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]LI Zhangchan, SHI Hui, XU Wenjun, HE Jie, XIE Jianjun, WANG Gengshen, WANG Wei. Screening of antagonistic bacteria against visceral white-spots disease of Larimichthys crocea and preliminary study on its biological characteristics[J]. South China Fisheries Science, 2023, 19(3): 78-87. DOI: 10.12131/20220251
    [2]YAO Tuo, LU Jie, YE Lingtong, CHEN Huasheng, WANG Jiangyong. Molecular characterization and expression pattern analysis of a defensin (HdDef1) from small abalone (Haliotis diversicolor)[J]. South China Fisheries Science, 2019, 15(6): 1-8. DOI: 10.12131/20190045
    [3]ZHANG Han, JIANG Jingzhe, HE Jian, GU Lu, WANG Jiangyong. Study on distribution of hemocyanin in different tissues of Haliotis diversicolor[J]. South China Fisheries Science, 2014, 10(4): 34-38. DOI: 10.3969/j.issn.2095-0780.2014.04.006
    [4]LIN Zhuangbing, YOU Weiwei. Heterosis analysis on crossbreeding between different populations of small abalone Haliotis diversicolor[J]. South China Fisheries Science, 2013, 9(4): 28-32. DOI: 10.3969/j.issn.2095-0780.2013.04.005
    [5]HUANG Haili, DU Xiaodong, ZHOU Yinhuan. Effects of feeding larvae and juveniles of Haliotis diversicolor with 2 benthic diatoms[J]. South China Fisheries Science, 2011, 7(1): 32-38. DOI: 10.3969/j.issn.2095-0780.2011.01.005
    [6]LI Wenjing, YAN Zhenglin. Establishment of an ecological mode for abalone aquaculture[J]. South China Fisheries Science, 2010, 6(6): 54-59. DOI: 10.3969/j.issn.1673-2227.2010.06.009
    [7]PENG Wen, JIANG Jing-zhe, WANG Jiang-yong, DING Xue-juan. Effect of physicochemical factors on phenoloxidase activity of hemocyanin from abalone Haliotis diversicolor[J]. South China Fisheries Science, 2010, 6(2): 1-6. DOI: 10.3969/j.issn.1673-2227.2010.02.001
    [8]LI Min, ZHANG Hanhua, ZHU Changbo. Advance of study on effects of environment factors and diets on growth of abalone[J]. South China Fisheries Science, 2007, 3(2): 76-80.
    [9]LIU Guang-feng, XU Li-wen, HUANG Jian-rong, WANG Jiang-yong, XU Dan, LU Jing, ZHOU Shi-ning. The investgation of Vibrio spp. in abalone culture pond[J]. South China Fisheries Science, 2005, 1(3): 60-64.
    [10]WANG Jiang-yong, WANG Rui-xuan, LIU Guang-feng, CHEN Bi-sheng, PAN Jin-pei, XU Hua-sen. The relationship between extensive death of larvae of abalone Haliotis divesicolor Reeve and number of bacteria[J]. South China Fisheries Science, 2005, 1(1): 57-61.

Catalog

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

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

    /

    DownLoad:  Full-Size Img  PowerPoint
    Return
    Return