Testing differentiation in diploid populations. Genetics, 139, 463-471.
17. GRANT, W. S. 1986. Biochemical genetic divergence between Atlantic, Clupea harengus, and Pacific, Clupea pallasi, herring. Copeia, 3, 714-719.
18. GRANT, W. S. AND UTTER, F. M. 1984. Biochemical genetics of Pacific herring (Clupea pallasi). Can. J. Fish. Aquat. Sci., 41, 856-864.
19. GRANT, W. S., CLARK, A. M. AND BOWEN, B. W. 1998. Why restriction fragment length polymorphism analysis of mitochondrial DNA failed to resolve sardine (Sardinops) biogeography: insights from mitochondrial DNA cytochrome b sequences. Can. J. Fish. Aquat. Sci., 55, 2539-2547.
20. HAEGELE, C. W. AND SCHWEIGERT, J. F. 1985. Distribution and characteristics of herring spawning grounds and description of spawning behaviour. Can. J. Fish. Aquat. Sci., 42 (Suppl.), 39-55.
21. HAUSER, L. AND WARD, R. D. 1998. Population identification in pelagic fish: the limits of molecular markers. In: Carvalho, G. R. (ed.) Advances in Molecular Ecology, pp. 191-224. NATO Science Series. IOS Press, Amsterdam.
22. HEDGECOCK, D. 1994. Temporal and spatial genetic structure of marine animal populations in the California current. California Cooperative Oceanic Fish. Invest. Reports, 35, 73-81.
23. HOURSTON, A. S. 1982. Homing by Canada's west coast herring to management units and divisions as indicated by tagging recoveries. Can. J. Fish. Aquat. Sci., 39, 1414-1422.
24. JARNE, P. AND LAGODA, P. J. L. 1996. Microsatellites, from molecules to populations and back. Trends Ecol. Evol., 11, 424-429.
25. JØRSTAD, K. E., KING, D. P. F. AND NÆVDAL, G. 1991. Population structure of Atlantic herring, Clupea harengus L. J. Fish Biol., 39, 43-52.
26. JØRSTAD, K. E., DAHLE, G. AND PAULSEN, O. I. 1994. Genetic comparison between Pacific herring (Clupea pallasi) and a Norwegian fjord stock of Atlantic herring (Clupea harengus). Can. J. Fish. Aquat. Sci., 51, 233-239.
27. KING, D. P. F., FERGUSON, A. AND MOFFETT, I. J. J. 1987. Aspects of population genetics of herring, Clupea harengus, around the British Isles and in the Baltic Sea. Fish. Res., 6, 35-52.
28. KORNFIELD, I. AND BOGDANOWICZ, S. M. 1987. Differentiation of mitochondrial-DNA in Atlantic herring, Clupea harengus. Fish. Bull., 85, 561-568.
29. McQUINN, I. H. 1997. Metapopulations and the Atlantic herring. Rev. Fish Biol. Fish., 7, 297-329.
30. MORK, J., RYMAN, N., STÅHL, G., UTTER, F. AND SUNDNES, G. 1985. Genetic variation in Atlantic cod (Gadus morhua) throughout its range. Can. J. Fish. Aquat. Sci., 42, 1580-1587.
31. NEI, M. 1972. Genetic distances between populations. Am. Nat., 106, 283-292.
32. O'CONNELL, M. AND WRIGHT, J. M. 1997. Microsatellite DNA in fishes. Rev. Fish Biol. Fish., 7, 331-363.
33. O'CONNELL, M., DANZMANN, R. G., CORNUET, J.-M., WRIGHT, J. M. AND FERGUSON, M. M. 1997. Differentiation of rainbow trout (Oncorhynchus mykiss) populations in Lake Ontario and the evaluation of the stepwise mutation and infinite allele mutation models using microsatellite variability. Can. J. Fish. Aquat. Sci., 54, 1391-1399.
34. O'CONNELL, M., DILLON, M. C., WRIGHT, J. M., BENTZEN, P., MERKOURIS, S. AND SEEB, J. 1998. Genetic structuring among Alaskan Pacific herring (Clupea pallasi) populations identified using microsatellite variability. J. Fish Biol., 53, 150-163.
