WANG Mosang, WANG Weiji, XIAO Guangxia, LIU Kefeng, HU Yulong, TIAN Tao, KONG Jie, JIN Xianshi. Genetic diversity analysis of spawner and recaptured populations of Chinese shrimp (Fenneropenaeus chinensis) during stock enhancement in the Bohai Bay based on an SSR marker[J]. Acta Oceanologica Sinica, 2016, 35(8): 51-56. doi: 10.1007/s13131-016-0830-0
Citation: WANG Mosang, WANG Weiji, XIAO Guangxia, LIU Kefeng, HU Yulong, TIAN Tao, KONG Jie, JIN Xianshi. Genetic diversity analysis of spawner and recaptured populations of Chinese shrimp (Fenneropenaeus chinensis) during stock enhancement in the Bohai Bay based on an SSR marker[J]. Acta Oceanologica Sinica, 2016, 35(8): 51-56. doi: 10.1007/s13131-016-0830-0

Genetic diversity analysis of spawner and recaptured populations of Chinese shrimp (Fenneropenaeus chinensis) during stock enhancement in the Bohai Bay based on an SSR marker

doi: 10.1007/s13131-016-0830-0
  • Received Date: 2015-07-01
  • Rev Recd Date: 2015-11-30
  • Eight microsatellite markers were used to analyze genetic diversity, level of inbreeding, and effective population size of spawner and recaptured populations of Chinese shrimp (Fenneropenaeus chinensis) during stock enhancement in the Bohai Bay in 2013. A total of 254 and 238 alleles were identified in the spawner and recaptured populations, respectively, and the numbers of alleles (Na) were 8-63 and 6-60, respectively. The numbers of effective alleles (Ne) were 2.52-21.60 and 2.67-20.72, respectively. The polymorphism information content ranged from 0.529 to 0.952. The observed heterozygosity (Ho) values (0.638-0.910 and 0.712-0.927) were lower than the expected heterozygosity (He) values (0.603-0.954 and 0.625-0.952), which indicated that the two populations possessed a rich genetic diversity. In 16 tests (2 populations×8 loci), 13 tests deviated from the HardyWeinberg equilibrium. Fis values were positive at seven loci and the inbreeding coefficients (F) of the two populations estimated by trioML were 13.234% and 11.603%, suggesting that there was a relatively high degree of inbreeding. A certain level of inbreeding depression had occurred in the Chinese shrimp population. Fst values ranged from 0 to 0.059, with a mean of 0.028, displaying a low level of genetic differentiation in the two populations. Effective population sizes (3 060.2 and 3 842.8) were higher than the minimum number suggested for retaining the evolutionary potential to adapt to new environmental conditions. For enhancement activity in 2014, the ideal number of captured shrimp spawners should have ranged from 7 686 to 19 214 to maintain genetic diversity and effective population size. Further strategies to adjust the balance of economic cost, fishing effort and ideal number of shrimp spawners to maintain a satisfactory effective population size for ensuring the sustainability of Chinese shrimp are proposed.
  • loading
  • Ball A O, Leonard S, Chapman R W. 1998. Characterization of (GT)n microsatellites from native white shrimp (Penaeus setiferus). Molecular Ecology, 7(9):1251-1253
    Bekkevold D, Hansen M M, Nielsen E E. 2006. Genetic impact of gadoid culture on wild fish populations:predictions, lessons from salmonids, and possibilities for minimizing adverse ef-fects. ICES Journal of Marine Science, 63(2):198-208
    Berthier P, Beaumont M A, Cornuet J M, et al. 2002. Likelihood-based estimation of the effective population size using temporal changes in allele frequencies:a genealogical approach. Genet-ics, 160(2):741-751
    Bucklin K A. 2002. Analysis of the genetic basis of inbreeding depres-sion in the Pacific oyster Crassostrea gigas[dissertation]. Davis, CA:University of California
    Cao Baoxiang, Kong Jie, Luo Kun, et al. 2015. Comparison of growth and survival performance among selected population, impor-ted population and inbreeding population in Litopenaeus van-namei. Journal of Fisheries of China (in Chinese), 39(1):42-51
    Crow A J, Kimura M. 1965. Evolution in sexual and asexual popula-tions. The American Naturalist, 99(909):439-450
    Deng Jingyao, Ye Changchen, Liu Yongchang. 1990. Penaeus chinen-sis in the Bohai and Yellow Seas-Its Biology and Management (in Chinese). Beijing:China Ocean Press, 36-64
    Deng Jingyao, Zhuang Zhimeng. 2001. The cause of recruitment vari-ation of Penaeus chinensis in the Bohai Sea. Journal of Fishery Sciences of China (in Chinese), 7(4):125-128
