Use of microsatellites to determine population structure and migration of pacific herring in British Columbia and adjacent regions

Transactions of the American Fisheries Society

Volumn 137, Issue 6, 2008, Pages 1795-1811

  Beacham, T D ^a   Schweigert, J F ^a   MacConnachie, C ^a   Le, K D ^a   Flostrand, L ^a  

^a PACIFIC BIOLOGICAL STATION   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ALLELE; CLUPEOID; FISHERY SURVEY; GENETIC DIFFERENTIATION; ISOLATED POPULATION; POPULATION STRUCTURE; RESEARCH VESSEL; SPAWNING; STOCK ASSESSMENT; STOCK IDENTIFICATION;

BRITISH COLUMBIA; CANADA; NORTH AMERICA;

CLUPEA PALLASI; CLUPEIDAE;

EID: 58149269247     PISSN: 00028487     EISSN: 15488659     Source Type: Journal    
DOI: 10.1577/T08-033.1     Document Type: Article

References (45)

1. Beacham, T. D., J. R. Candy, B. McIntosh, C. MacConnachie, A. Tabata, K. Kaukinen, L. Deng, K. M. Miller, R. E. Withler, and N. V. Varnavskaya. 2005a. Estimation of stock composition and individual identification of sockeye salmon on a Pacific Rim basis using microsatellite and major histocompatibility complex variation. Transactions of the American Fisheries Society 134:1124-1146.
2. Beacham, T. D., D. E. Hay, and K. D. Le. 2005b. Population structure and stock identification of eulachon (Thaleichthys pacificus), an anadromous smelt, in the Pacific Northwest. Marine Biotechnology 7:363-372.
3. Beacham, T. D., J. F. Schweigert, C. MacConnachie, K. D. Le, K. Labaree, and K. M. Miller. 2002. Population structure of herring (Clupea pallasi) in British Columbia determined by microsatellites, with comparisons to southeast Alaska and California. Canadian Stock Assessment Secretariat, Research Document 2002/109, Ottawa. Available: www.dfo-mpo.gc.ca/csas/csas/Publications. (February 2008).
4. Cavalli-Sforza, L. L., and A. W. F. Edwards. 1967. Phylogenetic analysis: models and estimation procedures. American Journal of Human Genetics 19:233-257.
5. Debevec, E. M., R. B. Gates, M. Masuda, J. Pella, J. M. Reynolds, and L. W. Seeb. 2000. SPAM (version 3.2): statistics program for analyzing mixtures. Journal of Heredity 91:509-510.
6. Domanico, M. J., R. B. Phillips, and J. F. Schweigert. 1996. Sequence variation in ribosomal DNA of Pacific (Clupea pallasi) and Atlantic (Clupea harengus) herring. Canadian Journal of Fisheries and Aquatic Sciences 53:2418-2423.
7. Felsenstein, J. 1993. PHYLIP: phylogeny inference package. University of Washington, Seattle.
8. Fisheries and Oceans Canada. 2008. Molecular Genetics Laboratory home page. Fisheries and Oceans Canada, Pacific Biological Station, Nanaimo, British Columbia. Available: www-sci.pac.dfo-mpo.gc.ca/mgl. (December 2007).
9. Goudet, J. 1995. FSTAT: a program for IBM PC compatibles to calculate Weir and Cockerham's (1984) estimators of F-statistics, version 1.2. Journal of Heredity 86:485-486.
10. Grant, W. S., and F. W. Utter. 1984. Biochemical population genetics of Pacific herring (Clupea pallasi). Canadian Journal of Fisheries and Aquatic Sciences 41:856-864.
11. Haegele, C. W., and J. F. Schweigert. 1985. Distribution and characteristics of herring spawning grounds and description of spawning behaviour. Canadian Journal of Fisheries and Aquatic Sciences 42(Supplement 1):39-55.
12. Hanne, B., H. Jørgensen, M. H. Hansen, D. Bekkevold, D. E. Ruzzante, and V. Loeschcke. 2005. Marine landscapes and population genetic structure of herring (Clupea harengus L.) in the Baltic Sea. Molecular Ecology 14:3219-3234.
