Animal cells and systems

The Korean Society for Integrative Biology (한국통합생물학회)
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Isolation and characterization of micro satellite loci in the Korean crayfish, Cambaroides similis and application to natural population analysis

  • Ahn, Dong-Ha (Department of Bivlogical Sciences, Inha University) ;
  • Park, Mi-Hyun (Department of Bivlogical Sciences, Inha University) ;
  • Jung, Jae-Ho (Department of Bivlogical Sciences, Inha University) ;
  • Oh, Mi-Jin (Department of Biological Science, Seoul National University) ;
  • Kim, Sang-Hee (Korea Polar Research Institute) ;
  • Jung, Jong-Woo (Department of Science Education, Ewha Womans University) ;
  • Min, Gi-Sik (Department of Bivlogical Sciences, Inha University)
  • Received : 2010.08.24
  • Accepted : 2010.12.01
  • Published : 2011.03.31
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Abstract

The Korean freshwater crayfish, Cambaroides similis, has recently suffered from range reduction and habitat degradation caused by environmental changes and water pollution. For the conservation and restoration of this species, it is necessary to understand the current population structures of Korean C. similis using estimation of their genetic variation. In this study, eight micro satellite loci were developed and characterized from 49 individuals collected from four locations: one population from Mt. Bukhan (BH) and three populations from Mt. Gwanak (GA) in Seoul, Korea. As a result, the number of alleles per locus ranged from 2 to 12. The observed heterozygosities and expected heterozygosities ranged from 0.000 to 0.833 and from 0.125 to 0.943, respectively, and the former values were significantly lower than the latter ones expected under the Hardy-Weinberg equilibrium. No significant linkage disequilibrium was revealed between any of the locus pairs after Bonferroni correction. From the pairwise Fst results over all samples, higher differentiation between GA-BH population pairs (mean 0.1789) was observed than between GA population pairs (mean 0.0454). This was also supported by Mantel's test showing that the genetic distances of these crayfish populations were significantly correlated with geographic distances. This result may show the regional differentiation caused by restricted gene flow between northern (BH) and southern (GA) populations within Seoul. These micro satellite markers have the potential for use in analyses of the genetic diversity and population structure of C. similis species, with implications for its conservation and management plans.

