Browse > Article
http://dx.doi.org/10.5352/JLS.2015.25.12.1347

The Study of Genetic Diversity and Population Structure of the Korean Fleshy Shrimp, Fenneropenaeus chinensis, Using Newly Developed Microsatellite Markers  

Shin, Eun-Ha (Biotechnology Research Division, National Fisheries Research and Development Institute)
Kong, Hee Jeong (Biotechnology Research Division, National Fisheries Research and Development Institute)
Nam, Bo-Hye (Biotechnology Research Division, National Fisheries Research and Development Institute)
Kim, Young-Ok (Biotechnology Research Division, National Fisheries Research and Development Institute)
Kim, Bong-Seok (Future Aquaculture Research Center, National Fisheries Research and Development Institute)
Kim, Dong-Gyun (Biotechnology Research Division, National Fisheries Research and Development Institute)
An, Cheul Min (Biotechnology Research Division, National Fisheries Research and Development Institute)
Jung, Hyungtaek (Biotechnology Research Division, National Fisheries Research and Development Institute)
Kim, Woo-Jin (Biotechnology Research Division, National Fisheries Research and Development Institute)
Publication Information
Journal of Life Science / v.25, no.12, 2015 , pp. 1347-1353 More about this Journal
Abstract
The fleshy shrimp, Fenneropenaeus chinensis, is the family of Penaeidae and one of the most economically important marine culture species in Korea. However, its genetic characteristics have never been studied. In this study, a total of 240 wild F. chinensis individuals were collected from four locations as follows: Narodo (NRD, n = 60), Beopseongpo (BSP, n = 60), Chaesukpo (CSP, n = 60), and Cheonsuman (CSM, n = 60). Genetic variability and the relationships among four wild F. chinensis populations were analyzed using 13 newly developed microsatellite loci. Relatively high levels of genetic variability (mean allelic richness = 16.87; mean heterozygosity = 0.845) were found among localities. Among the 52 population loci, 13 showed significant deviation from the Hardy–Weinberg equilibrium. Neighbor-joining, principal coordinate, and molecular variance analyses revealed the presence of three subpopulations (NRD, CSM, BSP and CSP), which was consistent with clustering based on genetic distance. The mean observed heterozygosity values of the NRD, CSM, BSP, and CSP populations were 0.724, 0.821, 0.814, and 0.785 over all loci, respectively. These genetic variability and differentiation results of the four wild populations can be applied for future genetic improvement using selective breeding and to design suitable management guidelines for Korean F. chinensis culture.
Keywords
Fleshy shrimp; Fenneropenaeus chinensis; genetic variability; microsatellite loci; population structure;
Citations & Related Records
Times Cited By KSCI : 1  (Citation Analysis)
연도 인용수 순위
1 Wright, S. 1998. Evolution and the genetics of population, variability within and among natural populations. The University of Chicago Press, Chicago.
2 Weir, B. S. and Cockerham, C. C. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38, 1358-1370.   DOI
3 Wang, X., Guo, X., Zhang, Y., Meng, X., Qiu, X., Liu, S. and Zhang, T. 2009. Development of polymorphic EST-derived SSR markers for the shrimp, Fenneropenaeus chinensis. Conserv. Genet. 10, 1455-1457.   DOI
4 Wang, H., Li, F., Xiang, J., Zhang, C. and Yu, K. 2008. Microsatellite-centromere distances and microsatellite diversity in different ploidy classes of Chinese shrimp (Fenneropenaeus Chinensis). Genetica 132, 43-50.
5 Dong, S., Kong, J., Zhang, T., Meng, X. and Wang, R. 2006. Parentage determination of Chinese shrimp (Fenneropenaeus chinensis) based on microsatellite DNA markers. Aquaculture 258, 283-288.   DOI
6 Deng, J. Y., Ye, C. C. and Liu, Y. C. 1990. Penaeus chinensis in the Bohai and Yellow seas. pp. 48-91. In: Deng, J. Y. (eds.), its biology and management. Ocean Press, Beijing, China.
7 Deng, J. Y., Kang, Y. D. and Jiang, Y. W. 1983. A summary of surveys of the Penaeid shrimp spawning ground in the Bohai Bay. Mar. Fish. Res. 5, 17-23.
8 Cavalli-Sforza, L. L. and Edwards, A. W. 1967. Phylogenetic analysis. Models and estimation procedures. Am. J. Hum. Genet. 19, 233-257.
