Home > Archive>Volume 40, Issue 12, 2024 >4628-4644. DOI:10.13345/j.cjb.240552
PDF HTML XML Export Cite reminder
Genetic diversity and structure of 15 full-sib families of Litopenaeus vannamei based on SSR markers
Author:
  • Article
    • | |
  • Metrics
    • |
  • Reference [49]
    • | | | |
  • Comments
    Abstract:

    To clarify the genetic diversity and structure of the nucleus population of F1-generation Litopenaeus vannamei, this study utilized 15 pairs of highly polymorphic microsatellite primers to analyze the simple sequence repeat (SSR) markers and genetic diversity in 15 full-sib families of L. vannamei. A total of 112 alleles (Na) and 60.453 effective alleles (Ne) were identified among the selected 15 SSR loci, with the average polymorphic information content (PIC) of 0.648. The average Ne, observed heterozygosity (Ho), and expected heterozygosity (He) in the 15 F1 families varied from 1.925 to 2.626, 0.425 to 0.783, and 0.403 to 0.572, respectively. The 15 full-sib families were primarily clustered into three categories in the phylogenetic analysis, with the genetic distance between families ranging from 0.252 to 0.574. Additionally, the genetic differentiation coefficient (Fst) among the families varied from 0.112 to 0.278, indicating substantial genetic differentiation. Overall, this study suggested that the genetic diversity of the 15 full-sib families was moderate, providing valuable genetic insights for the subsequent breeding initiatives aimed at enhancing the tolerance of L. vannamei to high levels of soybean meal.

    Reference
    [1] 曲旻, 谭建, 栾生, 强光峰, 罗坤, 隋娟, 孟宪红, 孔杰. 凡纳滨对虾幼虾耐高温性状的遗传力评估[J]. 水产科学, 2023, 42(5): 805-812.QU M, TAN J, LUAN S, QIANG GF, LUO K, SUI J, MENG XH, KONG J. Heritability assessment of high temperature tolerance traits in juvenile Pacific white shrimp Litopenaeus vannamei[J]. Fisheries Science, 2023, 42(5): 805-812(in Chinese).
    [2] 农业农村部渔业渔政管理局. 中国渔业统计年鉴[M], 北京: 中国农业出版社, 2023.Fisheries and fishery Administration Bureau, Ministry of Agriculture and Rural Affairs of the People's Republic of China. China Fishery Statistical Yearbook[M]. Beijing: China Aqriculture Press, 2023(in Chinese).
    [3] 孔杰, 栾生, 谭建, 隋娟, 罗坤, 李旭鹏, 代平, 孟宪红, 卢霞, 陈宝龙, 曹家旺, 曹宝祥. 对虾选择育种研究进展[J]. 中国海洋大学学报(自然科学版), 2020, 50(9): 81-97.KONG J, LUAN S, TAN J, SUI J, LUO K, LI XP, DAI P, MENG XH, LU X, CHEN BL, CAO JW, CAO BX. Progress of study on penaeid shrimp selective breeding[J]. Periodical of Ocean University of China, 2020, 50(9): 81-97(in Chinese).
    [4] 李鹏. 凡纳滨对虾群体亲缘关系鉴定及生长性状遗传标记筛选、优化和验证[D]. 上海: 上海海洋大学硕士学位论文, 2017.LI P. Identification of genetic relationship of Litopenaeus vannamei population and screening, optimization and verification of genetic markers for growth traits[D]. Shanghai: Master’s Thesis of Shanghai Ocean University, 2017(in Chinese).
    [5] 崔朝霞, 张峘, 宋林生, 尤锋. 中国重要海洋动物遗传多样性的研究进展[J]. 生物多样性, 2011, 19(6): 815-833.CUI ZX, ZHANG H, SONG LS, YOU F. Genetic diversity of marine animals in China: a summary and prospectiveness[J]. Biodiversity Science, 2011, 19(6): 815-833(in Chinese).
    [6] HU YB, FAN HZ, CHEN YH, CHANG J, ZHAN XJ, WU H, ZHANG BW, WANG M, ZHANG WY, YANG L, HOU X, SHEN X, PAN T, WU W, LI J, HU HH, WEI FW. Spatial patterns and conservation of genetic and phylogenetic diversity of wildlife in China[J]. Science Advances, 2021, 7(4): eabd5725.
