Skip to main content
Log in

Variability of microsatellite DNA and genetic differentiation of populations in the resident form of Dolly Varden Salvelinus malma krascheninnikovi from Sakhalin

  • Published:
Journal of Ichthyology Aims and scope Submit manuscript

Abstract

Variability in 11 microsatellite loci is followed for nine populations of the resident southern form of Dolly Varden Salvelinus malma krascheninnikovi from Sakhalin. In all studied populations, the level of genetic differentiation is significant with global values of F st and R st 0.182 and 0.329, respectively. On the NJ tree, two clusters are separated significantly: the former is represented by the populations from southwestern Sakhalin (the Novoselka River basin), and the latter includes all populations from southern and eastern Sakhalin. Abrupt size variations (bottleneck events) are suggested for several studied populations, and 50% reductions of allelic richness and average heterozygosity are observed in two lacustrine populations of the Novoselka River basin in comparison to the riverine populations of this basin. The results suggest an occurrence of a comparatively recent gene flow between the populations of resident Dolly Varden from Sakhalin and absence of reproductive isolation between the anadromous and resident forms. The degradation of the majority of Dolly Varden populations can be expected in the near future, and conservation projects should be developed.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  1. H. Araki, R. S. Waples, W. A. Ardren, et al., “Effective Population Size of Steelhead Trout: Influence of Variance in Reproductive Success, Hatchery Programs, and Genetic Compensation Between Life-History Forms,” Mol. Ecol. 16, 953–966 (2007).

    Article  PubMed  Google Scholar 

  2. F. Balloux and N. Lugon-Moulin, “The Estimation of Population Differentiation with Microsatellite Markers,” Mol. Ecol. 11, 155–165 (2002).

    Article  PubMed  Google Scholar 

  3. V. L. Bezverkhnii, S. P. Pletnev, and F. F. Nabiulin, “Survey of Geological Structure and Development of the Kuril Island-Arc System and Adjacent Areas of the Islands,” in Materials of the International Kuril Project (Dal’nauka, Vladivostok, 2002), pp. 9–23.

    Google Scholar 

  4. V. V. Bogatov, T. Pitch, S. Yu. Storozhenko, et al., “Specific Features of Formation of Land and Freshwater Biota of Sakhalin,” Vestn. Dal’nevost. Otd. Ross. Akad. Nauk, No. 2, 32–47 (2006).

  5. P. C. Brunner, M. R. Douglas, and L. Bernatchez, “Microsatellite and Mitochondrial DNA Assessment of Population Structure and Stocking Effects in Arctic Charr Salvelinus alpinus (Teleostei: Salmonidae) from Central Alpine Lakes,” Mol. Ecol. 7, 209–223 (1998).

    Article  CAS  Google Scholar 

  6. R. Chakraborty and M. Nei, “Bottleneck Effects on Average Heterozygosity and Genetic Distance with the Stepwise Mutational Model,” Evolution 31, 347–356 (1977).

    Article  Google Scholar 

  7. J. M. Cornuet and G. Luikart, “Description and Power Analysis of Two Tests for Detecting Recent Population Bottlenecks from Allele Frequency Data,” Genetics 144, 2001–2014 (1996).

    PubMed  CAS  Google Scholar 

  8. P. A. Crane, C. J. Lewis, S. J. Kretschmer, et al., “Characterization and Inheritance of Seven Microsatellite Loci from Dolly Varden, Salvelinus malma, and Cross-Species Amplification in Arctic Char, S. alpinus,” Conserv. Genet 5, 737–741 (2004).

    Article  Google Scholar 

  9. D. Dieringer and C. Schlotterer, “Microsatellite Analyzer (MSA): A Platform Independent Analysis Tool for Large Microsatellite Data Sets,” Mol. Ecol. Notes 3, 167–169 (2003).

    Article  CAS  Google Scholar 

  10. H. Ellegran, “Microsatellites: Simple Sequences with Complex Evolution,” Genetics 5, 435–445 (2004)

    Google Scholar 

  11. A. Estoup, P. Jarne, and J.-M. Cornuet, “Homoplasy and Mutation Model at Microsatellite Loci and Their Consequences for Population Genetics Analysis,” Mol. Ecol. 11, 1591–1604 (2002).

