Volume 36 Issue 1
Jan.  2015
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Jin-Jin MIN, Rong-Hui YE, Gen-Fang ZHANG, Rong-Quan ZHENG. Microsatellite analysis of genetic diversity and population structure of freshwater mussel (Lamprotula leai). Zoological Research, 2015, 36(1): 34-40. doi: 10.13918/j.issn.2095-8137.2015.1.34
Citation: Jin-Jin MIN, Rong-Hui YE, Gen-Fang ZHANG, Rong-Quan ZHENG. Microsatellite analysis of genetic diversity and population structure of freshwater mussel (Lamprotula leai). Zoological Research, 2015, 36(1): 34-40. doi: 10.13918/j.issn.2095-8137.2015.1.34

Microsatellite analysis of genetic diversity and population structure of freshwater mussel (Lamprotula leai)

doi: 10.13918/j.issn.2095-8137.2015.1.34
Funds:  Public Welfare Projects of Technology Office in Zhejiang Province (2011C32SA700049); Major Science and Technology Specific Projects of Zhejiang Province (2012C12907-9); Science and Technology Plan Projects of Jinhua City (2011A22020)
 Supplemental Table 1 107 candidate primer pairs which cross-amplified in Lamprotula leai
More Information
  • Corresponding author: Rong-Hui YE, Rong-Quan ZHENG
  • Received Date: 2014-05-28
  • Rev Recd Date: 2014-12-03
  • Publish Date: 2015-01-08
  • Lamprotula leai is one of the most commercially important freshwater pearl mussels in China, but there is limited data on its genetic diversity and population structure. In the present study, 119 individuals from four major geographical populations were investigated using 15 microsatellite loci identified via cross-species amplification. A total of 114 alleles were detected, with an average of 7.6 alleles per locus (range: 2 to 21). Among the four stocks, those from Hung-tse Lake and Poyang Lake had the lowest (0.412) and highest (0.455) observed heterozygosity respectively. The polymorphism information content (PIC) ranged from 0.374 to 0.927 (mean: 0.907). AMOVA showed that 12.56% and 44.68% genetic variances were among populations and within individuals, respectively. Pairwise Fst ranged from 0.073 to 0.146, indicating medium genetic differentiation among the populations. In aggregate, our results suggest that inbreeding is a crucial factor accounting for deviations from Hardy–Weinberg equilibrium at 12 loci. Moreover, the genetic distance among four stocks ranged from 0.192 to 0.890. Poyang Lake and Hung-tse Lake were clustered together, joined with Dongting Lake and Anqing Lake. Given that specimens from Hung-tse Lake showed the highest average allele richness, expected heterozygosity and PIC, this location may be the source of the highest quality germplasm resources and the stock from this area may be the best for future breeding efforts.
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  • [1]
    Afanas'ev KI, Rubtsova GA, Malinina TV, Salmenkova EA, Omel'chenko VT, Zhivotovsky LA. 2006. Microsatellite variability and differentiation of hatchery stocks of chum salmon Oncorhynchus keta Walbaum in Sakhalin. Russian Journal of Genetics, 42(12): 1694-1702.
    An H, Kim MJ, Park K, Cho K, Bae BS, Kim J, Myeong JI. 2012. Genetic diversity and population structure in the heavily exploited Korean rockfish, Sebastes schlegeli, in Korea. Journal of the World Aquaculture Society, 43(1): 73-83.
    Bai ZY, Yin YX, Hu SN, Wang GL, Zhang XW, Li JL. 2009. Identification of genes involved in immune response, microsatellite, and SNP markers from expressed sequence tags generated from hemocytes of freshwater pearl mussel (Hyriopsis cumingii). Marine Biotechnology, 11(4): 520-530. (in Chinese)
    Botstein D, White RL, Skolnick M, Davis RW. 1980. Construction of a genetic linkage map in man using restriction fragment length polymorphisms. American Journal of Human Genetics, 32(3): 314-331.
    Excoffier L, Laval G, Schneider S. 2005. Arlequin ver. 3.0: An integrated software package for population genetics data analysis. Evolutionary Bioinformatics, 1: 47-50.