    [7] BALLOUX F, LUGON-MOULIN N. The estimation of population differentiation with microsatellite markers[J]. Molecular Ecology, 2002, 11(2): 155-165.
    [8] 陈万光, 贾晓慧. 微卫星标记在水产动物遗传研究方面的应用[J]. 安徽农业科学, 2009, 37(12): 5659-5660.CHEN WG, JIA XH. Application of microsatellite marker in genetic study of aquatic animals[J]. Journal of Anhui Agricultural Sciences, 2009, 37(12): 5659-5660(in Chinese).
    [9] SONG XM, YANG QH, BAI Y, GONG K, WU T, YU T, PEI QY, DUAN WK, HUANG ZN, WANG ZY, LIU Z, KANG X, ZHAO W, MA X. Comprehensive analysis of SSRs and database construction using all complete gene-coding sequences in major horticultural and representative plants[J]. Horticulture Research, 2021, 8(1): 122.
    [10] 徐煜, 黄小帅, 胡晓娟, 徐武杰, 苏浩昌, 文国樑, 曹煜成, 杨铿. 凡纳滨对虾进口亲虾子一代群体的遗传变异分析[J]. 南方农业学报, 2021, 52(11): 3139-3146.XU Y, HUANG XS, HU XJ, XU WJ, SU HC, WEN GL CAO YC, YANG K. Genetic variation analysis among first filial generation of introduced Litopenaeus vannamei stocks[J]. Journal of Southern Agriculture, 2021, 52(11): 3139-3146(in Chinese).
    [11] 王佳佳, 王琼, 秦桢, 陈耀辉, 李健, 李吉涛. 凡纳滨对虾全基因组SSR标记开发及不同养殖群体的遗传多样性[J]. 水产学报, 2023, 47(6): 62-72.WANG JJ, WANG Q, QIN Z, CHEN YH, LI J, LI JT. Development of SSR markers from genomic data for Litopenaeus vannamei and analysis of genetic diversity in different cultured populations[J]. Journal of Fisheries of China, 2023, 47(6): 62-72(in Chinese).
    [12] 张留所, 相建海. 凡纳滨对虾微卫星位点在两个选育家系中遗传的初步研究[J]. 遗传, 2005, 27(6): 919-924.ZHANG LS, XIANG JH. A preliminary study on the inheritance of microsatellite in two selective breeding families of shrimp (Litopenaeus vannamei)[J]. Hereditas (Beijing), 2005, 27(6): 919-924(in Chinese).
    [13] ZHANG LS, YANG CJ, ZHANG Y, LI L, ZHANG XM, ZHANG QL, XIANG JH. A genetic linkage map of Pacific white shrimp (Litopenaeus vannamei): sex-linked microsatellite markers and high recombination rates[J]. Genetica, 2007, 131(1): 37-49.
    [14] 孙坤, 李旭鹏, 隋娟, 曹家旺, 谭建, 罗坤, 栾生, 孔杰, 孟宪红. 基于微卫星标记评估凡纳滨对虾收获体长、体质量以及抗WSSV性状的遗传参数[J]. 水产学报, 2022, 46(4): 583-593.SUN K, LI XP, SUI J, CAO JW, TAN J, LUO K, LUAN S, KONG J, MENG XH. Evaluation of genetic parameters of body length, body weight and WSSV resistance of Litopenaeus vannamei based on microsatellite markers[J]. Journal of Fisheries of China, 2022, 46(4): 583-593(in Chinese).
    [15] 黄小帅, 徐煜, 胡晓娟, 徐武杰, 苏浩昌, 文国樑, 杨铿, 曹煜成. 利用微卫星标记分析7个凡纳滨对虾引进群体子一代的遗传多样性[J]. 南方水产科学, 2019, 15(1): 54-62.HUANG XS, XU Y, HU XJ, XU WJ, SU HC, WEN GL, YANG K, CAO YC. Genetic diversity analysis of first filial generation of seven introduced Litopenaeus vannamei populations using microsatellite DNA markers[J]. South China Fisheries Science, 2019, 15(1): 54-62(in Chinese).
    [16] WRIGHT S. Evolution in Mendelian populations[J]. Genetics, 1931, 16(2): 97-159.
    [17] NEI M. Analysis of gene diversity in subdivided populations[J]. Proceedings of the National Academy of Sciences of the United States of America, 1973, 70(12): 3321-3323.
