Volume 2 Issue 6
Dec.  2006
Turn off MathJax
Article Contents
Abstract
References
Related Articles
XIA Jun-hong, ZHU Cai-yan, SU Tian-feng, ZHOU Fa-lin, JIANG Shi-gui. Isolation and characterization of microsatellites from the tiger shrimp Penaeus monodon[J]. South China Fisheries Science, 2006, 2(6): 1-7.
Citation: XIA Jun-hong, ZHU Cai-yan, SU Tian-feng, ZHOU Fa-lin, JIANG Shi-gui. Isolation and characterization of microsatellites from the tiger shrimp Penaeus monodon[J]. South China Fisheries Science, 2006, 2(6): 1-7.
shu

Isolation and characterization of microsatellites from the tiger shrimp Penaeus monodon

  • South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China

More Information
  • Received Date: August 14, 2006
  • Revised Date: August 28, 2006
    Graphical Abstract
    • Abstract

  • Microsatellite-enhanced genomic library of the tiger shrimp Penaeus monodon was constructed using repeat-enrichment method with biotin-labeled oligos [(CA)12, (AG)12 and (TA)16] and streptavidin magnetic beads. From a total of randomly selected 254 clones, 51 clones (20.1%) were positive after PCR selection. Of which, 32 clones comes from (CA)12 probe-used library, the left from (AG)12 probe-used library. 48 clones are discovered to contain microsatellites. By alignment, 40 special microsatellite clones are confirmed finally. (GA)n and (CA)n were the abundant microsatellite motifs with a percentage of 20.7% and 60.4% in the isolated microsatellites. Several other types of repeat sequences were detected, including repeats consisting of (AT)n, (GC)n, (TGG)n, (AAG)n, (AAT)n, (GAA)n, (GTGC)n, (GCGT)n, (GGTTA)n, (GTGCGT)n making up to 18.9%. Characterization of these microsatellites showed that 76 (68.5%) sequences were classified as perfect type, 22 (19.8%) as imperfect type and 13 (11.7%) as compound type. The repeat units of (GT/CA)n ranged from 3 to 52 was much more than the units of (GA/CT)n ranged from 3 to 27. The sequence size ranges from 129 to 601 bp with an average of 286 bp. This study provides a base for molecular breeding and assessment of germplasm resources of the tiger shrimp in future.

