DONG Zaijie, LIU Nian, FU Jianjun, ZHU Wenbin, WANG Lanmei, SU Shengyan. Genetic analysis for six wild and selection populations of common carp (Cyprinus carpio) using microsatellites[J]. South China Fisheries Science, 2018, 14(4): 46-55. DOI: 10.3969/j.issn.2095-0780.2018.04.006
Citation: DONG Zaijie, LIU Nian, FU Jianjun, ZHU Wenbin, WANG Lanmei, SU Shengyan. Genetic analysis for six wild and selection populations of common carp (Cyprinus carpio) using microsatellites[J]. South China Fisheries Science, 2018, 14(4): 46-55. DOI: 10.3969/j.issn.2095-0780.2018.04.006

Genetic analysis for six wild and selection populations of common carp (Cyprinus carpio) using microsatellites

More Information
  • Received Date: January 18, 2018
  • Revised Date: March 22, 2018
  • Available Online: December 04, 2018
  • We genotyped a total of 208 individuals of common carp (Cyprinus carpio) from four wild populations [Qingshuijiang (QSJ), Taihu (TH), C.carpio haematopterus (Huangheli, HHL) and C.carpio amurensis (Heilongjiang, HLJ)] and two selected strains [C.carpio var. FFRC (FRL) and C.carpio var. specularis 'Song-pu' (SPJ)] by using 12 microsatellite markers. Altogether 341 alleles were detected in 12 loci, with an average of 28.67 alleles per locus, and one locus (HLJ1127) was under strong selection pressure. Two selection strains showed lower genetic diversity parameters values than four wild populations. Strain SPJ showed the lowest genetic diversity parameters values (Na=6.82, Ho=0.54 and PIC=0.50), whereas Strain QSJ presented the highest parameters values (Na=21.25, Ho=0.80 and PIC=0.91). The analysis of molecular variance indicates that most of the genetic variance was within populations; however, significant genetic divergence among populations was detected (P<0.01). Similar results had been found by UPGMA dendrogram and PCoA plots using Nei's genetic distances among six populations. The wild populations had closer genetic distance and clustered together earlier, but were clearly separated from two selection strains. The PCoA plots and genetic structure analysis reveal the distinct genetic structure of individuals from selection individuals and partial complexity genetic structure of wild individuals. In brief, wild C.carpio populations in China have high genetic diversity and good genetic purity in their selection strains.
  • [1]
    HULAK M, KASPAR V, KOHLMANN K, et al. Microsatellite-based genetic diversity and differentiation of foreign common carp (Cyprinus carpio) strains farmed in the Czech Republic[J]. Aquaculture, 2010, 298(3/4): 194-201.
    [2]
    REN W, HU L, GUO L, et al. Preservation of the genetic diversity of a local common carp in the agricultural heritage rice-fish system[J]. Proc Natl Acad Sci USA, 2018, 115(3): E546-E554.
    [3]
    董在杰, 刘念, 朱文彬, 等. 清水江鲤基于微卫星标记和形态指标的遗传分析[J]. 南方水产科学, 2018, 14(1): 1-8.
    [4]
    XIAO T, LU C, XU Y, et al. Screening of SSR markers associated with scale cover pattern and mapped to a genetic linkage map of common carp (Cyprinus carpio L.)[J]. J Appl Genet, 2015, 56(2): 261-269.