    [18] YAO XZ, ZHAO TF, LI XY, ZHANG XC, CHEN X, LI HM, TAN BP, XIE SW. The impacts of low fishmeal diet to the antioxidant capacity, endoplasmic reticulum stress, apoptosis and intestinal health of Litopenaeus vannamei as the went on of the feeding trial[J]. Animal Feed Science and Technology, 2024, 311: 115948.
    [19] 彭凯, 罗锦伟, 黄文, 植物蛋白原料替代鱼粉在水产饲料中的研究进展[J]. 饲料研究, 2022, 45(15): 136-140.PENG K, LUO JW, HUANG W. Research progress of plant protein ingredients replacing fish meal in aquatic feed[J]. Feed Research, 2022, 45(15): 136-140(in Chinese).
    [20] MOSS DR, ARCE SM, OTOSHI CA, DOYLE RW, MOSS SM. Effects of inbreeding on survival and growth of Pacific white shrimp Penaeus (Litopenaeus) vannamei[J]. Aquaculture, 2007, 272: S30-S37.
    [21] RASOARAHONA R, WATTANADILOKCHATKUN P, PANTHUM T, THONG T, SINGCHAT W, AHMAD SF, CHAIYES A, HAN K, KRAICHAK E, MUANGMAI N, KOGA A, DUENGKAE P, ANTUNES A, SRIKULNATH K. Optimizing microsatellite marker panels for genetic diversity and population genetic studies: an ant colony algorithm approach with polymorphic information content[J]. Biology, 2023, 12(10): 1280.
    [22] 李燕平, 覃川杰, 吕云云, 龚全, 王均, 颉江, 文正勇. 黄颡鱼养殖群体遗传多样性与遗传结构的微卫星分析[J]. 淡水渔业, 2023, 53(3): 3-14.LI YP, TAN CJ, LV YY, GONG Q, WANG J, XIE J, WEN ZY. Genetic diversity and genetic structure analysis of Pelteobagrus fuloidraco using microsatellite markers[J]. Freshwater Fisheries, 2023, 53(3): 3-14(in Chinese).
    [23] XIAO TQ, LU CY, XU YL, LI C, ZHENG XH, CAO DC, CHENG L, MAHBOOB S, SUN XW. Screening of SSR markers associated with scale cover pattern and mapped to a genetic linkage map of common carp (Cyprinus carpio L.)[J]. Journal of Applied Genetics, 2015, 56(2): 261-269.
    [24] OLIYA BK, MAHARJAN L, PANT B. Genetic diversity and population structure analysis of Paris polyphylla Sm. revealed by SSR marker[J]. Heliyon, 2023, 9(7): e18230.
    [25] BOTSTEIN D, WHITE RL, SKOLNICK M, DAVIS RW. Construction of a genetic linkage map in man using restriction fragment length polymorphisms[J]. American Journal of Human Genetics, 1980, 32(3): 314-331.
    [26] 方振朋, 孟宪红, 李旭鹏, 栾生, 曹家旺, 陈宝龙, 孔杰, 闫茂仓, 胡利华. 基于微卫星分子标记的凡纳滨对虾商业苗种遗传多样性分析[J]. 渔业科学进展, 2020, 41(5): 101-109.FANG ZP, MENG XH, LI XP, LUAN S, CAO JW, CHEN BL, KONG J, YAN MC, HU LH. Genetic diversity analysis of domestic commercial brands seedlings of Litopenaeus vannamei based on microsatellite molecular markers[J]. Progress in Fishery Sciences, 2020, 41(5): 101-109(in Chinese).
    [27] 唐芳, 温贝妮, 刘红. 不同凡纳滨对虾养殖群体的微卫星遗传多样性分析[J]. 南方农业学报, 2021, 52(4): 1108-1115.TANG F, WEN BN, LIU H. Microsatellite genetic diversity in different Litopenaeus vannamei breeding populations[J]. Journal of Southern Agriculture, 2021, 52(4): 1108-1115(in Chinese).
    [28] 陈锦豪, 郑锦滨, 王攀攀, 李天骄, 毛勇, 苏永全, 王军. 凡纳滨对虾养殖亲本群体遗传多样性分析[J]. 渔业研究, 2019, 41(1): 1-10.CHEN JH, ZHENG JB, WANG PP, LI TJ, MAO Y, SU YQ, WANG J. Analysis for genetic diversity of broodstock populations of breeding Litopenaeus vannamei[J]. Journal of Fisheries Research, 2019, 41(1): 1-10(in Chinese).
