PCR-RFLP analysis reveals substantial population-level variation in the introns of Pacific salmon (Oncorhynchus spp.)

Molecular Marine Biology and Biotechnology

Volumn 6, Issue 4, 1997, Pages 315-327

  Moran, Paul ^a   Dightman, Douglas A ^a   Waples, Robin S ^a   Park, Linda K ^a  

^a NORTHWEST FISHERIES SCIENCE CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ONCORHYNCHUS;

EID: 0031463967     PISSN: 10536426     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (47)

1. Agellon, L.B., and Chen, T.T. (1988). Rainbow trout has two genes for growth hormone. Mol Reprod Dev 1:11-17.
2. Allendorf, F.W. (1978). Protein polymorphism and the rate of loss of duplicate gene expression. Nature 272:76-79.
3. Allendorf, F.W., Ryman, N., and Utter, F.M. (1987). Genetics and fishery management. Past, present and future. In: Ryman, N., and Utter, F. (eds.). Population Genetics and Fishery Management. Seattle: University of Washington Press, 1-19.
4. Allendorf, F.W., and Thorgaard, G.H. (1984). Tetraploidy and the evolution of salmonid fishes. In: Turner, B.J. (ed.). Evolutionary Genetics of Fishes. New York: Plenum Press, 1-53.
5. Fisher, R.A. (1954). Statistical Methods for Research Workers. 12th ed. Edinburgh: Oliver and Boyd.
6. Forbes, S.H., Knudsen, K.L., and Allendorf, F.W. (1994a). Genetic variation in coho salmon detected by PCR amplification of growth hormone gene introns. In: Park, L.K., Moran, P., and Waples, R.S. (eds.). Applications of DNA Technology to the Management of Pacific Salmon: Proceedings of the Workshop, U.S. Dep. Gommer., NOAA Tech. Memo. NMFS-NWFSC-17, 29-33, (Available from Northwest Fisheries Science Center, 2725 Montlake Blvd. E., Seattle, WA 98112)
7. Forbes, S.H., Knudsen, K.L., North, T.W., and Allendorf, F.W. (1994b). One of two growth hormone genes in coho salmon is sex-linked. Proc Natl Acad Sci USA 91:1628-1631.
8. Hindar, K., Ryman, N., and Utter, F. (1991). Genetic effects of aquaculture on natural fish populations. Can J Fish Aquat Sci 48:945-957.
9. Hordvik, I., Voie, A.M., Glette, J., Male, R., and C. Endressen. (1992). Cloning and sequence analysis of two isotypic IgM heavy chain genes from Atlantic salmon, Salmo solar L. Eur J Immunol 22:2957-2962.
10. Johansen, B., Johnsen, O.C., Valla, S. (1988). The complete nucleotide sequence of the growth-hormone gene from Atlantic salmon (Salmo salar). Gene 77:317-324.
11. Klungland, H., Andersen, . and Alestrm, P. (1992). The salmon gonadotropin-releasing hormone encoding gene in salmonids. Mol Mar Biol Biotechnol 1:420-425.
12. Kreitman, M. and Akashi, H. (1995). Molecular evidence for natural selection. Annu Rev Ecol Syst 26:403-422.
13. Kwok, S., Kellogg, D.E., McKinney, N., Spasic, D., Goda, L., Levenson, C., and Sninsky, J.J. (1990). Effects of primer-template mismatch on the polymerase chain reaction: human immunodeficiency virus type 1 model studies. Nucleic Acids Res 18:999-1005.
14. Lee, M.A., Bengtén, E., Daggfeldt, A., Rytting, A.-s, and Pilström, L. (1993). Characterisation of rainbow trout cDNAs encoding a secreted and membrane-bound Ig heavy chain and the genomic intron upstream of the first constant exon. Mol Immunol 30:641-648.
15. Leclerc, G.M., Diaz, M., and Ely, B. (1996). Use of PCR-RFLP assays to detect genetic variation at single-copy nuclear loci in striped bass (Morone saxatilis). Mol Mar Biol Biotechnol 5:138-144.