    • FullText(HTML)
    • References (26)
  • [1]
    BAILEY-BBOOK J H, MASS S M. Penaeid taxonomy, biology and zoogeography[M ]// FAST W A, LESTER L J. Marine shrimp culture: Principles and practices. Amsterdam: Elsevier Science Publishers, 1992: 9-23. https://www.semanticscholar.org/paper/PENAEID-TAXONOMY%2C-BIOLOGY-AND-ZOOGEOGRAPHY-Bailey%E2%80%93Brock-Moss/0818405984f4f3b3c24ba5d6e1e4b1fd2997052d
    [2]
    LUCIEN-BURN H. Evolution of world shrimp production: Fisheries and aquaculture[J]. World Aquac, 1997, 28(1): 21-33.
    [3]
    FLEISCHER R C, LOEW S. Construction and screening of microsatellite-enriched genomic libraries[M ]// FERRARIS J, PALUMBI S. Molecular zoology: Advances, strategies and protocols. New York: Wiley-Liss, 1995: 459-468.
    [4]
    XIA J H, XIA K F, JIANG S. Primer note: Characterization of 11 polymorphic microsatellite loci in the yellowfin seabream Acanthopagrus latus[J]. Mol Ecol Notes, 2006, 6(2): 484-486. doi: 10.1111/j.1471-8286.2006.01282.x
    [5]
    JEFFS P. Multiple sequence alignment with Clustal X[J]. Computer Corner, 1998, 23(1): 78-80. doi: 10.1016/s0968-0004(98)01285-7
    [6]
    WEBER J L. Informativeness of human (dC-dA)n (dG-dT)n polymorphisms[J]. Genomics, 1990, 7(3): 524-530.
    [7]
    李明芳, 郑学勤. 荔枝SSR标记的研究[J]. 遗传, 2004, 26(6): 911-916. doi: 10.3321/j.issn:0253-9772.2004.06.026
    [8]
    EDWARDS K J, BARKER J H, DALY A, et al. Microsatellite libraries enriched for several microsatellite sequences in plants[J]. Biotechniques, 1996, 20(8): 758-760. doi: 10.2144/96205BM04
    [9]
    CARLETON K L, STREELMAN J T, LEE B Y, et al. Rapid isolation of CA microsatellites from the tilapia genome[J]. Anim Genet, 2002, 33(2): 140-144. doi: 10.1046/j.1365-2052.2002.00817.x
    [10]
    WUTHISUTHIMETHAVEE S, LUMUBOL P, VANAVICHIT A, et al. Development of microsatellite markers in black tiger shrimp (Penaeus monodon Fabricius)[J]. Aquac, 2003, 224(1/4): 39-50. doi: 10.1016/S0044-8486(03)00222-9
    [11]
    XU Z, DHAR A K, WYRZYKOWSKI J, et al. Identification of abundant and informative microsatellites from shrimp (Penaeus monodon)[J]. Anim Genet, 1999, 30(2): 150-156. doi: 10.1046/j.1365-2052.1999.00458.x
    [12]
    GARCIA D K, ALCIVAR-WARREN A. Identification and organization of microsatellites in Penaeus vannamei shrimp[C ]// Proceedings of the XXVth International Conference on Animal Genetics. France: Tours. 1996: 21-25.
    [13]
    BROOKER A L, COOK D, BENTZEN P, et al. Organization of microsatellites differs between mammals and cold-water teleost fishes[J]. Can J Fish Aquat Sci, 1994, 51(8): 1959-1966. doi: 10.1139/f94-19
    [14]
    CROOIJMANS R P M A, BIERBOOMS V A F, KOMEN J, et al. Microsatellite markers in common carp (Cyprinus carpio L. )[J]. Anim Genet, 1997, 28(2): 129-134. doi: 10.1111/j.1365-2052.1997.00097.x
    [15]
    TASSANAKAJON A, TIPTAWONNUKUL A, SUPUNGUL P, et al. Isolation and characterization of microsatellite markers in the black tiger prawn Penaeus monodon[J]. Mol Mar Biol Biotech, 1998, 7(1): 55-61. https://www.researchgate.net/publication/226312890_Isolation_and_characterization_of_microsatellite_markers_in_the_black_tiger_prawn_Penaeus_monodon
    [16]
    WILSON K, LI Y, WHAN V, BYRNE S L K, et al. Genetic mapping of the black tiger shrimp Penaeus monodon with amplified fragment length polymorphism[J]. Aquac, 2002, 204(3): 297-309. doi: 10.1016/S0044-8486(01)00842-0
    [17]
    BACHMANN K, RHEINSMITH E L. Nuclear DNA amounts in Pacific Crustacea[J]. Chromosoma, 1973, 43(2): 225-236. doi: 10.1007/BF00294271
    [18]
    SCHUG M D, WETTERSTRAND K A, GAUDETTE M S, et al. The distribution and frequency of microsatellite loci in Drosophila melanogaster[J]. Mol Ecol, 1998, 7(1): 57-70. doi: 10.1046/j.1365-294x.1998.00304.x
    [19]
    李琪, 木岛明博. 长牡蛎(Crassostrea gigas) 微卫星克隆快速分离及特性分析[J]. 海洋与湖沼, 2004, 35(4): 364-370. https://xueshu.baidu.com/usercenter/paper/show?paperid=2f7900a52e5a64a7892ef8ecc412f214
    [20]
    DIETRICK W, KATZ H, LINCLON S E. A genetic map of the mouse suitable for typing intraspecific crosses[J]. Genet, 1992, 131(2): 423-447. doi: 10.1093/genetics/131.2.423
    [21]
    JARNE P, LAGODA P J L. Microsatellites, from molecules to populations and back[J]. Trends Ecol Evol, 1996, 11(10): 424-429. doi: 10.1016/0169-5347(96)10049-5
    [22]
    DICK W, HAMILTON M B. Microsatellites from the Amazonian tree Dinizia excelsa (Fabaceae)[J]. Mol Ecol Primer Notes, 1999, 8(6): 1753-1768. doi: 10.1046/j.1365-294x.1999.00723-7.x
    [23]
    GARCIA D K, Benzie J A H. RAPD markers of potential use in penaeid prawn (Penaeus monodon) breeding programs[J]. Aquac, 1995, 130(2): 137-144. doi: 10.1016/0044-8486(94)00311-B
    [24]
    TASSANAKAJON A, PONGSOMBOON S, JARAYABHAND P, et al. Genetic structure in wild populations of black tiger shrimp (Penaeus monodon) using randomly amplified polymorphic DNA analysis[J]. J Mar Biotech, 1998b, 6(4): 249-254. https://pubmed.ncbi.nlm.nih.gov/9852621/
    [25]
    BROOKER A L, BENZIE J A H, BLAIR D, et al. Population structure of the giant tiger prawn Penaeus monodon in Australia waters, determined using microsatellite markers[J]. Mar Biol, 2000, 136(1): 149-157. doi: 10.1007/s002270050017
    [26]
    PONGSOMBOON S, WHAN V, MOORE S S, et al. Characterization of tri- and tetranucleotide microsatellites in the black tiger prawn, Penaeus monodon[J]. Sci Asia, 2000, 26(1): 1-8. doi: 10.2306/scienceasia1513-1874.2000.26.001
    • Related Articles

