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中国生物工程杂志

CHINA BIOTECHNOLOGY
中国生物工程杂志  2012, Vol. 32 Issue (01): 109-114    
综述     
高通量测序技术及其应用
王兴春1,2, 杨致荣3, 王敏1, 李玮1, 李生才2
1. 山西农业大学生命科学学院 太谷 030801;
2. 山西农业大学农学院 太谷 030801;
3. 山西农业大学文理学院 太谷 030801
High-throughput Sequencing Technology and Its Application
WANG Xing-chun1,2, YANG Zhi-rong3, WANG Min1, LI Wei1, LI Sheng-cai2
1. College of Life Sciences, Shanxi Agricultural University, Taigu 030801, China;
2. College of Agriculture, Shanxi Agricultural University, Taigu 030801, China;
3. College of Arts and Sciences, Shanxi Agricultural University, Taigu 030801, China
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摘要:

高通量测序技术是DNA测序发展历程的一个里程碑,它为现代生命科学研究提供了前所未有的机遇。详细介绍了以454、Solexa和SOLiD为代表的第二代高通量测序技术,以HeliScope TIRM和Pacific Biosciences SMRT为代表的单分子测序技术,以及最近Life Science公司推出的Ion Personal Genome Machine (PGM)测序技术等高通量测序技术的最新进展。在此基础上,阐述了高通量测序技术在基因组测序、转录组测序、基因表达调控、转录因子结合位点的检测以及甲基化等研究领域的应用。最后,讨论了高通量测序技术在成本和后续数据分析等方面存在的问题及其未来的发展前景。

关键词: 高通量测序深度测序下一代测序基因组测序转录组测序    
Abstract:

As a milestone in the development of DNA sequencing, high-throughput sequencing technology provides an unprecedented opportunity for the modern life sciences. The recent progress on this technology, including the second generation sequencing technology (represented by 454, Solexa and SOLiD), the third generation sequencing technology (represented by HeliScope TIRM and Pacific Biosciences SMART)and the Ion Personal Genome Machine sequencing technology are summarized. Then, the application of the high -throughput sequencing technology in genome sequencing, transcriptome sequencing, gene expression regulation, detection of binding locations for transcription factors and methylation analysis are summarized. Finally, the disadvantages and the prospects of this technology were discussed.

Key words: High-throughput sequencing    Deep sequencing    Next generation sequencing    Genome    Sequence    Transcriptome sequence
收稿日期: 2011-04-11 出版日期: 2012-01-25
ZTFLH:  Q3  
基金资助:

山西省青年科技研究基金(2010021030-1)、国家自然科学基金(31100235)资助项目

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引用本文:

王兴春, 杨致荣, 王敏, 李玮, 李生才. 高通量测序技术及其应用[J]. 中国生物工程杂志, 2012, 32(01): 109-114.

WANG Xing-chun, YANG Zhi-rong, WANG Min, LI Wei, LI Sheng-cai. High-throughput Sequencing Technology and Its Application. China Biotechnology, 2012, 32(01): 109-114.

链接本文:

https://manu60.magtech.com.cn/biotech/CN/        https://manu60.magtech.com.cn/biotech/CN/Y2012/V32/I01/109


[1] Mardis E R. Next-generation DNA sequencing methods. Annu Rev Genomics Hum Genet, 2008, 9:387-402.

[2] Sultan M, Schulz M H, Richard H, et al. A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science, 2008, 321(5891):956-960.

[3] Schuster S C. Next-generation sequencing transforms today's biology. Nat Methods, 2008, 5(1):16-18.

[4] Margulies M, Egholm M, Altman W E, et al. Genome sequencing in microfabricated high-density picolitre reactors. Nature, 2005, 437(7057):376-380.

[5] Porreca G J, Zhang K, Li J B, et al. Multiplex amplification of large sets of human exons. Nat Methods, 2007, 4(11):931-936.

[6] Ondov B D, Varadarajan A, Passalacqua K D, et al. Efficient mapping of Applied Biosystems SOLiD sequence data to a reference genome for functional genomic applications. Bioinformatics, 2008, 24(23):2776-2777.