    [29] NAIK A, MISHRA SK, NAG A, SOREN GK, PANDA AK, PANDA SK, PANIGRAHI J. Cross-genera amplification of Cajanus spp. specific SSR markers in Clitoria ternatea (L.) and their application in genetic diversity studies[J]. Physiology and Molecular Biology of Plants, 2020, 26(12): 2371-2390.
    [30] TESFAYE G, CURTO M, MEULENBROEK P, ENGLMAIER GK, TIBIHIKA PD, ALEMAYEHU E, GETAHUN A, MEIMBERG H. Genetic diversity of Nile tilapia (Oreochromis niloticus) populations in Ethiopia: insights from nuclear DNA microsatellites and implications for conservation[J]. BMC Ecology and Evolution, 2021, 21(1): 113.
    [31] FANG D, HE M, REN YF, LUO H, ZHOU YF, JIANG SL, YOU Y. Assessment of genetic diversity of the salangid, Neosalanx taihuensis, based on the mitochondrial COI gene in different Chinese River Basins[J]. Biology, 2022, 11(7): 968.
    [32] HAHN MW. Molecular population genetics[M]. Sinauer Associates is an imprint of Oxford University Press, 2018.
    [33] ZHANG J, LIU JM, HAN C, PENG C, LI Y, XIA JH, ZHANG Y, LI SS, LIN HR. Full-length transcriptome sequence and SSR marker development for genetic diversity research in yellowfin seabream Acanthopagrus latus[J]. Journal of Oceanology and Limnology, 2023, 41(3): 1073-1083.
    [34] ZHANG MM, ZHENG CH, LI JD, WANG XY, LIU CP, LI XJ, XU ZH, DU KJ. Genetic diversity, population structure, and DNA fingerprinting of Ailanthus altissima var. erythrocarpa based on EST-SSR markers[J]. Scientific Reports, 2023, 13(1): 19315.
    [35] LEBERG PL. Estimating allelic richness: effects of sample size and bottlenecks[J]. Molecular Ecology, 2002, 11(11): 2445-2449.
    [36] 刘雷, 张伟杰, 刘岩松, 冷晓飞, 欧凡江, 臧晓宁, 李旭光, 丁君, 常亚青. 基于SSR-seq技术评估中间球海胆多代选育群体和普通养殖群体的遗传多样性[J]. 水产学报, 2023, 47(03): 145-155.LIU L, ZHANG WJ, LIU YS, LEN XF, OU FJ, ZANG XN, LI XG, DING J, CHANG YQ. Evaluation of the genetic diversity and genetic structure of multiple generation selection populations and unselected common population of sea urchin (Strongylocentrotus intermedius) using SSR-seq[J]. Journal of Fisheries of China, 2023, 47(03): 145-155(in Chinese).
    [37] 田星, 李中霁, 刘小莉, 李国栋. 基于SSR分子标记的灯盏花遗传多样性分析[J]. 中国实验方剂学杂志, 2021, 27(18): 136-143.TIAN X, LI ZJ, LIU XL, LI GD. Genetic diversity analysis of Erigeron breviscapus based on SSR markers[J]. Chinese Journal of Experimental Traditional Medical Formulae, 2021, 27(18): 136-143(in Chinese).
    [38] 彭敏, 陈慧芳, 李强勇, 杨春玲, 曾地刚, 刘青云, 赵永贞, 陈晓汉, 林勇, 陈秀荔. 凡纳滨对虾连续3个世代选育群体的遗传多样性分析[J]. 南方农业学报, 2020, 51(6): 1442-1450.PENG M, CHEN HF, Li QY, YANG CL, ZENG DG, LIU QY, ZHAO YZ, CHEN XH, LIN Y, CHEN XL. Genetic diversity of three consecutive generations of Litopenaeus vannamei[J]. Journal of Southern Agriculture, 2020, 51(6): 1442-1450(in Chinese).
    [39] REN SJ, MATHER PB, TANG BG, HURWOOD DA. Levels of genetic diversity and inferred origins of Penaeus vannamei culture resources in China: Implications for the production of a broad synthetic base population for genetic improvement[J]. Aquaculture, 2018, 491: 221-231.
