肽组学样品前处理方法与技术进展

doi:10.3724/SP.J.1123.2013.05030

摘要/Abstract

摘要：

肽组学作为蛋白质组学研究领域的一个重要分支,在生物标志物发现、疾病早期诊断、生物制药等领域有着广阔的应用前景。在肽组学研究过程中,样品前处理是首要环节。本文对肽组学样品前处理方法与技术进行了综述,内容涉及超滤技术、有机溶剂沉淀方法、固相萃取技术等。样品中大量高丰度蛋白质的存在是肽组学发展面临的最大挑战,因此迫切需要发展快速、有效、高通量、自动化的样品前处理方法和技术。

关键词: 低分子量蛋白质, 多肽, 肽组学, 样品前处理

Abstract:

As a branch of proteomics, peptidome has been extensively applied in biomarker discovery, early diagnosis and pharmacy. In the research of peptidome, sample pretreatment plays a vital role. Here, we review the pretreatment approaches and techniques of peptidome, mainly including ultrafiltration, organic solvent precipitation, solid phase extraction and so on. The biggest challenge of the development of peptidome is the large number of high-abundance proteins in the sample. Therefore, there is an urgent need to develop the fast, efficient, high-throughput and automated sample preparation methods and techniques.

Key words: low-molecular weight proteins, peptides, peptidome, sample pretreatment

中图分类号:

O658

魏黎明, 陆豪杰, 杨芃原, 武欣. 肽组学样品前处理方法与技术进展[J]. 色谱, 2013, 31(7): 603-612.

WEI Liming, LU Haojie, YANG Pengyuan, WU Xin. Development of sample pretreatment approach and technology for peptidome[J]. Chinese Journal of Chromatography, 2013, 31(7): 603-612.