    [5]
    刘伟, 苏胜彦, 董在杰, 等. 3个鲤群体的微卫星标记与生长性状相关性分析[J]. 南方水产科学, 2012, 8(3): 17-24.
    [6]
    ZHENG X, KUANG Y, LV W, et al. Quantitative trait loci for morphometric traits in multiple families of common carp (Cyprinus carpio)[J]. Sci China Life Sci, 2017, 60(3): 287-297.
    [7]
    常玉梅, 孙效文, 梁利群. 中国鲤几个代表种群基因组DNA遗传多样性分析[J]. 水产学报, 2004, 28(5): 481-486.
    [8]
    全迎春, 孙效文, 梁利群. 应用微卫星多态分析四个鲤鱼群体的遗传多样性[J]. 动物学研究, 2005, 26(6): 595-602.
    [9]
    XU L H, WANG C H, WANG J, et al. Selection pressures have driven population differentiation of domesticated and wild common carp (Cyprinus carpio L.)[J]. Genet Mol Res, 2012, 11(3): 3222-3235.
    [10]
    LIAO X L, YU X M, TONG J O. Genetic diversity of common carp from two largest Chinese lakes and the Yangtze River revealed by microsatellite markers[J]. Hydrobiologia, 2006, 568(1): 445-453.
    [11]
    LI D, KANG D, YIN Q, et al. Microsatellite DNA marker analysis of genetic diversity in wild common carp (Cyprinus carpio L.) populations[J]. J Genet Genom, 2007, 34(11): 984-993.
    [12]
    鲁翠云, 张晓丽, 顾颖, 等. 福瑞鲤与豫选黄河鲤选育群体的遗传结构及亲本间遗传距离分布[J]. 中国水产科学, 2016, 23(5): 1091-1098.
    [13]
    桑滨, 鲁翠云, 李超, 等. 微卫星标记分析3个耐寒鲤品种的遗传多样性[J]. 生物学杂志, 2017, 34(3): 24-32,56.
    [14]
    董在杰. 福瑞鲤选育技术和养殖对比试验[J]. 科学养鱼, 2011(6): 41-42.
    [15]
    石连玉, 李池陶, 葛彦龙, 等. 黑龙江水产研究所鲤育种概要[J]. 水产学杂志, 2016, 29(3): 1-8.
    [16]
    单云晶, 鲁翠云, 李超, 等. 基于线粒体COI基因序列的5种鲤养殖品种遗传多样性研究[J]. 中国水产科学, 2013, 20(5): 931-938.
    [17]
    刘念, 傅建军, 董在杰, 等. 中国6个鲤群体的mtDNA D-loop序列遗传变异分析[J]. 水生态学杂志, 2017, 38(3): 75-82.
    [18]
    DAVID L, RAJASEKARAN P, FANG J, et al. Polymorphism in ornamental and common carp strains (Cyprinus carpio L.) as revealed by AFLP analysis and a new set of microsatellite markers[J]. Mol Genet Genom, 2001, 266(3): 353-362.
    [19]
    CROOIJMANS R P M A, van der POEL J J, GROENEN M, et al. Microsatellite markers in common carp (Cyprinus carpio L.)[J]. Anim Genet, 1997, 28(2): 129-134.
    [20]
    孙效文, 贾智英, 魏东旺, 等. 磁珠富集法与小片段克隆法筛选鲤微卫星的比较研究[J]. 中国水产科学, 2005, 12(2): 126-132.
    [21]
    NEI M. Estimation of average heterozygosity and genetic distance from a small number of individuals[J]. Genetics, 1978, 89(3): 583-590.
    [22]
    KALINOWSKI S T, TAPER M L, MARSHALL T C. Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment[J]. Mol Ecol, 2007, 16(5): 1099-1106.
    [23]
    FOLL M, GAGGIOTTI O. A genome-scan method to identify selected loci appropriate for both dominant and codominant markers: a Bayesian perspective[J]. Genetics, 2008, 180(2): 977-993.
    [24]
    JEFFREY H. Some tests of significance, treated by the theory of probability[J]. Math Proc Cambridge Philos Soc, 1935, 31(2): 203-222.
    [25]
    EXCOFFIER L, LISCHER H E. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows[J]. Mol Ecol Resour, 2010, 10(3): 564-567.
    [26]
    TAMURA K, PETERSON D, PETERSON N, et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods[J]. Mol Biol Evol, 2011, 28(10): 2731-2739.