35. RAYMOND, M. AND ROUSSET, F. 1995. Genepop (Version-1.2) - Population genetics software for exact tests and ecumenicism. J. Hered., 86, 248-249.
36. RICE, W. R. 1989. Analyzing tables of statistical tests. Evolution, 43, 223-225.
37. RICO, C., IBRAHIM, K. M., RICO, I. AND HEWITT, G. M. 1997. Stock composition in North Atlantic populations of whiting using microsatellite markers. J. Fish Biol., 51, 462-475.
38. ROUSSET, F. AND RAYMOND, M. 1995. Testing heterozygote excess and deficiency. Genetics, 140, 1413-1419.
39. RUZZANTE, D. E. 1998. A comparison of several measures of genetic distances and population structure with microsatellite data: bias and sampling variance. Can. J. Fish. Aquat. Sci., 55, 1-14.
40. RUZZANTE, D. E., TAGGART, C. T. AND COOK, D. 1998. A nuclear DNA basis for shelf-and bank-scale population structure in NW Atlantic cod (Gadus morhua): Labrador to Georges Bank. Mol. Ecol., 7, 1663-1680.
41. RYMAN, N., LAGERCRANTZ, U., ANDERSSON, L., CHAKRABORTY, R. AND ROSENBERG, R. 1984. Lack of correspondence between genetic and morphologic variability patterns in Atlantic herring (Clupea harengus). Heredity, 53, 687-704.
42. SHAW, P. W., PIERCE, G. AND BOYLE, P. R. 1999. Subtle population structuring within a highly vagile marine invertebrate, the Veined squid Loligo forbesi (Cephalopoda: Loliginidae) uncovered using microsatellite DNA markers. Mol. Ecol., 8, 407-417.
43. SLATKIN, M. 1995. A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139, 457-462.
44. SMITH, P. J., JAMIESON, A. AND BIRLEY, A. J. 1990. Electrophoretic studies and the stock concept in marine teleosts. Cons. Int. Explor. Mer., 47, 231-245.
45. STENEVIK, E. K., FOSSUM, P., JOHANNESSEN, A. AND FOLKVORD, A. 1996. Identification of Norwegian spring spawning herring (Clupea harengus L.) larvae from spawning grounds off western Norway applying otolith microstructure analysis. Sarsia, 80, 285-292.
46. SVETOVIDOV, A. N. 1963. Fauna of U.S.S.R. Fishes, 2. Clupeidae. Israel Program for Scientific Translations, Jerusalem.
47. TAGGART, J. B., HYNES, R. A., PRODÖHL, P. A. AND FERGUSON, A. 1992. A simplified protocol for routine total DNA isolation from salmonid fishes. J. Fish Biol., 40, 963-966.
48. TURAN, C. 1997. Population Structure of Atlantic Herring, Clupea harengus L., in the Northeast Atlantic using Phenotypic and Molecular Approaches. Ph.D. Thesis, University of Hull, Hull.
49. TURAN, C., CARVALHO, G. R. AND MORK, J. 1998. Molecular genetic analysis of Atlanto-Scandian herring (Clupea harengus) populations using allozymes and mitochondrial DNA markers. J. Mar. Biol. Ass. U.K., 78, 269-283.
50. VALDES, A. M., SLATKIN, M. AND FREIMER, N. B. 1993. Allele frequencies at microsatellite loci: the stepwise mutation model revisited. Genetics, 133, 737-749.
51. WAPLES, R. S. 1998. Separating the wheat from the chaff: patterns of genetic differentiation in high gene flow species. J. Hered., 89, 438-450.
52. WEIR, B. S. AND COCKERHAM, C. C. 1984. Estimating F-statistics for the analysis of population structure. Evolution, 38, 1358-1370.
53. WHEELER, J. P. AND WINTERS, G. H. 1984. Homing of Atlantic herring (Clupea harengus harengus) in Newfoundland waters as indicated by tagging data. Can. J. Fish. Aquat. Sci., 41, 108-117.