9 Castro, J., Bouza, C., Presa, P., Pino-Querido, A., Riaza, A., Ferreiro, I., Sanchez, L. and Martines, P. 2004. Potential sources of error in parentage assessment of turbot (Scophthalmus maximus) using microsatellite loci. Aquaculture 242, 119-135.   DOI
10 Heo, M. S. 2005. Characterization of the white spot syndrome baculovirus (WSBV) infection in fresh shrimp, Penaeus chinensis, cultured in Korea. J. Life Sci. 15, 248-252.   DOI
11 Hedgecock, D., Tracey, M. L. and Nelson, K. 1982. Genetics. pp. 284-403. In: Abele, L. G. (eds.), the Biology of Crustacea. Academic Press, New York.
12 Jang, I. K., Jun, J. C., Jo, G. J., Cho, Y. R., Seo, H. C., Kim, B. L. and Kim, J. S. 2007. Polyculture of fleshy shrimp Fenneropenaeus chinensis and white shrimp Litopenaeus vannamei with river puffer Takifugu obscurus in shrimp ponds. J. Aquacul. 20, 278-288.
13 Goldstein, D. G. and Pollock, D. D. 1997. Launching micro-satellites: a review of mutation processes and methods of phylogenetic inference. J. Hered. 88, 335-342.   DOI
14 Gao, H., Kong, J., Yan, B., Yu, F., Luan, S. and Cai, S. 2008. Twelve new microsatellite markers for the Chinese shrimp Fenneropenaeus chinensis. Mol. Ecol. Resour. 8, 325-327.   DOI
15 Excoffier, L., Laval, G. and Schneider, S. 2005. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol. Bioinform 1, 47-50.
16 Excoffier, L., Smouse, P. E. and Quattro, J. M. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131, 479-491.
17 Dong, S., Kong, J., Meng, X., Zhang, Q., Zhang, T. and Wang, R. 2008. Microsatellite DNA markers associated with resistance to WSSV in Penaeus (Fenneropenaeus) chinensis. Aquaculture 282, 138-141.   DOI
18 Rousset, F. and Raymond, M. 1995. Testing heterozygote excess and deficiency. Genetics 140, 1413-1419.
19 Pritchard, J. K., Wen, X. and Falush, D. 2007. Documentation for structure software: version 2.2. University of Chicago, Chicago, 1-36.
20 Pemberton, J. M., Slate, J., Bancroft, D. R. and Barrett, J. A. 1995. Non amplifying alleles at microsatellite loci: a caution for parentage and population studies. Mol. Ecol. 4, 249-252.   DOI
21 Peakall, R. and Smouse, P. E. 2006. GENALEX 6; genetic analysis in excel. Population genetic software for research and teaching. Mol. Ecol. Notes 6, 288-295.   DOI
22 Meng, X. H., Wang, Q. Y., Jang, I. K., Liu, P. and Kong, J. 2009. Genetic differentiation in seven geographic populations of the fleshy shrimp Penaeus (Fenneropenaeus) chinensis based on microsatellite DNA. Aquaculture 287, 46-51.   DOI
23 Marshall, T. C., Slate, J., Kruuk, L. E. B. and Pemberton, J. M. 1998. Statistical confidence for likelihood-based paternity inference in natural populations. Mol. Ecol. 7, 639-655.   DOI
24 Liu, Z. J. and Cordes, J. F. 2004. DNA marker technologies and their applications in aquaculture genetics. Aquaculture 238, 1-37.   DOI
25 Liu, P., Meng, X. H., Kong, J., He, Y. Y. and Wang, Q. Y. 2006. Polymorphic analysis of microsatellite DNA in wild populations of Chinese shrimp (Fenneropenaeus chinensis). Aquac. Res. 37, 556-562.   DOI
26 Herbinger, C. M., Doyle, R. W., Pitman, E. R., Paquet, D., Mesa, K. T., Morris, D. B., Wright, J. M. and Cook, D. 1995. DNA fingerprint based analysis of parental and maternal effects on offspring growth and survival in communally reared rainbow trout. Aquaculture 137, 245-256.   DOI
27 Xu, P., Zhou, L. H. and Xiang, J. H. 2001. Isolating microsatellite DNA of Chinese shrimp Penaeus chinensis. Oceanol. Limnol. Sin. 32, 255-259.