13. Hay, D. E. 1985. Reproductive biology of Pacific herring (Clupea harengus pallasi). Canadian Journal of Fisheries and Aquatic Sciences 42(Supplement 1):111-126.
14. Hay, D. E., P. B. McCarter, and K. Daniel. 1999. Pacific herring tagging from 1936-1992: a re-evaluation of homing based on additional data. Canadian Stock Assessment Secretariat, Research Document 99/176, Ottawa. Available: www.dfo-mpo.gc.ca/csas/csas/ Publications. (February 2008).
15. Hourston, A. S. 1980. The decline and recovery of Canada's Pacific herring stocks. Rapports et Proces-Verbaux des Reunions Conseil International pour l'Exploration de la Mer 177:143-153.
16. Hourston, A. S. 1982. Homing by Canada's west coast herring to management units and divisions as indicated by tag recoveries. Canadian Journal of Fisheries and Aquatic Sciences 39:1414-1422.
17. Iles, T. D., and M. Sinclair. 1982. Atlantic herring: stock discreteness and abundance. Science 215:627-633.
18. Jorstad, K.E., G. Dahle, and O. I. Paulsen. 1994. Genetic comparison between Pacific herring (Clupea pallasi) and a Norwegian fjord stock of Atlantic herring (Clupea harengus). Canadian Journal of Fisheries and Aquatic Sciences 51(Supplement 1):233-239.
19. Kobayashi, T., M. Iwata, and K. Numachi. 1990. Genetic divergence among local spawning populations of Pacific herring in the vicinity of northern Japan. Bulletin of the Japanese Society of Scientific Fisheries 56:1045-1052.
20. Lewis, P. O., and D. Zaykin. 2001. Genetic Data Analysis: computer program for the analysis of allelic data, version 1.0 (d16c). Available: lewis.eeb.uconn. (September 2002).
21. McPherson, A. A., P. T. O'Reilly, and C. T. Taggart. 2004. Genetic differentiation, temporal stability, and the absence of isolation by distance among Atlantic herring populations. Transactions of the American Fisheries Society 133:434-446.
22. McPherson, A. A., R. L. Stephenson, and C. T. Taggart. 2003. Genetically different Atlantic herring Clupea harengus spawning waves. Marine Ecology Progress Series 247:303-309.
23. McQuinn, I. H. 1997. Metapopulations and the Atlantic herring. Reviews in Fish Biology and Fisheries 7:297-329.
24. Miller, K. M., K. Laberee, A. D. Schulze, and K. H. Kaukinen. 2001. Development of microsatellite loci in Pacific herring (Clupea pallasi). Molecular Ecology Notes 1:131-132.
25. Neaves, P. I., C. G. Wallace, J. R. Candy, and T. D. Beacham. 2005. CBayes: computer program for mixed stock analysis of allelic data, version 4.02. Available: www. pac.dfo-mpo.gc.ca. (October 2007).
26. O'Connell, M., M. C. Dillon, and J. M. Wright. 1998a. Development of primers for polymorphic microsatellite loci in the Pacific herring (Clupea harengus pallasi). Molecular Ecology 7:357-363.
27. O'Connell, M., M. C. Dillon, J. M. Wright, P. Bentzen, S. Merkouris, and J. Seeb. 1998b. Genetic structuring among Alaskan Pacific herring populations identified using microsatellite variation. Journal of Fish Biology 53:150-163.
28. Olsen, J. B., C. J. Lewis, E. J. Kretschmer, S. L. Wilson, and J. E. Seeb. 2002. Characterization of 14 tetranucleotide microsatellite loci derived from Pacific herring. Molecular Ecology Notes 2:101-103.
29. Pella, J., and M. Masuda. 2001. Bayesian methods for analysis of stock mixtures from genetic characters. U.S. National Marine Fisheries Service Fishery Bulletin 99:151-167.