    Article  PubMed  CAS  Google Scholar 

  12. A. Estoup, P. Presa, F. Krieg, 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).

    Article  PubMed  CAS  Google Scholar 

  13. L. Excoffier, G. Laval, and S. Schneider, “Arlequin Ver. 3.0: An Integrated Software Package for Population Genetics Data Analysis,” Evol. Bioinform. Online 1, 47–50 (2005).

    CAS  Google Scholar 

  14. L. Excoffier, P. Smouse, and J. Quattro, “Analysis of Molecular Variance Inferred from Metric Distances Among DNA Haplotypes: Application to Human Mitochondrial DNA Restriction Data,” Genetics 131, 479–491 (1992).

    PubMed  CAS  Google Scholar 

  15. J. Felsenstein, PHYLIP: Phylogeny Inference Package. Ver. 3.4. Dept. Genome Sci. Biol. Univ. Wash. Seattle. WA. USA. http://evolution.gs.washington.edu/phylip/software. html. (2004).

    Google Scholar 

  16. G. S. Ganeshin, “Quartenary System,” in Geology of the USSR, Vol. 33: Sakhalin (Geological Description) (Nedra, Moscow, 1970), pp. 255–267 [in Russian].

    Google Scholar 

  17. J. C. Garza and E. G. Williamson, “Detection of Reduction in Population Size Using Data from Microsatellite Loci,” Mol. Ecol. 10, 305–318 (2001).

    Article  PubMed  CAS  Google Scholar 

  18. D. B. Goldstein, A. Ruiz Linares, L. L. Cavalli-Sforza, and M. Feldman, “Genetic Absolute Dating Based on Microsatellites and the Origin of Modern Humans,” Proc. Nat. Acad. Sci. U.S.A. 92, 6723–6727 (1995).

    Article  CAS  Google Scholar 

  19. J. Goudet, FSTAT, a Program to Estimate and Test Gene Diversities and Fixation Indices (Version 2.9.3). http://www.unil.ch/zea/softwares/fstat.html. (2001).

  20. O. F. Gritsenko, “Systematics and Origin of Sakhalin Chars of the Genus Salvelinus,” Tr. Vseros. Nauchno-Issled. Inst. Rybn. Khoz. Okeanogr., No. 106, 141–160 (1975).

  21. O. F. Gritsenko, Migratory Fish of Sakhalin: Systematics, Ecology, and Fishery (VNIRO, Moscow, 2002) [in Russian].

    Google Scholar 

  22. O. J. Hardy, N. Charbonnel, H. Freville, and M. Heuertz, “Microsatellite Allele Sizes: A Simple Test to Assess Their Significance on Genetic Differentiation,” Genetics 163, 1467–1482 (2003).

    PubMed  CAS  Google Scholar 

  23. P. Hedrick, “Perspective: Highly Variable Loci and Their Interpretation in Evolution and Conservation,” Evolution 53, 313–318 (1999).

    Article  Google Scholar 

  24. P. W. Hedrick, “Conservation Genetics: Where Are We Now?,” Trends Ecol. Evol. 16, 629–636 (2001).

    Article  Google Scholar 

  25. P. Hedrick, “Large Variance in Reproductive Success and the Ne/N Ratio,” Evolution 59, 1596–1599 (2005).

    PubMed  Google Scholar 

  26. S. T. Kalinowski, “Counting Alleles with Rarefaction: Private Alleles and Hierarchical Sampling Designs,” Conserv. Genet. 5, 539–543 (2004).

    Article  CAS  Google Scholar 

  27. S. T. Kalinowski, “HP-Rare 1.0: A Computer Program for Performing Rarefaction on Measures of Allelic Richness,” Mol. Ecol. 5, 187–189 (2005).

    Article  CAS  Google Scholar 

  28. S. T. Kalinowski and M. L. Taper, “Maximum Likelihood Estimation of the Frequency of Null Alleles at Microsatellite Loci,” Conserv. Genet. 7, 991–995 (2006).

    Article  CAS  Google Scholar 

  29. S. T. Kalinowski and R. S. Waples, “Relationship of Effective to Census Size in Fluctuating Populations,” Conserv. Biol. 16, 129–136 (2002).

    Article  Google Scholar 

  30. P.-A. Landry, M. T. Koskinen, and C. R. Primmer, “Deriving Evolutionary Relationships Among Populations Using Microsatellites and (δμ)2: All Loci Are Equal, but Some Are More Equal Than Others,” Genetics 161, 1339–1347 (2002).