[7] Harris T D, Buzby PR, Babcock H, et al. Single-molecule DNA sequencing of a viral genome. Science, 2008, 320(5872):106-109.

[8] Eid J, Fehr A, Gray J, et al. Real-time DNA sequencing from single polymerase molecules. Science, 2009, 323(5910):133-138.

[9] Wheeler D A, Srinivasan M, Egholm M, et al. The complete genome of an individual by massively parallel DNA sequencing. Nature, 2008, 452(7189):872-876.

[10] Li R, Fan W, Tian G, et al. The sequence and de novo assembly of the giant panda genome. Nature, 2010, 463(7279):311-317.

[11] Lu T T, Lu G J, Fan D L, et al. Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq. Genome Res, 2010, 20(9):1238-1249.

[12] Zhang G J, Guo G W, Hu X D, et al. Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome. Genome Res, 2010, 20(5):646-654.

[13] 滕晓坤,肖华胜. 基因芯片与高通量DNA测序技术前景分析. 中国科学 C 辑:生命科学, 2008, 38(10):891-899. Teng X K, Xiao H S. Perspectives of DNA microarry and next-generation DNA sequencing technologies.Science in China Series C-Life Science, 2008, 38(10):891-899.

[14] Eveland A L, Satoh-Nagasawa N, Goldshmidt A, et al. Digital gene expression signatures for maize development. Plant Physiol, 2010, 154(3):1024-1039.

[15] Lu C, Tej S S, Luo S, et al. Elucidation of the small RNA component of the transcriptome. Science, 2005, 309(5740):1567-1569.

[16] Sunkar R, Zhou X, Zheng Y, et al. Identification of novel and candidate miRNAs in rice by high throughput sequencing. BMC Plant Biol, 2008, 8:25-41.

[17] Yao Y, Guo G, Ni Z, et al. Cloning and characterization of microRNAs from wheat (Triticum aestivum L.). Genome Biol, 2007, 8(6):96-108.

[18] Solomon M J, Larsen PL, Varshavsky A. Mapping protein-DNA interactions in vivo with formaldehyde:evidence that histone H4 is retained on a highly transcribed gene. Cell, 1988, 53(6):937-947.

[19] Park PJ. ChIP-seq:advantages and challenges of a maturing technology. Nat Rev Genet, 2009, 10(10):669-680.

[20] Johnson D S, Mortazavi A, Myers R M, et al. Genome-wide mapping of in vivo protein-DNA interactions. Science, 2007, 316(5830):1497-1502.

[21] Mikkelsen T S, Ku M, Jaffe D B, et al. Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature, 2007, 448(7153):553-560.

[22] Barski A, Cuddapah S, Cui K, et al. High-resolution profiling of histone methylations in the human genome. Cell, 2007, 129(4):823-837.

[23] Wang X, Niu Q W, Teng C, et al. Overexpression of PGA37/MYB118 and MYB115 promotes vegetative-to-embryonic transition in Arabidopsis. Cell Res, 2009, 19(2):224-235.

[24] Down T A, Rakyan V K, Turner D J, et al. A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis. Nat Biotechnol, 2008, 26(7):779-785.

[25] Cokus S J, Feng S, Zhang X, et al. Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature, 2008, 452(7184):215-219.

[26] Li N, Ye M, Li Y, et al. Whole genome DNA methylation analysis based on high throughput sequencing technology. Methods, 2010, 52(3):203-212.

[27] Yan H H, Kikuchi S, Neumann P, et al. Genome-wide mapping of cytosine methylation revealed dynamic DNA methylation patterns associated with genes and centromeres in rice. Plant J, 2010, 63(3):353-365.

[28] Xiang H, Zhu J, Chen Q, et al. Single base-resolution methylome of the silkworm reveals a sparse epigenomic map. Nat Biotechnol, 2010, 28(5):516-520.

[29] Gilad Y, Pritchard J K, Thornton K. Characterizing natural variation using next-generation sequencing technologies. Trends in Genetics, 2009, 25(10):463-471.

[30] Zhou X, Ren L, Li Y et al. The next-generation sequencing technology:a technology review and future perspective. Sci China Life Sci, 2010, 53(1):44-57

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