Abstract
Thirteen (GT)n and four (CT)n microsatellite loci (n = 10 or more and n = 20 or more, respectively) have been isolated from a partial genomic library of brown trout and sequenced. On average, a (GT)n repeat sequence occurs approximately every 23 kb and a (CT)n repeat sequence every 76 kb in brown trout genome. Primers for DNA amplifications using the polymerase chain reaction (PCR) were synthesized for three single locus microsatellites. Mendelian inheritance of the observed polymorphisms was confirmed in full-sib families. Four brown trout populations (10 unrelated individuals per population) were screened for polymorphism with these three microsatellite loci. The total number of alleles detected in the four populations is five at one locus, six at the other two microsatellite loci and is three, on average, per population. Heterozygosities range from 0.18 to 0.74. The largest differences in allelic frequencies occurred between the Mediterranean and the Atlantic populations: this result is congruent with previous allozymic data. The gene-centromere distances of the three microsatellite markers were determined on gynogenetic lines: post-reduction rates range from 0.17 to 0.60. For all the three microsatellite loci, the primers designed from brown trout sequences can be used in another closely related species of salmonid, the rainbow trout (Oncorhynchus mykiss). This last aspect supports the view that microsatellite markers may have wide application in genetic studies in salmonid species and fishes in general.
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Allendorf, F W, Seeb, J E, Knudsen, K L, Thorgaard, G H, and Leary, R F. 1986. Gene-centromere mapping of 25 loci in rainbow trout. Heredity, 77, 307–312.
Atkin, N B, Mattinson, G, Becak, W, and Ohno, S. 1965. The comparative DNA content of 19 species of placental mammals, reptiles, and birds. Chromosoma, 17, 1–10.
Beckmann, J S, and Weber, J L. 1992. Survey of human and rat microsatellites. Genomics, 12, 627–631.
Bernatchez, L, Guyomard, R, and Bonhomme, F. 1992. DNA sequence variation of the mitochondrial control region among geographically and morphologically remote European brown trout Salmo trutta populations. Mol Ecol, 1, 161–173.
Botstein, D, White, R L, Skolnick, M, and Davis, R W. 1980. Construction of a genetic linkage map in man using restriction fragments length polymorphism. Am J Hum Genet, 32, 314–331.
Britten, R J, and Khone, D. 1968. Repeated sequences in DNA. Science, 161, 529–540.
Edwards, A, Hammond, H A, Jin, L, Caskey, C T, and Chakraborty, R. 1992. Genetic variation at five trimeric and tetrameric tandem repeat loci in four human population groups. Genomics, 12, 241–253.
Ely, J, Deka, R, Chakraborty, R, and Ferrell, R E. 1992. Comparison of five tandem repeat loci between human and chimpanzees. Genomics, 14, 692–698.
Epplen, J T, Ammer, H, Epplen, C, Kammerbauer, C, Mitreiter, R, Roewer, L, Schwaiger, W, Steimle, V, Zischler, H, Albert, E, Andreas, A, Beyermann, B, Meyer, W, Beutkamp, J, Nanda, I, Schmid, M, Nürnberg, P, Pena, S D, Pöche, H, Sprecher, W, Schartl, M, Weising, K, and Yassouridis, A. 1991. Oligonucleotide fingerprinting using simple repeat motifs: a convenient, ubiquitously applicable method to detect hypervariability for multiple purposes. In: Burke, T., Dolf, G., Jeffreys, A. J. and Wolff, R. (eds), DNA Fingerprinting Approaches and Applications. Basel, Birkhazüser, pp. 50–69.
Ferguson, A. 1989. Genetic differences among brown trout, Salmo trutta, stocks and their importance for the conservation and management of the species. Freshwater Biol, 21, 35–46.
Guyomard, R. 1984. High level of residual heterozygosity in gynogenetic rainbow trout, Salmo gairdneri Richardson. Theor Appl Genet, 63, 201–205.
Guyomard, R. 1986. Gene segregation in gynogenetic brown trout (Salmo trutta L.): systematically high frequencies of post-reduction. Génet Sét Evol, 18, 385–392.
Guyomard, R. 1989. Diversité génétique de la truite commune. Bull Fr Pêche Piscic, 314, 118–135.
Guyomard, R, and Krieg, F. 1983. Electrophoretic variation in six populations of brown trout (Salmo trutta L.). Can J Genet Cytol, 25, 403–413.
Hamada, H, Petrino, M G, and Kakunaga, T. 1982. A novel repeated element with Z-DNA forming potential is widely found in evolutionary diverse eukaryotic genomes. Proc Natl Acad Sci USA, 79, 6465–6469.