16. Mangold, K., Chang, Y.-J., Mathews, C., Marien, K., Hendricks, J., and Bailey, G. (1991). Expression of ras genes in rainbow trout liver. Mol Carcinog 4:97-102.
17. Milner G.B., Teel, D.J., Utter, F.M., and Burley, C.L. (1981). Columbia River stock identification study: validation of genetic method. Annual report of research (FY 80) NOAA, Northwest Alaska Fisheries Center, Seattle, Wash. (Available from Northwest Fisheries Science Center, 2725 Montlake Blvd. E., Seattle, WA 98112)
18. Milner, G.B., Teel, D.J., Utter, F.M., and Winans, G.A. (1985). A genetic method of stock identification in mixed populations of Pacific salmon, Oncorhynchus spp. Mar Fish Rev 47:1-8.
19. Morris, D.B., Richard, K.R., and Wright, J.M. (1996). Microsatellites from rainbow trout (Oncorhynchus mykiss) and their use for genetic study of salmonids. Can J Fish Aquat Sci 53:120-126.
20. Morizot, D.C., Schmidt, M.E., Carmichael, G.J., Stock, D.W., and Williamson, J.H. (1990). Minimally invasive tissue sampling. In: Whitmore, D.H. (ed.). Electrophoretic and Isoelectric Focusing Techniques in Fisheries Management. Boston: CRC Press, 143-156.
21. Müller-Schmid, A., Rinder, H., Lottspeich, F., Gertzen, E.-M., and Hoffmann, W. (1992). Ependymins from the cerebrospinal fluid of salmonid fish: gene structure and molecular characterization. Gene 118:189-196.
22. Nei, M. (1978). Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:583-590.
23. Newton, C.R., Graham, A., Heptinstall, L.E., Powell, S.J., Summers, C., Kalsheker, N., Smith, J.C., and Markham, A.F. (1989). Analysis of any point mutation in DNA. The amplification refractory mutation system (ARMS). Nucleic Acids Res 17:2503-2516.
24. Nickerson, D.A., Kaiser, R., Lappin, S., Stewart, J., Hood, L., and Landegren, U. (1990). Automated DNA diagnostics using ELISA-based oligonucleotide ligation assay. Proc Natl Acad Sci USA 87:8923-8927.
25. Nielsen, J.L., Gan, C.A., Wright, J.M., and Thomas, K. (1994). Bigeographic distribution of mitochondrial and nuclear markers for southern steelhead. Mol Mar Biol Biotechnol 3:281-293.
26. Olsen, J.B., Wenberg, J.K., and Bentsen, P. (1996). Semiautomated multilocus genotyping of Pacific salmon (Oncorhynchus spp.) using microsatellites. Mol Mar Biol Biotechnol 5:259-272.
27. Park, L.K., Moran, P., and Waples, R.S. (1994). Applications of DNA Technology to the Management of Pacific Salmon: Proceedings of the Workshop, U.S. Dep. Commer., NOAA Tech. Memo. NMFS-NWFSC-17. (Available from Northwest Fisheries Science Center, 2725 Montlake Blvd. E., Seattle, WA 98112)
28. Park, L.K., Moran, P., and Dightman, D.A. (1995). A polymorphism in intron D of the chinook salmon growth hormone 2 gene. Anim Genet 26:277-285.
29. Park, L.K., P. Moran, and D.A. Dightman. (1996). A chinook salmon PCR-RFLP marker in the p53 locus. Anim Genet 27:127-128.
30. Raymond, M., and Rousset, F. (1995). GENEPOP (version 1.2): population genetics software for exact tests and ecumeni-cism. J Hered 86:248-249.
31. Rice, W.R. (1989). Analyzing tables of statistical tests. Evolution 43:223-225.
32. Ryman, N., and Laikre, L. (1991). Effects of supportive breeding on the genetically effective population size. Conserv Biol 5:325-329.