    Geist J, Rottmann O, Schroder W, Kuhn R. 2003. Development of microsatellite markers for the endangered freshwater pearl mussel Margaritifera margaritifera L. (Bivalvia:Unionoidea). Molecular Ecology Notes, 3(1): 444-446.
    Goodman SJ, Tamate HB, Wilson R, Nagata J, Tatsuzawa S, Swanson GS, Pemberton JM, McCullough DR. 2001. Bottlenecks, drift and differentiation: the population structure and demographic history of sika deer (Cervus nippon) in the Japanese archipelago. Molecular Ecology, 10(6): 1357-1370.
    Hai S, Li JL, Liu F, Feng JB. 2009. Isolation of microsatellite loci from Perca schrenkii and its universal in related species. Chinese Journal of Zoology, 44: 17-23. (in Chinese)
    Hale ML, Burg TM, Steeves TE. 2012. Sampling for microsatellite-based population genetic studies: 25 to 30 individuals per population is enough to accurately estimate allele frequencies. Plos One, 7(9): 1-10.
    Harper GL, Maclean N, Goulson D. 2003. Microsatellite markers to assess the influence of population size, isolation and demographic change on the genetic structure of the UK butterfly Polyommatus bellargus. Molecular Ecology, 12(12): 3349-3357.
    Huvet A, Boudry P, Ohresser M, Delsert C, Bonhomme F. 2000. Variable microsatellites in the Pacific oyster Crassostrea gigas and other cupped oyster species. Animal Genetics, 31(1): 71-72.
    Hered GJ. 1995. FSTAT (Version 1.2): A computer program to calculate F-statistics. Journal of Heredity, 86(6): 485-486.
    Hu ZQ. 2005. Geographical distribution of endemic species of Chinese freshwater bivalves. Chinese Journal of Zoology, 40(6): 80-83. (in Chinese)
    Ji W. 2007. Genetic Diversity of Five Freshwater Mussels and Isolation of Microsatellite DNA for Hyriopsis cumingii in Qinglan Lake, Jiangxi Province. Master's thesis. Huazhong Agricultural University, Wuhan. (in Chinese)
    Ji W, Wei KJ, Zhang GR, Shi ZC. 2007. Microsatellite DNA analysis of genetic diversity in five freshwater mussels in Qinglan Lake Jiangxi Province. Journal of Agricultural Biotechnology, 15(3): 429-433. (in Chinese)
    Jia ZY, Zhang YY, Chen SQ, Shi LY. 2012. Genetic diversity and differentiation of masu salmon (Oncorhynchus masou masou) between and within cultured populations inferred from microsatellite DNA analysis. Zoological Research, 33(E3-4): E33-E39.
    Jones JW, Culver M, David V, Struthers SJ, Ajohnson N, Neves RJ, Brien SJO, Hallerman EM. 2004. Development and characterization of microsatellite loci in the endangered oyster mussel Epioblasma capsaeformis (Bivalvia: Unionidae). Molecular Ecology Notes, 4(1): 649-652.
    Launey S, Hedgecock D. 2001. High genetic load in the pacific oyster Crassostrea gigas. Genetics, 159(1): 255-265.
    Laikre L, Palm S, Ryman N. 2005. Genetic population structure of fishes: implications for coastal zone management. Ambio, 34(2): 111-119.
    Li JL, Wang GL, Bai ZY. 2009. Genetic variability in four wild and two farmed stocks of the Chinese freshwater pearl mussel (Hyriopsis cumingii) estimated by microsatellite DNA markers. Aquaculture, 287(3-4): 286-291.
    Li JL, Wang GL, Bai ZY, Yue GH. 2007. Ten polymorphic microsatellites from freshwater pearl mussel, Hyriopsis cumingii. Molecular Ecology Notes, 7(6): 1357-1359.