Hazan, J, Dubay, C, Pankowiak, M P, Becuwe, N, and Weissenbach, J. 1992. A genetic linkage map of human chromosome 20 composed entirely of microsatellite markers. Genomics, 12, 183–189.
Hearne, C M, Ghosh, S, and Todd, J A. 1992. Microsatellite for linkage analysis of genetic traits. TIG, 8, 288–294.
Jarman, A P, and Wells, R A. 1989. Hypervariable minisatellites: recombinators or innocent bystanders. TIG, 5, 11, 367–371.
Jeffreys, A J, Royle, N J, Wilson, V, and Wong, Z. 1988. Spontaneous mutation rates to new alleles at tandem-repetitive hypervariable loci in human DNA. Nature, 322, 278–281.
Jeffreys, A J, Wilson, V, and Thein, S L. 1985. Hypervariable ‘minisatellite’ regions in human DNA. Nature (Lond), 314, 67–73.
Karl, S A, and Avise, J C. 1992. Balancing selection at allozyme loci in oysters: implications from nuclear RFLPs. Science, 256, 100–102.
Karl, S A, Bowen, B W, and Avise, J C. 1992. Global population genetic structure and male-mediated gene flow in the green turtle (Chelonia mydas): RFLP analyses of anonymous nuclear loci. Genomics, 131, 163–173.
Krieg, F, and Guyomard, R. 1985. Population genetics of french brown trout (Salmo trutta L.): large geographical differentiation of wild populations and high similarity of domesticated stocks. Génét Sél Evol, 17, 225–242.
Nei, M. 1975. Molecular Population Genetics and Evolution, North-Holland Pub., Amsterdam.
Quillet, E, Foisil, L, and Chevassus, B, Chourrout, D, and Liu, F G. 1991. Production of all-triploid and all-female brown trout for aquaculture. Aquat Liv Resour, 4, 27–32.
Rassmann, K, Schlötterer, C, and Tautz, D. 1991. Isolation of simple-sequence loci for use in polymerase chain reaction-base DNA fingerprinting. Electrophoresis, 12, 113–118.
Ryman, N. 1983. Patterns of distribution of biochemical genetic variation in salmonids: differences between species. Aquaculture, 33, 1–21.
Sambrook, J, Fritsch, E F, and Maniatis, T. (eds). 1989. Molecular cloning, a Laboratory Manual, 2nd edn. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
Sanger, F, Nicklen, S, and Coulson, A R. 1977. DNA sequencing with chain terminating inhibitors. Proc Natl Acad Sci USA, 77, 5463–5467.
Seeb, J E, and Seeb, L W. 1986. Gene mapping of isozyme loci in chum salmon. J Hered, 77, 399–402.
Stallings, R L, Ford, A F, and Nelson, D, Torney, D C, Hildebrand, C E, and Moyzis, R K. 1991. Evolution and distribution of (GT)n repetitive sequences in mammalian genomes. Genomics, 10, 807–815.
Taggart, J B, and Fergusson, A. 1991. Hypervariable mini-satellite DNA single locus probes for the Atlantic salmon, Salmo salar L. J Fish Biol, 37, 991–993.
Tautz, D. 1989. Hypervariability of simple sequence as a general source for polymorphic DNA markers. Nucleic Acids Res, 16, 6463–6471.
Thorgaard, G H, Allendorf, F W, and Knudsen, K L. 1983. Gene centromere mapping in rainbow trout: high interference over long map distance. Genetics, 103, 771–773.
Weber, J L. 1990. Informativeness of human (dC-dA)n. (dG-dT )n polymorphisms. Genomics, 7, 524–530.
Weber, J L, and May, P E. 1989. Abundant class of human DNA polymorphisms which can be typed using the polymerase chain reaction. Am J Hum Genet, 44, 388–396.
Wintero, A K, Fredholm, M, and Thomsen, P D. 1992. Variable (dG-dT)n. (dC-dA)n sequences in the porcine genome. Genomics, 12, 281–288.
Wong, A K, Yee, H A, Van De Sande, J H, and Rattner, J B. 1990. Distribution of CT-rich tracts inversed in vertebrate chromosomes. Chromosoma (Berlin), 99, 344–351.
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Estoup, A., Presa, P., Krieg, F. et al. (CT)n and (GT)n microsatellites: a new class of genetic markers for Salmo trutta L. (brown trout). Heredity 71, 488–496 (1993). https://doi.org/10.1038/hdy.1993.167
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DOI: https://doi.org/10.1038/hdy.1993.167
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