  • Related Articles

    [1]CHEN Yuanshuai, PANG Guoliang, HUANG Xiaohua, LI Gen, YUAN Taiping, HU Yu, TAO Qiyou. Influence of net on structural response of jack-up truss net cage[J]. South China Fisheries Science, 2024, 20(1): 43-53. DOI: 10.12131/20230213
    [2]YUAN Taiping, LIAO Yuqi, HUANG Xiaohua, HU Yu, TAO Qiyou, LI Gen, PANG Guoliang. Design and experimental research on key components of net cleaning equipment for deep-water cage[J]. South China Fisheries Science, 2024, 20(1): 25-33. DOI: 10.12131/20230214
    [3]XING Wang, HUANG Xiaohua, LI Gen, PANG Guoliang, YUAN Taiping. Construction of a dynamics simulation system for net cleaning robot based on Gazebo[J]. South China Fisheries Science, 2024, 20(1): 1-10. DOI: 10.12131/20230189
    [4]YUAN Taiping, HU Yu, WANG Shaoming, LIAO Yuqi, TAO Qiyou, HUANG Xiaohua, LIU Haiyang, GUO Gengxi. Research on performance of cavitation jet equipment for deep-water cage cleaning[J]. South China Fisheries Science, 2021, 17(4): 109-117. DOI: 10.12131/20210027
    [5]ZHONG Zhihong, WANG Fei, CHEN Yonggui, DENG Hengwei, WANG Shifeng, SUN Yun, CHEN Xuefen, GUO Weiliang, ZHOU Yongcan. Synergism between Fructus mume and antibiotics against Vibrio harveyi based on response surface methodology[J]. South China Fisheries Science, 2018, 14(6): 81-88. DOI: 10.12131/20180056
    [6]XIE Liling, ZHAO Shuiling, YU Fei, CHENG Kai, ZHU Yankun, ZHANG Yong. Antibacterial effects of Berberine on three aquatic pathogens in vitro[J]. South China Fisheries Science, 2013, 9(4): 45-49. DOI: 10.3969/j.issn.2095-0780.2013.04.008
    [7]WANG Ruixuan, GUO Zhixun, FENG Juan, LIN Heizhao, LI Zhuojia. Inhibitory effects of some traditional Chinese herbal medicines on the pathogenic bacteria of seawater-cultured animals[J]. South China Fisheries Science, 2009, 5(6): 19-24. DOI: 10.3969/j.issn.1673-2227.2009.06.004
    [8]JIANG Tao, ZHAN Zhixin, LIU Ping. Investigation on application of data visualization in downstream net cage experiment[J]. South China Fisheries Science, 2007, 3(4): 60-64.
    [9]YANG Ying-ying, LI Zhuo-jia, CHEN Yong-qing, LIANG Xiao-hua, YANG Keng. Inhibitory effects of Lactobacillaceae on pathogen Vibrio sp.[J]. South China Fisheries Science, 2005, 1(1): 62-65.
    [10]GUO Gen-xi, TAO Qi-you. Design and making of truncated cone cod-end of deep-water net cage[J]. South China Fisheries Science, 2005, 1(1): 49-53.

Catalog

    Get Citation
    PDF
    XML
    Article views (5691) PDF downloads (3810) Cited by()
    Related

    Supported by: Beijing Renhe Information Technology Co., Ltd.  

    /

    DownLoad:  Full-Size Img  PowerPoint
    Return
    Return