    PubMed  Google Scholar 

  31. Y. Michalakis and L. Excoffier, “A Genetic Estimation of Population Subdivision Using Distance Between Alleles with Special Reference to Microsatellite Loci,” Genetics 142, 1061–1064 (1996).

    PubMed  CAS  Google Scholar 

  32. M. Nei, “Estimation of Average Heterozygosity and Genetic Distance from a Small Number of Individuals,” Genetics 89, 583–590 (1978).

    PubMed  Google Scholar 

  33. M. Nei, F. Tajima, and Y. Tateno, “Accuracy of Estimated Phylogenetic Trees from Molecular Data. II. Gene Frequency Data,” J. Mol. Evol. 19, 153–170 (1983).

    Article  PubMed  CAS  Google Scholar 

  34. J. B. Olsen, P. Bentzen, and J. E. Seeb, “Characterization of Seven Microsattelite Loci Derived from Pink Salmon,” Mol. Ecol. 7, 1087–1089 (1998).

    PubMed  CAS  Google Scholar 

  35. V. T. Omel’chenko, S. N. Nikiforov, and T. V. Malinina, “Allozyme Variation and Genetic Differentiation of the Population of Dolly Varden Trout (Salvelinus malma Walbaum) from Southeastern Sakhalin,” Genetika 34(12), 1655–1660 (1998).

    Google Scholar 

  36. P. O`Reilly, L. C. Hamilton, N. McConnell, and J. M. Wright, “Rapid Detection of Genetic Variation in Atlantic Salmon (Salmo salar) by PCR Multiplexing of Dinucleotide and Tetranucleotide Microsatellites,” Can. J. Fish. Aquat. Sci. 53, 2292–2298 (1996).

    Article  CAS  Google Scholar 

  37. A. G. Osinov and S. D. Pavlov, “Allozyme Variation and Genetic Divergence between Populations of Arctic Char and Dolly Varden (Salvelinus alpinus-Salvelinus malma Complex),” Vopr. Ikhtiol. 38(1), 47–61 (1998) [J. Ichthyol. 38 (1), 42–55 (1998)].

    Google Scholar 

  38. M. Yu. Pichugin, O. F. Gritsenko, and A. G. Osinov, “On Morphological Diversity of Southern Dolly Varden Trout Salvelinus malma krascheninnikovi from Water Bodies of Sakhalin,” Vopr. Ikhtiol. 48(3), 337–360 (2008) [J. Ichthyol. 48 (5), 367–390 (2008)].

    Google Scholar 

  39. S. Piry, G. Luikart, and J.-M. Cornuet, “BOTTLENECK: a Computer Program for Detecting Recent Reductions in the Effective Population Size Using Allele Frequency Data,” J. Hered. 90, 502–503 (1999).

    Article  Google Scholar 

  40. M. Raymond and F. Rousset, “GENEPOP (Version 1.2): Population Genetics Software for Exact Tests and Ecumenicism,” J. Hered. 86, 248–249 (1995).

    Google Scholar 

  41. J. Reynolds, B. S. Weir, and C. C. Cockerham, “Estimation of the Coancestry Coefficient: Basis for a Short-Term Genetic Distance,” Genetics 105, 767–779 (1983).

    PubMed  Google Scholar 

  42. W. R. Rice, “Analyzing Tables of Statistical Tests,” Evolution 43, 223–225 (1989).

    Article  Google Scholar 

  43. S. N. Safronov and T. V. Zvezdov, “Salvelinus vasiljevae sp.nova. A New Species of Freshwater Chars from Northwestern Sakhalin,” Vopr. Ikhtiol. 45(6), 737–748 (2005) [J. Ichthyol. 45 (9), 700–711 (205)].

    Google Scholar 

  44. S. N. Safronov and V. A. Skulyak, Resident Dolly Varden Salvelinus malma krassheninnikovi morfa curilus of Sakhalin, Available from VINITI, No. 2214-V96 (1996).

  45. N. Saitou and M. Nei, “The Neighbor-Joining Method: A New Method for Constructing Phylogenetic Trees,” Mol. Biol. Evol. 4, 406–425 (1987).

    PubMed  CAS  Google Scholar 

  46. E. A. Salmenkova, V. T. Omel’chenko, O. A. Radchenko, et al., “Genetic Divergence of Chars of the Genus Salvelinus in Kronotskoe Lake (Kamchatka Peninsula),” Genetika 41(8), 1096–1107 (2005).