参考文献

[1] Robinson W H, Steinman L. Nat Biotech, 2011, 29(6): 500
[2] Hölttä M, Zetterberg H, Mirgorodskaya E, et al. PLoS ONE, 2012, 7(8): e42555
[3] Larman H B, Zhao Z, Laserson U, et al. Nat Biotech, 2011, 29(6): 535
[4] Gelman J S, Sironi J, Castro L M, et al. J Proteome Res, 2011, 10(4): 1583
[5] Soloviev M, Finch P. Proteomics, 2006, 6(3): 744
[6] Villanueva J, Shaffer D R, Philip J, et al. J Clin Inverst, 2006, 116(1): 271 http://www.ncbi.nlm.nih.gov/pubmed/16395409#
[7] Chertov O, Simpson J T, Biragyn A, et al. Expert Rev Proteomics, 2005, 2(1): 139
[8] Hu L, Ye M, Zou H. Expert Rev Proteomics, 2009, 6(4): 433
[9] West-Norager M, Kelstrup C D, Schou C, et al. J Chromatogr B, 2007, 847(1): 30
[10] Hsieh S Y, Chen R Y, Pan Y H, et al. Proteomics, 2006, 6(10): 3189
[11] Di Girolamo F, Alessandroni J, Somma P, et al. J Proteomics, 2010, 73(3): 667
[12] Banks R E, Stanley A J, Cairns D A, et al. Clin Chem, 2005, 51(9): 1637
[13] Zimmerman L J, Li M, Yarbrough W G, et al. Mol Cell Proteomics, 2012, 11(6): 1 http://www.keepthefaith1296.com/parkinsons/interlaboratory-study-characterizing-a-yeast-performance-standard-for-benchmarking-lc-ms-platform-performance-MTk4NTg0OTk=.htm
[14] de Jong E P, van Riper S K, Koopmeiners J S, et al. Clin Chim Acta, 2011, 412(23/24): 2284 http://www.keepthefaith1296.com/parkinsons/development-and-evaluation-of-normalization-methods-for-label-free-relative-quantification-of-endogenous-peptides-MTk1OTY2OTU=.htm
[15] Scholz B, Sköld K, Kultima K, et al. Mol Cell Proteomics, 2011, 10(3): 1 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3517140/
[16] Zhou M, Lucas D A, Chan K C, et al. Electrophoresis, 2004, 25(9): 1289
[17] Tirumalai R S, Chan K C, Prieto D A, et al. Mol Cell Proteomics, 2003, 2(10): 1096
[18] Kawashima Y, Fukutomi T, Tomonaga T, et al. J Proteome Res, 2010, 9(4): 1694
[19] Vitorino R, Guedes S, Manadas B, et al. J Proteomics, 2012, 75(17): 5140
[20] Good D M, Zürbig P, Argilés A, et al. Mol Cell Proteomics, 2010, 9(11): 2424
[21] Ziganshin R, Arapidi G, Azarkin I, et al. J Proteomics, 2011, 74(5): 595
[22] Fan N J, Gao C F, Wang X L, et al. J Biomed Biotech. DOI: 10.1155/2012/985020
[23] Sköld K, Svensson M, Norrman M, et al. Proteomics, 2007, 7(24): 4445
[24] Bora A, Annangudi S P, Millet L J, et al. J Proteome Res, 2008, 7(11): 4992
[25] Sturm R M, Greer T, Woodards N, et al. J Proteome Res, 2013, 12(2): 743
[26] Svensson M, Sköld K, Svenningsson P, et al. J Proteome Res, 2003, 2(2): 213
[27] Sköld K, Svensson M, Kaplan A, et al. Proteomics, 2002, 2(4): 447
[28] Che F Y, Zhang X, Berezniuk I, et al. J Proteome Res, 2007, 6(12): 4667
[29] Romanova E V, Rubakhin S S, Sweedler J V. Anal Chem, 2008, 80(9): 3379
[30] Harper R G, Workman S R, Schuetzner S, et al. Electrophoresis, 2004, 25(9): 1299
[31] Zheng X, Baker H, Hancock W S. J Chromatogr A, 2006, 1120(1/2): 173 http://www.northeastern.edu/barnett/faculty/bios/hancock.html
[32] Greening D W, Simpon R J. J Proteomics, 2010, 73(3): 637
[33] Zougman A, Pilch B, Podtelejnikov A, et al. J Proteome Res, 2008, 7(1): 386
[34] Yin P, Knolhoff A M, Rosenberg H J, et al. J Proteome Res, 2012, 11(8): 3965
[35] Lee J E, Atkins N Jr, Hatcher N G, et al. Mol Cell Proteomics, 2010, 9(2): 285
[36] Alpert A J, Shukla A K. J Biomol Techniques, 2003, 14: 55
[37] Kay R, Barton C, Ratcliffe L, et al. Rapid Commun Mass Spectrom, 2008, 22(20): 3255
[38] Tucholska M, Scozzaro S, Williams D, et al. Anal Biochem, 2007, 370(2): 228
[39] Polson C, Sarkar P, Incledon B, et al. J Chromatogr B, 2003, 785(2): 263
[40] Chertov O, Biragyn A, Kwak L W, et al. Proteomics, 2004, 4(4): 1195
[41] Hayakawa E, Landuyt B, Baggerman G, et al. Peptides, 2013, 42: 63
[42] Zhao L S, Li Q, Yang W, et al. Chinese Journal of Chromatography (赵龙山, 李清, 杨威, 等. 色谱), 2012, 30(7): 705
[43] Kawashima Y, Fukutomi T, Tomonaga T, et al. J Proteome Res, 2010, 9(4): 1694
