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  • CN 62-1070/P
  • ISSN 1000-694X
  • Bimonthly 1981
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Construction and Characterization of Enriched Microsatellite Library from Desert Plant Reaumuria soongarica

  • Yin Hengxia ,
  • Shi Yong ,
  • Zhang Wen ,
  • Yan Xia ,
  • Ma Xiaofei
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  • 1. Key Laboratory of Stress Physiology and Ecology in Cold and Arid Regions of Gansu Province, Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences, Lanzhou 730000, China;
    2. University of Chinese Academy of Sciences, Beijing 100049, China

Received date: 2016-01-09

  Revised date: 2016-02-24

  Online published: 2016-03-20

Abstract

The present study used the method of magnetic beads enrichment to build enriched microsatellite sequence library and analyzed the characteristics of library through sequencing results.The results showed that 13 922 microsatellite sequences were obtained with 88% perfect, 8% imperfect and 2% compound repeat motifs.Of these microsatellite loci, five type repeat primitives were presented, including prominent 60.7% three base primitive with (GGT)n, (TGG) n and (ACC)n, and 38.6% two base primitive with (AC)n, (GT)n and (CA)n. And the repeat time was mainly between 5 and 10, and declined as exceeding 30 times. Total 62 pairs of efficient PCR primers and 12 pairs of microsatellite primers have been screened by designing the primers with the 100 random microsatellite sequence and PCR screening with templates in populations with distant genetic and physical distance. Here, we revealed that the method of magnetic beads enrichment was high efficient and feasible for the development of Reaumuria soongarica genome microsatellite sequence. The present investigation would provide informative support and efficient genetic molecular marker for the genetic evolution and germplasm resources protection of Reaumuria soongarica.

Cite this article

Yin Hengxia , Shi Yong , Zhang Wen , Yan Xia , Ma Xiaofei . Construction and Characterization of Enriched Microsatellite Library from Desert Plant Reaumuria soongarica[J]. Journal of Desert Research, 2016 , 36(2) : 374 -382 . DOI: 10.7522/j.issn.1000-694X.2016.00015