    Ling G. 2005. Primary Studies on Conservation Biology of Lamprotula leai (Gray). Master's Thesis. Nanchang University, Nanchang. (in Chinese)
    Ling G, Wu XP, Ouyang S, Gao JH, Wu HS. 2005. The age and growth of Lamprotula leal Gray 1835. Journal of Nanchang University (Natural Science Edition), 29(5): 497-499, 507. (in Chinese)
    Liu XH, Yao YG. 2013. Characterization of 12 polymorphic microsatellite markers in the Chinese tree shrew (Tupaia belangeri chinensis). Zoological Research, 34(E2): E62-E68.
    Liu YY, Zhang WZ, Wang YX, Wang EY. 1979. China's Economic Fauna: Freshwater Mollusks. Beijing: Science Press. (in Chinese)
    Liu ZJ, Cordes JF. 2004. DNA marker technologies and their applications in aquaculture genetics. Aquaculture, 238: 1-37.
    Luo YM. 2006. Genetic Diversity of Four Hyriopsis cumingii (Bivalvia: Unionidae) Populations by SSR Analysis. Master's Thesis. Huazhong Agricultural University, Wuhan. (in Chinese)
    Ma HT, Chang YM, Yu DM, Sun XW. 2007. Microsatellite variations among four populations of Eriocheir sinensis. Zoological Research, 28(2): 126-133. (in Chinese)
    Magoulas A, Gjetvag B, Terzoglou V, Zouros E. 1998. Three polymorphic microsatellites in the Japanese oyster, Crassostrea gigas (Thunberg). Animal Genetics, 29(1): 69-70.
    Maudet C, Miller C, Bassano B, Breitenmoser-Wursten C, Gauthier D, Obexer-Ruff G, Michallet J, Taberlet P, Luikart G. 2002. Microsatellite DNA and recent statistical methods in wild conservation management: applications in Alpine ibex Capra ibex (ibex). Molecular Ecology, 11(3): 421-436.
    Nei M. 1978. Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics, 89(3): 583-590.
    Nei M. 1987. Molecular Evolutionary Genetics. New York: Columbia University Press,
    Rousset F. 2008. Genepop'007: a complete re-implementation of the Genepop software for Windows and Linux. Molecular Ecology Resources, 8(1): 103-106.
    Sambrook J, Russell DW. 2001. Molecular Cloning: A Laboratory Manual, 3rd ed. New York: Cold Spring Harbor Laboratory Press.
    Sekino M, Hamaguchi M, Aranishi F. 2003. Development of novel microsatellite DNA markers from the Pacific oyster Crassostrea gigas. Marine Biotechnology (NY), 5(3): 227- 233.
    Shen YB, Bai ZY, Guo SZ, Li JL. 2013. Polymorphic microsatellite loci for population genetics of the hard shelled mussel, Mytilus coruscus. Conservation Genetics Resources, 5(1): 121-123.
    Slatkin M. 1985. Gene flow in natural populations. Annual Review of Ecology and Systematics, 16(1): 393-430.
    Sun M. 1996. Effects of population size, mating system, and evolutionary origin on genetic diversity in Spiranthes sinensis and S. hongkongensis. Conservation Biology, 10(3): 785-795.
    Sun XW, Zhang XF, Zhao YY, Zhang Y, Jia ZY, Chang YM, Lu CY, Liang LQ. 2008. Development and application of microsatellite markers in aquatic species. Journal of Fishery Sciences of China, 15(4): 689-703. (in Chinese)
    Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P. 2004. Micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Molecular Ecology Notes, 4(3): 535-538.
    Wang GL, Su X, Li JL, Bai ZY. 2011a. Characterization of (GT)n microsatellite in Anodonta woodiana genome. Chinese Journal of Ecology, 30(1): 1-6. (in Chinese)
    Wang GL, Wang JJ, Li JL. 2006. Preliminary study on applicability of microsatellite primers developed from Crassostrea gigas to genomic analysis of Hyriopsis cumingii. Journal of Fisheries of China, 30(1): 15-20. (in Chinese)
    Wang GL, Yuan YM, Li JL. 2007. SSR analysis of genetic diversity and phylogenetic relationships among different populations of Hyriopsis cumingii from the five lakes of China. Journal of Fisheries of China, 31(2): 152-158. (in Chinese)
    Wang L, Meng ZN, Liu XC, Zhang Y, Lin HR. 2011b. Genetic diversity and differentiation of the orange-spotted grouper (Epinephelus coioides) between and within cultured stocks and wild populations inferred from microsatellite DNA analysis. International Journal of Molecular Sciences, 12(7): 4378-4394.