    [27]
    PEAKALL R, SMOUSE P E. GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research[J]. Mol Ecol Notes, 2006, 6(1): 288-295.
    [28]
    PRITCHARD J K, STEPHENS M, DONNELLY P. Inference of population structure using multilocus genotype data[J]. Genetics, 2000, 155(2): 945-959.
    [29]
    EVANNO G, REGNAUT S, GOUDET J. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study[J]. Mol Ecol, 2005, 14(8): 2611-2620.
    [30]
    BALLOUX F, LUGON-MOULIN N. The estimation of population differentiation with microsatellite markers[J]. Mol Ecol, 2002, 11(2): 155-165.
    [31]
    BOTSTEIN D, WHITE R L, SKOLNICK M, et al. Construction of a genetic linkage map in man using restriction fragment length polymorphisms[J]. Am J Hum Genet, 1980, 32(3): 314-331.
    [32]
    高雅, 李生斌. STR遗传多态性研究中样本数量对等位基因检出数量的影响[J]. 遗传, 2008, 30(3): 313-320.
    [33]
    傅建军, 李家乐, 沈玉帮, 等. 草鱼野生群体遗传变异的微卫星分析[J]. 遗传, 2013, 35(2): 192-201.
    [34]
    LIU F, XIA J H, BAI Z Y, et al. High genetic diversity and substantial population differentiation in grass carp (Ctenopharyngodon idella) revealed by microsatellite analysis[J]. Aquaculture, 2009, 297(1/2/3/4): 51-56.
    [35]
    朱冰, 樊佳佳, 白俊杰, 等. 金草鱼与中国4个草鱼群体的微卫星多态性比较分析[J]. 南方水产科学, 2017, 13(2): 51-58.
    [36]
    刘青, 刘皓, 吴旭干, 等. 长江、黄河和辽河水系中华绒螯蟹野生和养殖群体遗传变异的微卫星分析[J]. 海洋与湖沼, 2015, 46(4): 958-968.
    [37]
    DANISH M, SINGH I J. Genetic diversity analysis of common carp (Cyprinus carpio var. communis) and Labeo rohita (Hamilton, 1822) collected from hatchery by using microsatellite markers[J]. Int J Chem Stud, 2017, 5(3): 513-518.
    [38]
    SINGH E, SHARMA O P, JAIN H K, et al. Microsatellite based genetic diversity and differentiation of common carp, Cyprinus carpio in Rajasthan (India)[J]. Nat Acad Sci Lett, 2015, 38(3): 193-196.
    [39]
    古珍珍, 杨新鑫, 胡建尊, 等. 瓯江彩鲤酪氨酸酶(TYR)基因的选择压力分析[J]. 上海海洋大学学报, 2016, 25(3): 329-336.
    [40]
    LEHOCZKY I, MAGYARY I, HANCZ C, et al. Preliminary studies on the genetic variability of six Hungarian common carp strains using microsatellite DNA markers[J]. Hydrobiologia, 2005, 533(1/2/3): 223-228.
    [41]
    曲疆奇, 毕滢佳, 董在杰, 等. 应用SRAP标记分析福瑞鲤及其原始亲本的遗传结构[J]. 动物学杂志, 2011, 46(5): 120-125.
    [42]
    KOHLMANN K, KERSTEN P, FLAJSHANS M. Microsatellite-based genetic variability and differentiation of domesticated, wild and feral common carp (Cyprinus carpio L.) populations[J]. Aquaculture, 2005, 247(1/2/3/4): 253-266.
    [43]
    岳兴建, 邹远超, 王永明, 等. 元江鲤种群遗传多样性[J]. 生态学报, 2013, 33(13): 4068-4077.
    [44]
    张倩倩, 陈杰, 蒋霞云, 等. 不同鳊鲂鱼类群体微卫星DNA指纹图谱的构建和遗传结构分析[J]. 水产学报, 2014, 38(1): 15-22.
    [45]
    杨慧荣, 欧阳徘徊, 李桂峰, 等. 用微卫星技术研究珠江流域三个野生大眼鳜群体的遗传多样性[J]. 中山大学学报(自然科学版), 2015, 54(1): 103-109.
    [46]
    唐首杰, 毕详, 王成辉, 等. 团头鲂3个选育群体遗传潜力的微卫星分析[J]. 南方水产科学, 2017, 13(2): 59-68.
    [47]
    唐首杰, 杨洁, 王成辉, 等. 驯养、选育条件下尼罗罗非鱼群体的选择压力分析[J]. 中国水产科学, 2016, 23(4): 900-913.

Catalog

    Article views (3432) PDF downloads (174) Cited by()
    Related

    /

    DownLoad:  Full-Size Img  PowerPoint
    Return
    Return