References

[1] Litt M,Luty J A.A hypervariable microsatellite revealed by invitro amplification of dinucleotide repeat within the cardiac muscle actin gene[J].American Journal of Human Genetics,1989,44(3):397-401.
[2] 樊佳佳,白俊杰,李胜杰,等.大口黑鲈微卫星 DNA指纹图谱的构建和遗传结构分析[J].水生生物学报,2012,36(4):600-609.
[3] 马勇.SSR标记在植物遗传育种中的应用[J].小麦研究,2011,32(1):27-32.
[4] 杨韵龙,吴建国,周元飞,等.一个新的水稻小穗梗弯曲突变体的形态特征及基因定位[J].遗传,2013,35(2):208-214.
[5] Guo Y,Cheng B,Hong D.Construction of SSR linkage map and analysis of QTLs for rolled leaf in japonica rice[J].Rice Science,2010,17:28-34.
[6] Gupta P K,Rustgi S,Sharma S,et al.Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat[J].Molecular Genetics and Genomics,2003,270(4):315-323.
[7] Karagyozov L,Kalcheva I D,Chapman V M.Construction of random small-insert genomic libraries highly enriched for simple sequence repeats[J].Nucleic Acids Research,1993,21(16):3911.
[8] Zane L,Bargelloni L,Patarnello T.Strategies for microsatellite isolation:a review[J].Molecular Ecology,2002,11(1):1-16.
[9] Zhang R Y,Hu D D,Zhang J X,et al.Development and characterization of simple sequence repeat (SSR) markers for the mushroom Flammulina velutipes[J].Journal of Bioscience and Bioengineering,2010,110(3):273-275.
[10] Shi Y,Yan X,Zhao P,et al.Transcriptomic analysis of a tertiary relict plant,extreme xerophyte Reaumuria soongorica to identify genes related to drought adaptation[J].PloS One,2013,8(5):e63993.
[11] 刘美玲,曹波,刘玉冰,等.红砂(Reaumuria soongorica)黄酮类物质代谢及其抗氧化活性对UV-B辐射的响应[J].中国沙漠,2014,34(2):426-432.
[12] 肖生春,肖洪浪,宋耀选,等.荒漠植被红砂水热响应的年轮学研究[J].中国沙漠,2006,26(4):548-552.
[13] 赵昕,杨小菊,石勇,等.盐胁迫下荒漠共生植物红砂与珍珠的根茎叶中离子吸收与分配特征[J].生态学报.2014,34(4):963-972.
[14] 谭会娟,贾荣亮,刘玉冰,等.NaCl胁迫下红砂愈伤组织中主要离子累积特征的研究[J].中国沙漠,2010,30(6):1305-1310.
[15] Li Z H,Chen J,Zhao G F,et al.Response of a desert shrub to past geological and climatic change:A phylogeographic study of Reaumuria soongarica (Tamaricaceae) in western China[J].Journal of Systematics and Evolution,2012,50(4):351-361.
[16] Yin H X,Yan X,Shi Y,et al.The role of East Asian monsoon system in shaping population divergence and dynamics of a constructive desert shrub Reaumuria soongarica[J].Scientific Reports,2015,5:15823.
[17] Chen H,Zhu L,Cao X,et al.Development and characterization of polymorphic microsatellite primers in Reaumuria soongorica (Tamaricaceae)[J].American Journal of Botany,2011,98(8):e221-223.
[18] Thompson J D,Gibson T J,Plewniak F,et al.The CLUSTAL_X windows interface:flexible strategies for multiple sequence alignment aided by quality analysis tools[J].Nucleic Acids Research,1997,25(24):4876-4882.
[19] 李强,万建民.SSRHunter,一个本地化的SSR位点搜索软件的开发[J].遗传,2005,27(5):808-810.
[20] Weber J L.Informativeness of human (dC-dA)n-(dG-dT)n polymorphisms[J].Genomics,1990,7(4):524-530.
[21] 于冬梅,匡友谊,马海涛,等.用磁珠富集法制备史氏鲟的微卫星分子标记[J].大连水产学院学报,2007,22(6):431-435.
[22] Zane L,Bargelloni L,Patarnello T.Strategies for microsatellite isolation:a review[J].Molecular Ecology,2002,11(1):1-16.
[23] 张如华,李锐,赵景奎,等.柽柳EST-SSRs标记开发与群体检测[J].分子植物育种,2011,9:1291-1296.
[24] 程月琴,王红卫,万惠霞,等.文冠果富集SSR文库的构建及特性分析[J].河南农业大学学报,2013,47(4):440-445.
[25] 刘贯水,李潞滨.磁珠富集法开发毛竹SSR标记引物[J].林业科学研究,2011,24(6):743-748.
[26] 宋双,黄银芝,董雷鸣,等.山核桃SSR标记的初步开发[J].浙江农林大学学报,2012,29(4):626-633.
[27] 陈争.光皮桦微卫星标记的开发与应用[D].杭州:浙江农林大学,2012.
[28] 黄益洪,张强,张大勇,等.海蓬子属植物EST序列的SSR信息分析与标记开发[J].江苏农业学报,2013,29(6):1271-1277.
[29] 王艳红.菠萝蜜SSR分子标记的开发及其在种质资源遗传多样性分析中的应用[D].广东湛江:广东海洋大学,2010.
[30] 张艳丽,王雁,李正红,等.基于牡丹EST信息的滇牡丹SSR标记开发[J].林业科学研究,2011,24(2):171-175.
[31] 程月琴,焦振彬,张佩,等.地黄微卫星富集文库构建及特性分析[J].种子,2013,32(5):12-16.
[32] 王英,蔡汉强,贾伟章.黄花蒿EST资源的SSR信息分析及标记开发[J].中国中药杂志,2012,37(5):570-574.
[33] Gao L F,Tang J F,Li H W,et al.Analysis of microsatellites in major crops assessed by computational and experimental approaches[J].Molecular Breeding,2003,12(3):245-261.
[34] 李小白,张明龙,崔海瑞.油菜EST资源的SSR信息分析[J].中国油料作物学报,2007,29(1):20-25.
[35] 王丽鸳,姜燕华,段云裳,等.茶树 EST-SSRs分布特征及引物开发[J].植物遗传资源学报,2009,10(4):511-516.
[36] 王艳红,李映志,丰锋,等.磁珠富集法分离菠萝蜜微卫星标记及系列分析[J].果树学报,2010,27(6):1046-1051.
[37] 袁阳阳,王青锋,陈进明.基于转录组测序信息的水生植物莕菜SSR标记开发[J].植物科学学报,2013,31(5):485-492.
[38] 王蕾,张立冬,万玉美,等.牙鲆微卫星标记的筛选及群体遗传结构分析[J].遗传,2010,32(10):1057-1064.
[39] 何平.真核生物中的微卫星及其应用[J].遗传,1998,20(4):42-47.
[40] Santibanez K M,Gangeswaran R,Hancock J M.A relationship between lengths of microsatellite and nearby substitution rates in mammalian genomes[J].Molecular Biology and Evolution,2001,18(11):2119-2123.
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