    Do C, Waples R S, Peel D, et al. 2014. NeEstimator V2:re-implement-ation of software for the estimation of contemporary effective population size (Ne) from genetic data. Molecular Ecology Re-sources, 14(1):209-214
    Dong Shirui, Kong Jie, Zhang Tianshi, et al. 2006. Parentage determ-ination of Chinese shrimp (Fenneropenaeus chinensis) based on microsatellite DNA markers. Aquaculture, 258(1-4):283-288
    Dong Shirui, Luan Sheng, Kong Jie. 2014. Screening of microsatellite DNA markers associated with growth traits in a single Fenner-openaeus chinensis family. Journal of Fishery Sciences of China (in Chinese), 21(5):936-943
    Doyle R W. 2016. Inbreeding and disease in tropical shrimp aquacul-ture:a reappraisal and caution. Aquaculture Research, 47(1):21-35
    Evans F, Matson S, Brake J, et al. 2004. The effects of inbreeding on performance traits of adult Pacific oysters (Crassostrea gigas). Aquaculture, 230(1-4):89-98
    Falconer D S, Mackay T F C. 1996. Introduction to Quantitative Ge-netics. 4th ed. Harlow, UK:Longman, 23(3):223-226
    Frankham R, Gilligan D M, Morris D, et al. 2001. Inbreeding and ex-tinction:effects of purging. Conservation Genetics, 2(3):279-284
    Franklin I R. 1980. Chapter 8:Evolutionary change in small popula-tions. In:Soule M E, Wilcox B A, eds. Conservation Biology. An Evolutionary-Ecological Perspective. Sunderland:Sinauer As-sociates Inc Press, 135-149
    Franklin I R, Frankham R. 1998. How large must populations be to re-tain evolutionary potential?. Animal Conservation, 1(1):69-70
    Hill W G. 1981. Estimation of effective population size from data on linkage disequilibrium. Genetical Research, 38(3):209-216
    Jorde P E, Ryman N. 2007. Unbiased estimator for genetic drift and ef-fective population size. Genetics, 177(2):927-935
    Keller L, Peer K, Bernasconi C, et al. 2011. Inbreeding and selection on sex ratio in the bark beetle Xylosandrus germanus. BMC Evolutionary Biology, 11(1):359
    Keller L F, Waller D M. 2002. Inbreeding effects in wild populations. Trends in Ecology & Evolution, 17(5):230-241
    Keys S J, Crocos P J, Burridge C Y, et al. 2004. Comparative growth and survival of inbred and outbred Penaeus (Marsupenaeus) ja-ponicus, reared under controlled environment conditions:in-dications of inbreeding depression. Aquaculture, 241(1-4):151-168
    Li Wenkang, Liu Kefeng, Miao Jun, et al. 2009. Stocking technology on Chinese shrimp. Chinese Fisheries Economics (in Chinese), 27(2):59-63
    Li Weiya, Wang Weiji, Kong Jie, et al. 2012a. Establishment of the mi-crosatellite quadruple PCR technology for Fenneropenaeus chinensis and its application in the evaluation on the effect of releasing simulation. Haiyang Xuebao (in Chinese), 34(5):213-220
    Li Zhongyi, Wang Jun, Zhao Zhenliang, et al. 2012b. Resources en-hancement of Fenneropenaeus orientalis in the Bohai Sea. Pro-gress in Fishery Sciences (in Chinese), 33(3):1-7
    Lokko Y, Dixon A, Offei S, et al. 2006. Assessment of genetic diversity among African cassava Manihot esculenta Grantz accessions resistant to the cassava mosaic virus disease using SSR markers. Genetic Resources and Crop Evolution, 53(7):1441-1453
    Luikart G, Ryman N, Tallmon D A, et al. 2010. Estimation of census and effective population sizes:the increasing usefulness of DNA-based approaches. Conservation Genetics, 11(2):355-373
    Luo Kun, Kong Jie, Luan Sheng, et al. 2014. Effect of inbreeding on survival, WSSV tolerance and growth at the postlarval stage of experimental full-sibling inbred populations of the Chinese shrimp Fenneropenaeus Chinensis. Aquaculture, 420-421:32-37
    Ma Dayong, Hu Honglang, Kong Jie. 2005. Inbreeding and its impact on aquaculture. Journal of Fisheries of China (in Chinese), 29(6):849-856
    Marshall T C, Slate J, Kruuk L E B, et al. 1998. Statistical confidence for likelihood-based paternity inference in natural populations. Molecular Ecology, 7(5):639-655
    Meng Xianhong, Wang Qingyin, Jang I K, et al. 2009. Genetic differen-tiation in seven geographic populations of the fleshy shrimp Penaeus (Fenneropenaeus) Chinensis based on microsatellite DNA. Aquaculture, 287(1-2):46-51
    Moss D R, Arce S M, Otoshi C A, et al. 2007. Effects of inbreeding on survival and growth of Pacific white shrimp Penaeus (Litopen-aeus) vannamei. Aquaculture, 272(S1):S30-S37
    Nei M. 1975. Molecular population genetics and evolution. Frontiers of Biology, 40:I-288