    [40] 谢丽, 陈国良, 叶富良, 栗志民. 凡纳滨对虾4个选育群体遗传多样性的SSR分析[J]. 广东海洋大学学报, 2009, 29(4): 5-9.XIE L, CHEN GL, YE FL, LI ZM. Genetic diversity of four selected stocks of Litopenaeus vannamei as revealed by SSR marker[J]. Journal of Guangdong Ocean University, 2009, 29(4): 5-9(in Chinese).
    [41] 邓会栋, 乔阳, 郭利军, 华敏, 谢圣华, 冀晓昊, 吴晓慧, 冯学杰, 王海波. 基于SSR标记的海南54份榴莲种质资源遗传多样性和群体结构分析[J]. 中国果树, 2023(12): 90-98.DENG HD, QIAO Y, GUO LJ, HUA M, XIE SH, JI XH, WU XH, FENG XJ, WANG HB. Analysis of genetic diversity and population structure of 54 durian germplasm resources in Hainan based on SSR markers[J]. China Fruits, 2023(12): 90-98(in Chinese).
    [42] 黄皓, 范嗣刚, 王鹏飞, 陈佳, 赵超, 闫路路, 邱丽华, 潘滢. 基于微卫星标记对6个花鲈群体的遗传多样性分析[J]. 南方水产科学, 2022, 18(1): 99-106.HUANG H, FAN SG, WANG PF, CHEN J, ZHAO C, YAN LL, QIU LH, PAN Y. Genetic diversity analysis of six geographical populations of Lateolabrax maculatus based on microsatellite markers[J]. South China Fisheries Science, 2022, 18(1): 99-106(in Chinese).
    [43] WRIGHT S. The genetical structure of populations[J]. Annals of Eugenics, 1951, 15(4): 323-354.
    [44] 唐琼英, 谢巨洪, 夏正龙, 蔡缪荧, 吴云明, 白鹿淮, 杜厚宽, 李景芬, 杨国梁. 罗氏沼虾不同育种群体遗传多样性研究[J]. 水生生物学报, 2020, 44(5): 1097-1104.TANG QY, XIE JH, XIA ZL, CAI MY, WU YM, BAI LH, DU HK, LI JF, YANG GL. genetic diversity of the breeding populations of giant freshwater prawn Macrobrachium rosenbergii[J]. Acta Hydrobiologica Sinica, 2020, 44(5): 1097-1104(in Chinese).
    [45] 吴怡迪, 骆轩, 杨章武, 黄永春, 游伟伟. 凡纳滨对虾选育系间杂交的生长性状及遗传多样性分析[J]. 厦门大学学报(自然科学版), 2016, 55(5): 646-653.WU YD, LUO X, YANG ZW, HUANG YC, YOU WW. Growth performance and genetic diversity analysis of hybrids between selective lines of Litopenaeus vannamei[J]. Journal of Xiamen University (Natural Science), 2016, 55(5): 646-653(in Chinese).
    [46] 曲若竹, 侯林, 吕红丽, 李海燕. 群体遗传结构中的基因流[J]. 遗传, 2004, 26(3): 377-382.QU RZ, HOU L, LÜ HL, LI HY. The gene flow of population genetic structure[J]. Hereditas (Beijing), 2004, 26(3): 377-382(in Chinese).
    [47] SLATKIN M. Gene flow and the geographic structure of natural populations[J]. Science, 1987, 236(4803): 787-792.
    [48] TIGANO A, FRIESEN VL. Genomics of local adaptation with gene flow[J]. Molecular Ecology, 2016, 25(10): 2144-2164.
    [49] CURNOW RN, WRIGHT S. Evolution and the genetics of populations, volume 4: variability within and among natural populations[J]. Biometrics, 1979, 35(1): 359.
    Related
    Cited by
    Comments
    Comments
    分享到微博
    Submit
Get Citation

陈文淳,彭凯,黄敏伟,赵吉臣,张志豪,郭慧,刘锦上,刘振兴,鲁慧杰,黄文. 基于SSR标记分析15个凡纳滨对虾家系遗传多样性和遗传结构[J]. Chinese Journal of Biotechnology, 2024, 40(12): 4628-4644

Copy
Share
Article Metrics
Article has an altmetric score of 1
Article has an altmetric score of 1
  • Abstract:231
  • PDF: 207
  • HTML: 127
  • Cited by: 0
History
  • Received:July 07,2024
  • Online: December 25,2024
  • Published: December 25,2024
Article QR Code
  • WeChat ID
  • Mobile Terminal

® 2025 All Rights Reserved