Research Progress on Technology ofIn-gelProteinDigestion

doi:10.13560/j.cnki.biotech.bull.1985.2015.01.009

Abstract

Abstract: In-gel digestion is the important step that connects electrophoresis separation and mass spectrometry identification in proteome research, and can significantlyaffect the results of qualitative and quantitative analysis of proteins. The technology was firstly proposed in 1992, and from then on, many progresses have been made and various improvement plans have been developed. In order to more effectively use the technology of in-gel digestion, the progress on the aspects of gel decoloration, impurity removal, protein digestion and peptides extraction were reviewed from the literature.

Key words: in-gel protein digestion, sample preparation, mass spectrometry, electrophoretic separation, technical progress

Jiang Chao, Zhang Xuewen, Pan Yinghong. Research Progress on Technology ofIn-gelProteinDigestion[J]. Biotechnology Bulletin, 2015, 31(1): 61-66.

References

[1] Clark P, Emerick M, Kopaciewicz W, -et al. Anti-clogging device and method for in-gel digestion applications：US, 8, 012, 434[P] . 2011-9-6.
[2] Rosenfeld J, Capdevielle J, Guillemot JC, et al. In-gel digestion of proteins for internal sequence analysis after one-or two-dimensional gel electrophoresis[J]. Analytical Biochemistry, 1992, 203（1）：173-179.
[3] Takakura D, Hashii N, Kawasaki N. An improved in-gel digestion method for efficient identification of protein and glycosylation analysis of glycoproteins using guani--dine hydrochloride[J]. Proteomics, 2014, 14（2-3）：196-201.
[4] Kundu S, Chakraborty D, Das K, et al. An efficient in-gel digestion protocol for mass spectral analysis by MALDI-TOF-MS and MS/MS and its use for proteomic analysis of vigna mungo leaves[J]. Plant Molecular Biology Reporter, 2013, 31（1）：47-54.
[5] G-etie-Kebtie M, Alterman MA. Exploring the capabilities of the protein identification by unconventional sample preparation approaches：LC/MALDI/On-target digestion approach and high pressure-assisted in-gel tryptic digestion[M] //Sample Preparation in Biological Mass Spectrometry. Springer Netherlands, 2011：141-155.
[6] Lill JR, Nesatyy VJ. Microwave-assisted protein staining, destaining, and in-gel/in-solution digestion of proteins[M] //Protein Electrophoresis. Humana Press, 2012：521-532.
[7] Wei H, Qiang F, PingChuan Z, et al. An optimized method of proteins in-gel digestion for mass spectrometry identification[J]. Journal of Southern Agriculture, 2011, 42（7）：802-805.
[8] Gauci VJ, Padula MP, Coorssen JR. Coomassie blue staining for high sensitivity gel-based proteomics[J]. Journal of Proteomics, 2013, 90（9）：96-106.
[9] Quinten TA, Kuhn A. Membrane interaction of the portal protein gp20 of bacteriophage T4[J]. Journal of Virology, 2012, 86（20）：11107-11114.
[10] 刘小青, 朱力, 胡威, 等. 蛋白负染方法在蛋白质组学中的应用评价[J]. 微生物学通报, 2010, 37（7）：1076-1082.
[11] Zhou G, Yang LT, Li YR, et al. Proteomic analysis of osmotic stressresponsive proteins in sugarcane leaves[J]. Plant Molecular Biology Reporter, 2012, 30（2）：349-359.
[12] 王鸿丽, 刘锋, 赵永强, 等. 非离子去污剂提高双向电泳银染后胶内酶切的效率[J]. 军医进修学院学报, 2012, 32（12）：1260-1262.
[13] Cong- WT, Wang X, Hwang SY, et al. Counterion dye staining of proteins in one-and two-dimensional sodium dodecyl sulfate-polyacrylamide gel electrophoresis and tryptic gel digestion of stained protein for mass spectrometry[M] //Protein Electrophoresis. Humana Press, 2012：497-509.