    PubMed  CAS  Google Scholar 

  47. J. Sambrook, E. F. Fritsch, and T. Maniatis, 1989. Molecular Cloning: Laboratory Manual (Cold Spring Harbor Lab., New York, 1989).

    Google Scholar 

  48. V. P. Samusenok, S. S. Alekseev, A. N. Matveev, et al., “The Second Population of Arctic Charr Salvelinus alpinus Complex (Salmoniformes, Salmonidae) in the Lake Baikal Basin, the Highest Mountain Charr Population in Russia” Vopr. Ikhtiol. 46(8), 587–599 (2006) [J. Ichthyol. 46 (8), 587–599 (2006)].

    Google Scholar 

  49. M. F. Shul’gin, “On Classification of Rivers of Sakhalin,” in Sakhalin (Khabarovsk. Gos. Ped. In-t, Khabarovsk, 1971), pp. 18–28.

    Google Scholar 

  50. M. Slatkin, “A Measure of Population Subdivision Based on Microsatellite Allele Frequencies,” Genetics 139, 457–462 (1995).

    PubMed  CAS  Google Scholar 

  51. A. Slettan, I. Olsaker, and L. Oystein, “Segregation Studies and Linkage Analysis of Atlantic Salmon Microsatellites Using Haploid Genetics,” Heredity 78, 620–627 (1997).

    Article  PubMed  CAS  Google Scholar 

  52. C. C. Spencer, J. E. Neigel, and P. L. Leberg, “Experimental Evaluation of the Usefulness of Microsatellite DNA for Detecting Demographic Bottlenecks,” Mol. Ecol. 9, 1517–1528 (2000).

    Article  PubMed  CAS  Google Scholar 

  53. A. Ya. Taranets, “Freshwater Fish of the Basin from the Northwestern Part of the Sea of Japan,” Tr. Zool. Inst. Akad. Nauk SSSR 4(2), 483–537 (1936).

    Google Scholar 

  54. E. B. Taylor, Z. Redenbach, A. B. Costello, et al., “Nested Analysis of Genetic Diversity of Northwestern North American Charr, Dolly Varden (Salvelinus malma) and Bull Trout (Salvelinus confluentus),” Can. J. Fish. Aquat. Sci. 58, 406–420 (2001)

    Article  CAS  Google Scholar 

  55. R. S. Waples, “Effective Size of Fluctuating Salmon Populations,” Genetics 161, 783–791 (2002).

    PubMed  Google Scholar 

  56. B. S. Weir and C. C. Cockerham, “Estimation F-Statistics for the Analysis of Population Structure,” Evolution 38, 1358–1370 (1984).

    Article  Google Scholar 

  57. S. Wright, “Evolution in Mendelian Populations,” Genetics 16, 97–159 (1931).

    PubMed  CAS  Google Scholar 

  58. S. Yamamoto, K. Morita, I. Koizumi, and K. Maekawa, “Genetic Differentiation of White-Spotted Charr (Salvelinus leucomaenis) Populations after Habitat Fragmentation: Spatial-Temporal Changes in Gene Frequencies,” Conserv. Genet. 5, 529–538 (2004).

    Article  CAS  Google Scholar 

  59. A. I. Zhul’kov and A. P. Shershnev, “On the Morphological Characteristic of Migratory Char (the Genus Salvelinus) from the Eastern Coast of Sakhalin,” in Fish in Ecosystems of Salmon Rivers of the Far East (DVNTS Akad. Nauk SSSR, Vladivostok, 1981), pp. 102–105.

    Google Scholar 

  60. T. V. Zvezdov and S. N. Safronov, “Lake-River Dolly Varden Trout Salvelinus curilus (Pallas, 1833) from Lake Oktyabr’skoe on Sakhalin,” Chteniya Pamyati V.Ya. Levanidova, No. 2, 387–397 (2003).

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to A. G. Osinov.

Additional information

Original Russian Text © A.G. Osinov, N.V. Gordeeva, 2008, published in Voprosy Ikhtiologii, 2008, Vol. 48, No. 6, pp. 723–738.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Osinov, A.G., Gordeeva, N.V. Variability of microsatellite DNA and genetic differentiation of populations in the resident form of Dolly Varden Salvelinus malma krascheninnikovi from Sakhalin. J. Ichthyol. 48, 691–706 (2008). https://doi.org/10.1134/S0032945208090014

Download citation

  • Received:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1134/S0032945208090014

Keywords

Navigation