    Wright S. 1965. The interpretation of population structure by F-statistics with special regard to systems of mating. Evolution, 19(3): 395-420.
    Wu SZ, Guan YY, Huang XD, He MX. 2013. Development of 25 novel microsatellite loci and genetic variation analysis in breeding populations of the pearl oyster, Pinctada fucata. Journal of the World Aquaculture Society, 44(4): 600-609.
    Xu B, Li JL, Wang GL. 2011. Development and characterization of microsatellite loci in Lamprotula leai, with cross-amplification in Hyriopsis cumingii. Conservation Genetics Resources, 3(3): 545-547.
    Xu B, Wang GL, Li JL. 2012. Development of microsatellite markers from Lamprotula leai: A comparison of magnetic beads hybridization and 5'-anchored PCR methods. Chinese Journal of Ecology, 31(4): 923-930. (in Chinese)
    Xu N, Yang Z, Que YF, Shi F, Zhu B, Xiong MH. 2013. Genetic diversity and differentiation in broodstocks of the endangered Chinese sucker, Myxocyprinus asiaticus, using microsatellite markers. Journal of the World Aquaculture Society, 44(4): 520-527.
    Xu QQ, Xie J, Zhang SH, Zhao CY, Yuan HW. 2010. Isolation, characterization and polymorphism of microsatell markers in triangle mussel Hyriopsis cumingii. Journal of Fishery Sciences of China, 17(6): 1200-1207. (in Chinese)
    Yan LN, Zhang DX. 2004. Effects of sample size on various genetic diversity measures in population genetic study with microsatellite DNA markers. Acta Zoologica Sinica, 50(2): 279-290. (in Chinese)
    Yan XC, Tong GX, Kuang YY, Liang LQ, Sun XW. 2009. Analysis of genetic diversity between in two cultured populations of Pinctada Martensii Dunker cultured populations using microsatellite markers. Chinese Journal Fisheries, 22(1): 5-9. (in Chinese)
    Yeh FC, Yang RC, Boyle T. 1999. Popgene version 1.32. Microsoft window-base software for population genetic analysis: a quick user's guide. A joint Project development by the authors, University of Alberta, Center for International Forestry Research, Alberta, Canada.
    Zhang GF, Xu SJ, Fang AP. 2009. Preliminary study on the embryonic development of Lamprotula leai. Chinese Journal of Zoology, 44(4): 96-101. (in Chinese)
    Zhang GF, Xu SJ, Fang AP. 2010a. Parasitic metamorphosis development and effective accumulated temperature of glochidia of Lamprotula leai. Freshwater Fisheries, 40(3): 18-22. (in Chinese)
    Zhang GF, Xu SJ, Fang AP. 2010b. Development and growth of juvenile Lamprotula leai. Chinese Journal of Zoology, 45(5): 105-110. (in Chinese)
    Zhang Y, Yu DN, Du WG, Zheng RQ, Yang G. 2010c. Microsatellite DNA analysis of genetic diversity among captive breeding stocks of Chinese pond turtle (Chinemys reevesii). Journal of Fisheries of China, 34(11): 1636-1644. (in Chinese)
    Zheng RQ, Ye RH, Yu YY, Yang G. 2009. Fifteen polymorphic microsatellite markers for the giant spiny frog, Paa spinosa. Molecular Ecology Resources, 9(1): 336-338.
    Zhu XY, Zhou YF, Shu MA. 2010. Isolation and genetic diversity analysis of microsatellite in Hyriopsis cumingii. Jiangsu Journal of Agricultural Sciences, 26(5): 1026-1031. (in Chinese)
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