30. Perriere, G., and M. Gouy. 1996. WWW-Query: an on-line retrieval system for biological sequence banks. Biochimie 78:364-369.
31. Rannala, B., and J. L. Mountain. 1997. Detecting immigration by using multilocus genotypes. Proceedings of the National Academy of Science of the United States of America 94:9197-9201.
32. Raymond, M., and F. Rousset. 1995. GENEPOP (version 1.2): population genetics software for exact tests and ecumenism. Heredity 86:248-249.
33. Rice, W. R. 1989. Analyzing tables of statistical tests. Evolution 43:223-225.
34. Ruzzante, D. E., S. Mariani, D. Bekkevold, C. André, H. Mosegaard, L. A. W. Clausen, T. G. Dahlgren, W. F. Hutchinson, E. M. C. Hatfield, E. Torstensen, J. Brigham, E. J. Simmonds, L. Laikre, L. C. Lasson, R. J. M. Stet, N. Ryman, and G. R. Carvalho. 2006. Biocomplexity in a highly migratory pelagic marine fish, Atlantic herring. Proceedings of the Royal Society Series B 273:1459-1464.
35. Schweigert, J. F. 2000. Stock assessment for British Columbia herring in 2000 and forecasts of the potential catch in 2001. Canadian Stock Assessment Secretariat, Research Document 2000/165, Ottawa. Available: www.dfo-mpo. gc.ca/csas/csas/Publications. (February 2008).
36. Schweigert, J. F., and R. E. Withler. 1990. Genetic differentiation of Pacific herring based on enzyme electrophoresis and mitochondrial DNA analysis. Pages 459-469 in N. C. Parker, A. E. Giorgi, R. C. Heidinger, D. B. Jester, Jr., E. D. Prince, and G. A. Winans, editors. Fish-marking techniques. American Fisheries Society, Symposium 7, Bethesda, Maryland.
37. Shaw, P. W., C. Turan, J. M. Wright, M. O'Connell, and G. R. Carvalho. 1999. Microsatellite DNA analysis of population structure in Atlantic herring (Clupea harengus), with direct comparison to allozyme and mtDNA RFLP analyses. Heredity 83:490-499.
38. Small, M. P., T. D. Beacham, R. E. Withler, and R. J. Nelson. 1998. Discriminating coho salmon (Oncorhynchus kisutch) populations within the Fraser River, British Columbia, using microsatellite markers. Molecular Ecology 7:141-155.
39. Small, M. P., J. L. Loxterman, A. E. Frye, J. F. Von Bargen, C. Bowman, and S. F. Young. 2005. Temporal and spatial structure among some Pacific herring populations in Puget Sound and the southern Strait of Georgia. Transactions of the American Fisheries Society 134:1329-1341.
40. Smith, P. J., and A. Jamieson. 1986. Stock discreteness in herrings: a conceptual revolution. Fisheries Research 4:223-234.
41. Stevenson, J. C. 1946. Growth of herring along the upper east coast of Vancouver Island. Fisheries Research Board of Canada, Progress Reports to the Pacific Coast Stations 67:32-35.
42. Taylor, F. H. C. 1964. Life history and present status of British Columbia herring stocks. Fisheries Research Board of Canada Bulletin 143.
43. Turan, C., G. R. Carvalho, and J. Mork. 1998. Molecular genetic analysis of Atlanto-Scandian herring (Clupea harengus) populations using allozymes and mitochondrial DNA markers. Journal of the Marine Biological Association of the United Kingdom 78:269-283.
44. Waples, R. S. 1998. Separating the wheat from the chaff: patterns of genetic differentiation in high gene flow species. Journal of Heredity 89:438-450.
45. Weir, B. S., and C. C. Cockerham. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38:1358-1370.