[14] Utrera M, Morcuende D, Estévez M. Temperature of frozen storage affects the nature and consequences of protein oxidation in beef patties[J]. Meat Science, 2014, 96（3）：1250-1257.
[15] Sriswasdi S, Harper SL, Tang HY, et al. Probing large conformatio-nal rearrangements in wild-type and mutant spectrin using structu-ral mass spectrometry[J]. Proceedings of the National Academy of Sciences, 2014, 111（5）：1801-1806.
[16] Mora L, Bramley PM, Fraser PD. Development and optimisation of a label-free quantitative proteomic procedure and its application in the assessment of genetically modified tomato fruit[J]. Proteomics, 2013, 13（12-13）：2016-2030.
[17] Petrotchenko EV, Serpa JJ, Cabecinha AN, et al.“Out-Gel”tryptic digestion procedure for chemical cross-linking studies with mass spectrometric detection[J]. Journal of Proteome Research, 2014, 13（2）：527-535.
[18] Tan F, Jiang Y, Sun N, et al. Identification of isocitrate dehydroge-nase 1 as a potential diagnostic and prognostic biomarker for non-small cell lung cancer by proteomic analysis[J]. Molecular & Cellular Proteomics, 2012, 11（2）：111-117.
[19] 胡炜, 付强, 朱平川, 等. 用于质谱鉴定蛋白质胶内酶解方法的优化[J]. 南方农业学报, 2011, 42（7）：802-805.
[20] Takakura D, Hashii N, Kawasaki N. An improved in-gel digestion method for efficient identification of protein and glycosylation analysis of glycoproteins using guanidine hydrochloride[J]. Proteomics, 2014, 14（2-3）：196-201.
[21] Choksawangkarn W, Edwards N, Wang Y, et al. Comparative study of workflows optimized for in-gel, in-solution, and on-filter proteolysis in the analysis of plasma membrane proteins[J]. Journal of Proteome Research, 2012, 11（5）：3030-3034.
[22] Gorka J, Rohmer M, Bornemann S, et al. Perfusion reversed-phase high-performance liquid chromatography for protein separation from detergent-containing solutions：an alternative to gel-based approaches[J]. Analytical Biochemistry, 2012, 424（2）：97-107.
[23] Niemel? M, Pitk?aho S, Ojala S, et al. Microwave-assisted aqua regia digestion for determining platinum, palladium, rhodium and lead in catalyst materials[J]. Microchemical Journal, 2012, 101（8）：75-79.
[24] Mei J, Shao J, Wang Q, et al. Separation and quantification of neoagaro-oligosaccharides[J]. Journal of Food Science and Technology, 2013, 50（6）：1217-1221.
[25] Fran?ois P, Scherl A, Hochstrasser D, et al. Proteomic approach to investigate pathogenicity and metabolism of methicillin-resistant Staphylococcus aureus[M] //Methicillin-Resistant Staphylococcus aureus（MRSA）Protocols. Humana Press, 2014：231-250.
[26] Leon IR, Schw?mmle V, Jensen ON, et al. Quantitative assessment of in-solution digestion efficiency identifies optimal protocols for unbiased protein analysis[J]. Molecular & Cellular Proteomics, 2013, 12（10）：2992-3005.
[27] Saveliev SV, Woodroofe CC, Sabat G, et al. Mass spectrometry compatible surfactant for optimized in-gel protein digestion[J]. Analytical Chemistry, 2013, 85（2）：907-914.
[28] Damm M, Nusshold C, Cantillo D, et al. Can electromagnetic fields influence the structure and enzymatic digest of proteins? a critical evaluation of microwave-assisted proteomics protocols[J]. Journal of Proteomics, 2012, 75（18）：5533-5543.
[29] Ruan G, Chen Z, Wei M, et al. The study on microwave assisted enzymatic digestion of ginkgo protein[J]. Journal of Molecular Catalysis B：Enzymatic, 2013, 94：23-28.
