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白菜EST-SSR信息分析与标记的建立 被引量:73

Data Mining for SSRs in ESTs and EST-SSR Marker Development in Chinese Cabbage
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摘要 数量迅速增加的EST为开发新的SSR标记提供了宝贵的资源。本研究对4584条白菜EST进行了搜索,共检索出474个SSR,检出率为10·3%,包括40种重复基元。其中二核苷酸和三核苷酸重复单元的EST-SSR占主导地位,二者出现的频率基本相近,占总SSR的近83%;其它重复类型所占比例均不足5%。GA和GAA是二、三核苷酸中的优势重复类型,分别占二、三核苷酸重复类型的71·5%和37·5%。设计了15对EST-SSR引物,在合适的PCR反应体系下,以构建EST的白菜自交系A的DNA为模板,对设计的EST-SSR引物进行筛选,发现15对EST-SSR引物都能扩增出产物。进一步用这些可扩增的引物对28个白菜品种进行PCR扩增,发现7对引物显示多态性,占引物总数的46·7%。此结果表明,根据EST建立EST-SSR标记是一条简便而又有效的途径。 Expressed sequence tags (ESTs), increased rapidly in number recently, are important resources for development of new SSR markers. In this study, 4 584 ESTs of Chinese cabbage were screened and 474 SSRs including 40 kinds of repeat motifs were mined out, accounting for 10. 3% of ESTs. Dinucleotide and trinucleotide repeats, with similar frequency and accounting for 83% together in all SSRs, were dominant, while the frequency for other repeat type is below 5% each. GA and GAA are the most frequent motifs, accounting fo 71.5% and 37.5% in dinucleotide and trinucleotide repeats respectively. 15 primer pairs for EST-SSRs were designed. Under a suitable PCR system, primers were screened against genomic DNA of inbred line A from which the cDNA library was constructed, and all the 15 primer pairs showed the amplification. Then all the primers available were subjected to PCR for DNAs from 28 Chinese cabbage varieties and 7 primer sets showed polymorphisms, accounting for 46.7% of total primers tested. Results indicate that it is a simple and effective approach to develop SSR markers based on ESTs.
出处 《园艺学报》 CAS CSCD 北大核心 2006年第3期549-554,共6页 Acta Horticulturae Sinica
基金 韩国科学技术厅资助项目(98-0402-0601-5)
关键词 白菜 EST SSR信息 标记 Chinese cabbage EST SSR information Marker development
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参考文献22

  • 1Powell W,Machray G C,Provan J.Polymorphism revealed by simple sequence repeats.Trends Plant Science,1996,1:215 ~ 222
  • 2Eujayl I,Sorrells M E,Baum M,Wolters P,Powell W.Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat.Theor.Appl.Genet.,2002,104:399 ~ 407
  • 3骆蒙,贾继增.植物基因组表达序列标签(EST)计划研究进展[J].生物化学与生物物理进展,2001,28(4):494-497. 被引量:84
  • 4Kantety R V,Rota M L,Matthews D E,Sorrells M E.Data mining for simple sequence repeats in expressed sequence tags from barley,maize,rice,sorghum and wheat.Plant Mol.Biol.,2002,48:501 ~510
  • 5忻雅,崔海瑞,张明龙,林容杓,崔水莲.白菜的EST标记及其对油菜的通用性[J].遗传,2005,27(3):410-416. 被引量:20
  • 6Doyle J J,Doyle J L.Isolation of plant DNA from fresh tissue.Focus,1990,12:13 ~ 15
  • 7Jang H S,Lim Y P,Hur Y.Expression of flowering-related genes in two inbred lines of Chinese cabbage.J.Plant Biotechnology,2003,5(4):209 ~214
  • 8Cordeiro G M,Casu R,McIntyre C L,Manners J M,Henry R J.Microsatellite markers from sugarcane (Saccharum spp.) ESTs cross transferable to erianthus and sorghum.Plant Sci.,2001,160:1115 ~1123
  • 9Gupta P K,Rustgi S,Sharma S,Singh R,Kumar N,Balyan H S.Transferable EST-SSRs markers for the study of polymorphism and genetic diversity in bread wheat.Mol.Gen.Genomics,2003,270:315 ~323
  • 10Rota L R,Kantety R V,Yu J K.Nonrandom distribution and frequencies of genomic and EST-derived microsatellite markers in rice,wheat,and barley.BMC Genomics,2005,6:23

二级参考文献64

  • 1傅荣昭 孙勇如.植物遗传转化技术手册[M].北京:中国科学技术出版社,1994.68-74.
  • 2Sourdille P, Charmet G, Trottet M, Tixier M H, Boeuf C, Nègre S, Barloy D, Bernard M. Linkage between RFLP molecular markers and the dwarfing genes Rht-B1 and Rht-D1 in wheat.Hereditas,1998,128:41-46.
  • 3Cho Y G, Ishii T, Temnykh S, Chen X, Lipovich L, Park W D, Ayres N, Cartinhour S, McCouch S R. Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa L.). Theor Appl Genet, 2000, 100:713-722.
  • 4Eujayl I, Sorrells M E, Baum M, Wolters P, Powell W. Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat. Theor Appl Genet, 2002, 104:399-407.
  • 5Holton R A, Christopher J T, McClure L, Harker N, Henry R J. Identification and mapping of polymorphic SSR markers from expressed gene sequences of barley and wheat. Molecular Breeding, 2002, 9: 63-71.
  • 6Kantety R V, Rota M L, Matthews D E, Sorrells M E. Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Mol Bio, 2002, 48: 501-510.
  • 7Thiel T, Michalek W, Varshney R K, Graner A. Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). Theor Appl Genet, 2003, 106:411-422.
  • 8Varshney R K, Thiel T, Stein N, Langridge P, Graner A. In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species. Cell Mol Biol Lett, 2002, 7: 537-546.
  • 9Lewin B. Genes Ⅴ. Oxford University Press, New York. 1994.
  • 10Sylvia Stack, Campbell L, Henderson K, Eujayl I, Hanafey M, Powell W, Wolters P. Development of EST-derived microsatellite markers for mapping and germplasm analysis in wheat. Plant & Animal Genome Ⅷ Conference, San Diego, CA, 2000, January 9-12.

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