    Nei M, Tajima F. 1981. Genetic drift and estimation of effective popu-lation size. Genetics, 98(3):625-640
    Nomura T. 2008. Estimation of effective number of breeders from molecular coancestry of single cohort sample. Evolutionary Ap-plications, 1(3):462-474
    Pollak E. 1983. A new method for estimating the effective population size from allele frequency changes. Genetics, 104(3):531-548
    Raymond M, Rousset F. 1995. GENEPOP (Version 1.2):population genetics software for exact tests and ecumenicism. Journal of Heredity, 86(3):248-249
    Templeton A R, Read B. 1994. Inbreeding:one word, several mean-ings, much confusion. In:Loeschke V, Tomiuk J, Jain S K, eds. Conservation Genetics. Basel:Birkhuser, 91-105
    Tolone M, Mastrangelo S, Rosa A J M, et al. 2011. Genetic diversity and population structure of sicilian sheep breeds using mi-crosatellite markers. Small Ruminant Research, 102(1):18-25
    Utter F M, Seeb J E, Seeb L W. 1993. Complementary uses of ecologic-al and biochemical genetic data in identifying and conserving salmon populations. Fisheries Research, 18(1-2):59-76
    Wang Weiji. 2008. I Genetic mapping of the Chinese shrimp Fenner-openaeus chinensis using AFLP markers and commercial traits QTL mapping. Genetic linkage mapping using AFLP markers and primarily study on sex-determination of bluegill sunfish (Lepomis macrochirus) (in Chinese)[dissertation]. Qingdao:Ocean University of China
    Wang Jinliang. 2011. Coancestry:a program for simulating, estimat-ing and analysing relatedness and inbreeding coefficients. Mo-lecular Ecology Resources, 11(1):141-145
    Wang Shizhen, Hard J J, Utter F. 2002. Salmonid inbreeding:a review. Reviews in Fish Biology and Fisheries, 11(4):301-319
    Wang Weiji, Zhang Kai, Luo Kun, et al. 2014. Assessment of recapture rates after hatchery release of Chinese shrimp Fenneropenaeus chinensis in Jiaozhou Bay and Bohai Bay in 2012 using pedigree tracing based on SSR markers. Fisheries Science, 80(4):749-755
    Wang Qingyin, Zhuang Zhimeng, Deng Jingyao, et al. 2006. Stock en-hancement and translocation of the shrimp Penaeus chinensis in China. Fisheries Research, 80(1):67-79
    Waples R S. 2006. A bias correction for estimates of effective popula-tion size based on linkage disequilibrium at unlinked gene loci. Conservation Genetics, 7(2):167-184
    Waples R S, Do C. 2010. Linkage disequilibrium estimates of contem-porary Nusing highly variable genetic markers:a largely un-etapped resource for applied conservation and evolution. Evolu-tionary Applications, 3(3):244-262
    Waples R S, Gaggiotti O. 2006. What is a population? an empirical evaluation of some genetic methods for identifying the number of gene pools and their degree of connectivity. Molecular Eco-logy, 15(6):1419-1439
    Weir B S, Hill W G. 1980. Effect of mating structure on variation in linkage disequilibrium. Genetics, 95(2):477-488
    Wright S. 1978. Evolution and the Genetics of Populations:Variability Within and Among Natural Populations. Chicago:University of Chicago Press, 80-89
    Ye Changchen, Deng Jingyao, Li Peijun, et al. 1995. Fishery Stock En-hancement:Theory, Method, Evaluation and Management (in Chinese). Jilong:Fisheries Press
    Ye Changchen, Song Xin, Han Dewu. 2002. Estimation on proportion of releasing and wild shrimp in the mixed population. Fisheries Science (in Chinses), 21(4):31-32
    Zhang Tianshi, Kong Jie, Wang Weiji, et al. 2010. Genetic variability assessed by microsatellites in the breeding populations of the shrimp Penaeus (Fenneropenaeus) Chinensis in China. Aquaculture, 310(1-2):229-233
    Zhang Hongyu, Luo Kun, Kong Jie, et al. 2009. Effects of inbreeding on growth survival and stress resistance in Fenneropenaeus chinensis. Journal of Fishery Sciences of China, 16(5):744-750
    Zhang Kai, Xiao Guangxia, Wang Weiji, et al. 2015. Genetic variation analysis across six life periods in a natural population of the Chinese Shrimp "Fenneropenaeus chinensis" in Bohai Bay us-ing SSR Markers. Russian Journal of Marine Biology, 41(1):10-16
    Zhuang Zhimeng, Shi Tuo, Kong Jie, et al. 2001. Genetic diversity in Penaeus chinensis shrimp as revealed by RAPD technique. Pro-gress in Natural Science, 11(6):432-438
  • 加载中


    通讯作者: 陈斌,
    • 1. 

      沈阳化工大学材料科学与工程学院 沈阳 110142

    1. 本站搜索
    2. 百度学术搜索
    3. 万方数据库搜索
    4. CNKI搜索

    Article Metrics

    Article views (1354) PDF downloads(2333) Cited by()
    Proportional views


    DownLoad:  Full-Size Img  PowerPoint