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References

  1. Ahn DH. Kawai T, Kim SJ, Rho HS, Jung JW, Kim W, Lim BJ, Kim MS, Min GS. 2006. Phylogeny of northern hemisphere freshwater crayfishes based on 16S rRNA gene analysis. Korean J Genetic. 28:185-192.
  2. Buckley FM, Pollett PK. 2010. Limit theorems for discretetime metapopulation models. Probability Surveys. 7:53-83. https://doi.org/10.1214/10-PS158
  3. Crandall KA. 1997. Genetic variation within and among crayfish species. Freshwater Crayfish. 11: 135-145.
  4. Crandall KA, Robison HW, Buhay JE. 2009. Avoidance of extinction through nonexistence: the use of museum specimens and molecular genetics to detcrmine the taxonomic status of an endangered freshwater crayfish. Conserv Genet. 10:177-189. https://doi.org/10.1007/s10592-008-9546-9
  5. Edgerton BF, Henttonen P, Jussila J, Mannonen A, Paasonen P, Taugbol T, Edsman L, Souty-Grosset C. 2004. Understanding the causes of disease in European freshwater crayfish. Conserv Biol. 18:1466-1474. https://doi.org/10.1111/j.1523-1739.2004.00436.x
  6. Edsman L, Farris JS, Kallersjo M, Prestegaard T. 2002. Genetic differentiation between noble crayfish, Astacus astacus (L.), populations detected by micro satellite length variation in the rDNA ITS1 region. B Fr Peche Piscic. 367:691-706.
  7. Gherardi F, Souty-Grosset C, Reynolds J. 2003. Understanding and managing biodiversity in relation to native crayfish populations in Europe. B Fr Peche Piscic. 370:7-14.
  8. Gouin N, Grandjean F, Souty-Grosset C. 2000. Characterization of micro satellite loci in the endangered freshwater crayfish Austropotamobius pallipes (Astacidae) and their potential use in other decapods. Mol Ecol. 9:636-637. https://doi.org/10.1046/j.1365-294x.2000.00882-4.x
  9. Gouin N, Grandjean F, Souty-Grosset C. 2006. Population genetic structure of the endangered crayfish Austropotamobius pallipes in France based on micro satellite variation: biogeographical inferences and conservation implications. Freshwater Biol. 51:1369-1387. https://doi.org/10.1111/j.1365-2427.2006.01570.x
  10. Hammond RL, Saccheri IJ, Ciofi C, Coote T, Funk SM, McMillan WO, Bayes MK, Taylor E, Bruford MW. 1998. Isolation of microsatellite markers in animals. In: Karp A, Isaac PG, Ingram DS, editors. Molecular tools for screening biodiversity. Weinheim: Chapman & Hall. p.279-285.
  11. Jensen JL, Bohonak AJ, Kelley ST. 2005. Isolation by distance, web service. BMC Genet. 6:13.
  12. Kawai T, Min GS. 2005. Re-examination of type material of Cambaroides similis (Koelbel, 1892) (Decapoda: Cambaridae) with a lectotype designation, re-description, and evaluation of geographical variation. Proc Biol Soc Wash. 118:777-793. https://doi.org/10.2988/0006-324X(2005)118[777:ROTMOC]2.0.CO;2
  13. Kim HS. 1977. Illustrated encyclopedia of fauna and flora of Korea Vol. 19. Macura. Seoul: Ministry of Education & Samhwa Publishing Co. p. 350-355.
  14. Kim S, Kim YH, Yoon JM. 2006. Genetic variation in geographic crayfish (Cambaroides similis) populations. J Fish Pathol. 19:141-153.
  15. Li Q, Park C, Endo T, Kijima A. 2004. Loss of genetic variation at micro satellite loci in hatchery strains of the Pacific abalone (Haliotis discus hannai). Aquaculture. 235:207-222. https://doi.org/10.1016/j.aquaculture.2003.12.018
  16. Lodge DM, Taylor CA, Holdich DM, Skurdal J. 2000. Nonindigenous crayfishes threaten North American freshwater biodiversity: lessons from Europe. Fisheries. 25:7-20.
  17. Rice WR. 1989. Analyzing tables of statistical tests. Evolution. 43:223-225. https://doi.org/10.2307/2409177
  18. Rousset F. 2008. GENEPOP '007: a complete re-implementation of the GENEPOP software for Windows and Linux. Mol Ecol Resour. 8:103-106. https://doi.org/10.1111/j.1471-8286.2007.01931.x
  19. Rozen S, Skaletsky H. 2000. Primer 3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S, editors. Bioinformatics methods and protocols: methods in molecular biology. Totowa (NJ): Humana Press. p. 365-386.
  20. Schuelke M. 2000. An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol. 18:233-234. https://doi.org/10.1038/72708
  21. Taylor CA. 2002. Taxonomic and conservation status of native crayfish stocks. In: Holdich DM, editor. Biology of freshwater crayfish. Nottingham: Blackwell Science. p.236-257.
  22. Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P. 2004. MICRO-CHECKER: software for identifying and correcting genotyping errors in micro satellite data. Mol Ecol Notes. 4:535-538. https://doi.org/10.1111/j.1471-8286.2004.00684.x
  23. Versteegen M, Lawler S. 1996. Population genetics of the Murray River crayfish Euastacus armatus. Freshwater Crayfish. 11:146-157.
  24. Weir BS, Cockerham CC. 1984. Estimating F-Statistics for the Analysis of Population Structure. Evolution 38: 1358-1370. https://doi.org/10.2307/2408641
  25. Yue GH, Li J, Bai Z, Wang CM, Feng F. 2010. Genetic diversity and population structure of the invasive alien red swamp crayfish. Biol Invasions. 12:2697-2706. https://doi.org/10.1007/s10530-009-9675-1
  26. Zaccara S, Stefani F, Crosa G. 2005. Diversity of mitochondrial DNA of the endangered white-clawed crayfish (Austropotamobius italicus) in the Po River catchment. Freshwater Biol. 50:1262-1272. https://doi.org/10.1111/j.1365-2427.2005.01385.x

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