[44] Vitorino R, Barros A S, Caseiro A, et al. Talanta, 2012, 94: 209
[45] Potier D N, Griffiths J R, Unwin R D, et al. Anal Chem, 2012, 84(13): 5604
[46] Engwegen J Y M N, Gast M C W, Schellens J H M, et al. Trends Pharmacol Sci, 2006, 27(5): 251
[47] Drake R R, Cazares L H, Semmes O J, et al. Expert Rev Mol Diagn, 2005, 5(1): 93
[48] Zhang Z, Bast R C Jr, Yu Y, et al. Cancer Res, 2004, 64(16): 5882
[49] Peng J, Stanley A J, Cairns D, et al. Proteomics, 2009, 9(2): 492
[50] Winder A W J, Gast M C W, Beijnen J H, et al. BMC Medical Genomics, 2009, 2: 4
[51] Villanueva J, Philip J, Entenberg D, et al. Anal Chem, 2004, 76(6): 1560
[52] Tiss A, Smith C, Camuzeaux S, et al. Proteomics, 2007, 7(1): 77
[53] Baumann S, Ceglarek U, Fiedler G M, et al. Clin Chem, 2005, 51(6): 973
[54] Fiedler G M, Baumann S, Leichtle A, et al. Clin Chem, 2007, 53(3): 421
[55] Gatlin C L, White K Y, Tracy M B, et al. J Mass Spectrom, 2011, 46(1): 85
[56] Chen H, Deng C, Li Y, et al. Adv Mater, 2009, 21(21): 2200
[57] Chen H, Qi D, Deng C, et al. Proteomics, 2009, 9(2): 380
[58] Chen H, Liu S, Li Y, et al. Proteomics, 2011, 11(5): 890
[59] Wu C X, Wang C, Wang Z. Chinese Journal of Chromatography (武春霞, 王春, 王志. 色谱), 2011, 29(1): 6
[60] Li X, Xu S, Pan C, et al. J Sep Sci, 2007, 30(6): 930
[61] Vallant R M, Szabo Z, Trojer L, et al. J Proteome Res, 2007, 6(1): 44
[62] Wei L, Shen Q, Lu H, et al. J Chromatogr B, 2009, 877(29): 3631
[63] Yin P, Zhao M, Deng C. Nanoscale, 2012, 4(22): 6948
[64] Tian R, Zhang H, Ye M, et al. Angew Chem Int Ed, 2007, 46(6): 962
[65] Tian R, Ye M, Hu L, et al. J Sep Sci, 2007, 30(14): 2204
[66] Qin H, Gao P, Wang F, et al. Angew Chem Int Ed, 2011, 50(51): 12218
[67] Terracciano R, Preianò M, Palladino G P, et al. Proteomics, 2011, 11(16): 3402
[68] Qian K, Gu W, Yuan P, et al. Small, 2012, 8(2): 231
[69] Preianò M, Pasqua L, Gallelli L, et al. Proteomics, 2012, 12(22): 3286
[70] Yin P, Wang Y, Li Y, et al. Proteomics, 2012, 12(18): 2784
[71] Chen H, Liu S, Yang H, et al. Proteomics, 2010, 10(5): 930
[72] Liu S, Chen H, Lu X, et al. Angew Chem, 2010, 122(41): 7719
[73] Wan J, Qian K, Zhang J, et al. Langmuir, 2010, 26(10): 7444
[74] Zhu G T, Li X S, Fu X M, et al. Chem Commun, 2012, 48(80): 9980
[75] Hu Y, Bouamrani A, Tasciotti E, et al. ACS Nano, 2010, 4(1): 439
[76] Tan J, Zhao W J, Yu J K, et al. Adv Healthcare Mater, 2012, 1: 742
[77] Sudhir P R, Wu H F, Zhou Z C. Anal Chem, 2005, 77(22): 7380
[78] Gu Z Y, Chen Y J, Jiang J Q, et al. Chem Commun, 2011, 47(16): 4787
[79] Rodthongkum N, Chen Y, Thayumanavan S, et al. Anal Chem, 2010, 82(20): 8686
[80] Wu X Y, Wang R, Xie H, et al. Chinese Journal of Chromatography (武晓玉, 王荣, 谢华, 等. 色谱), 2012, 30(8): 810
[81] Wagner K, Miliotis T, Marko-Varga G, et al. Anal Chem, 2002, 74(4): 809
[82] Hu L, Boos K S, Ye M, et al. J Chromatogr A, 2009, 1216: 5377
[83] Luchini A, Geho D H, Bishop B, et al. Nano Lett, 2008, 8(1): 350
[84] Longo C, Patanarut A, George T, et al. PLoS ONE, 2004, 4(3): e4763
[85] Fedolini C, Meani F, Reeder K A, et al. Nano Res, 2008, 1(16): 502
[86] Rainczuk A, Meehan K, Steer D L, et al. Proteomics, 2010, 10(2): 332
[87] Tamburro D, Fredolini C, Espina V, et al. J Am Chem Soc, 2011, 133(47): 19178
[88] Tian R, Ren L, Ma H, et al. J Chromatogr A, 2009, 1216: 1270
[89] Hu L, Zhou H, Li Y, et al. Anal Chem, 2009, 81(1): 94
[90] Zhu J, Wang F, Cheng K, et al. J Proteomics, 2013, 78: 389
[91] Liu L, Zhang Y, Zhang L, et al. Anal Chim Acta, 2012, 753: 64
[92] Hu L, Li X, Jiang X, et al. J Proteome Res, 2007, 6(2): 801
[93] Shen Y, Liu T, Toli? N, et al. J Proteome Res, 2010, 9(5): 2339
[94] Ly L, Wasinger V C. Proteomics, 2008, 8(20): 4197
[95] Kamphorst J J, Tjaden U R, Heijden R, et al. Electrophoresis, 2009, 30(13): 2284
[96] Tanaka K, Tsugawa N, Kim Y O, et al. Biochem Biophys Res Commun, 2009, 379(1): 110