33. nd ed. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
34. Scribner, K.T., Gust, J.R., and Fields, R.L. (1996). Isolation and characterization of novel microsatellite loci: cross-species amplification and population genetic applications. Can J Fish Aquat Sci 53:685-693.
35. Shaklee, J.B., and White, B.A. (1991). Need for replicated electrophoretic analysis in multiagency genetic stock identification (GSI) programs: example from a pink salmon (Oncorhynchus gorbuscha) GSI fisheries study. Can J Fish Aquat Sci 48:1391-1407.
36. Song, S., Trinh, K.-Y., Hew, C.L., Hwang, S.-J., Belkhode, S., and Idler, D.R. (1988). Molecular cloning and expression of salmon prolactin cDNA. Eur J Biochem 172:279-285.
37. Swofford, D.L., and Selander, R.B. (1981). BIOSYS-1: A FORTRAN program for the comprehensive analysis of electrophoretic data in population genetics and systematics. J Hered 72:281-283.
38. Utter, F., Aebersold, P., and Winans, G. (1987). Interpreting genetic variation detected by electrophoresis. In: Ryman, N. and Utter, F. (eds.). Population Genetics and Fishery Management. Seattle: University of Washington Press, 21-45.
39. Utter, F.M., and Ryman N. (1993). Genetic markers and mixed stock fisheries. Fisheries 18:11-21.
40. Waples, R.S., and Do, C. (1994). Genetic risk associated with supplementation of Pacific salmonids: Captive broodstock programs. Can J Fish Aquat Sci 51:310-329.
41. Waples, R.S., Johnson, O.W., Aebersold, P.B., Shiflett, C.K., VanDoornik, D.M., Teel, D.J., and Cook, A.E. (1993). A genetic monitoring and evaluation program for supplemented populations of salmon and steelhead in the Snake River Basin. Annual Report of Research to Bonneville Power Administration. (Available from Northwest Fisheries Science Center, 2725 Montlake Blvd. E., Seattle, WA 98112)
42. Waples, R.S., Teel, D.J., and Aebersold, P.B. (1991). A genetic monitoring and evaluation program for supplemented populations of salmon and steelhead in the Snake River Basin. Annual Report of Research to Bonneville Power Administration. (Available from Northwest Fisheries Science Center, 2725 Montlake Blvd. E., Seattle, WA 98112)
43. Waples, R.S., Winans, G.A., Utter, F.M., and Mahnken C. (1990). Genetic monitoring of Pacific salmon hatcheries. In: Genetics in Aquaculture: Proceedings of the Sixteenth U.S.-Japan Meeting on Aquaculture, 20-21. NOAA Technical Report NMFS 92. (Available from Northwest Fisheries Science Center, 2725 Montlake Blvd. E., Seattle, WA 98112)
44. Wenberg, J.K., Olsen, J.B., andBentzen, P. (1996). Multiplexed systems of microsatellites for genetic analysis in coastal cutthroat trout (Oncorhynchus clarki clarki) and steelhead (Oncorhynchus mykiss). Mol Mar Biol Biotechnol 5:273-283.
45. Wright, S. (1978). Evolution and the Genetics of Populations, vol. 4. Variability Within and Among Natural Populations. Chicago, Ill.: University of Chicago Press.
46. Xiong, F., and Hew, C.L. (1991). Chinook salmon (Oncorhynchus tschawytscha) gonadotropin IIβ subunit gene encodes multiple messenger ribonucleic acids. Can J Fish Aquat Sci 69:2572-2578.
47. Xiong, F., Chin, R.A., and Hew, C.L. (1992). A gene encoding chinook salmon (Oncorhynchus tschawystscha). prolactin: gene structure and potential cis-acting regulatory elements. Mol Mar Biol Biotechnol 1:155-164.