[30] Lin YJ, Le GW, Wang JY, et al. Antioxidative peptides derived from enzyme hydrolysis of bone collagen after microwave assisted acid pre-treatment and nitrogen protection[J]. International Journal of Molecular Sciences, 2010, 11（11）：4297-4308.
[31] Lopez-Ferrer D, Hixson KK, Belov ME, et al. Ultra-fast sample preparation for high-throughput proteomics[M] //Sample Preparation in Biological Mass Spectrometry. Springer Netherlands, 2011：125-139.
[32] 成洁, 邹丽莉, 段进丹, 等. 超声辅助酶切法用于溶液内蛋白质样品酶切特点分析[J]. 基础医学与临床, 2013, 33（3）：335-340.
[33] Araújo JE, Oliveira E, Otero-Glez A, et al. A comprehensive factorial design study of variables affecting protein extraction from formalin-fixed kidney tissue samples[J]. Talanta, 2014, 119：90-97.
[34] 范超, 宋子凤, 秦伟捷, 等. 新型亲水聚合物修饰硅胶颗粒固定化酶的制备及在蛋白质组鉴定中的应用[J]. 色谱, 2013, 2013, 5（5）：57-59.
[35] 张姣, 周廉淇, 田芳, 等. 采用磁性载体制备的固定化酶反应器的载体粒径对蛋白质酶解性能的影响[J]. 色谱, 2013, 31（2）：102-110.
[36] Kang SU, Heo S, Lubec G. In-gel total protein quantification using a ninhydrin-based method[J]. Amino Acids, 2013, 45（4）：1003-1013.
[37] Xu B, Zhang Y, Zhao Z, et al. Usage of electrostatic eliminator reduces human keratin contamination significantly in gel-based proteomics analysis[J]. Journal of Proteomics, 2011, 74（7）：1022-1029.
[38] Antrobus R, Wakefield JG. Isolation, identification, and validation of microtubule-associated proteins from Drosophila embryos[M] //Microtubule Dynamics. Humana Press, 2011：273-291.
[39] Pernemalm M, Lehtio? J. A novel prefractionation method combining protein and peptide isoelectric focusing in immobilized pH gradient strips[J]. Journal of Proteome Research, 2012, 12（2）：1014-1019.
[40] Paasch U, Heidenreich F, Pursche T, et al. Identification of increased amounts of eppin protein complex components in sperm cells of diabetic and obese individuals by difference gel electrophoresis[J]. Molecular & Cellular Proteomics, 2011, 10（8）：110-116.
[41] Bae N, Li L, L?dl M, et al. Peptide toxin glacontryphan-M is present in the wings of the butterfly Hebomoia glaucippe（Linnaeus, 1758）（Lepidoptera：Pieridae）[J]. Proceedings of the National Academy of Sciences, 2012, 109（44）：17920-17924.
[42] Li Y, Wojcik R, Dovichi NJ. A replaceable microreactor for on--line protein digestion in a two-dimensional capillary electrophoresis system with tandem mass spectrometry detection[J]. Journal of Chromatography A, 2011, 1218（15）：2007-2011.
[43] Demers-Mathieu V, Gauthier SF, Britten M, et al. Antibacterial activity of peptides extracted from tryptic hydrolyzate of whey protein by nanofiltration[J]. International Dairy Journal, 2013, 28（2）：94-101.
[44] Mou S, Sun L, Wojcik R, et al. Coupling immobilized alkaline phosphatase-based automated diagonal capillary electrophoresis to tandem mass spectrometry for phosphopeptide analysis[J]. Talanta, 2013, 116（6）：985-990.
[45] Zhang Y, Zhang L, Sun J, et al. Proteomic analysis identifies prote-ins related to carotenoid accumulation in Yesso scallop（Patinopec-ten yessoensis）[J]. Food Chemistry, 2014, 147（8）：111-116.
[46] Sacchetti C, Motamedchaboki K, Magrini A, et al. Surface polyeth-ylene glycol conformation influences the protein corona of polyeth-ylene glycol-modified single-walled carbon nano tubes：potential implications on biological performance[J]. ACS Nano, 2013, 7（3）：1974-1989.