Separation of biological proteins by liquid chromatography

Saudi Pharmaceutical Journal

Volumn 18, Issue 2, 2010, Pages 59-73

  Ali, Imran ^a   Aboul Enein, Hassan Y ^b   Singh, Prashant ^c   Singh, Rakesh ^d   Sharma, Bhavtosh ^a  

^a JAMIA MILLIA ISLAMIA CENTRAL UNIVERSITY   (India)

^b NATIONAL RESEARCH CENTRE   (Egypt)

^c Dayanand Anglo Vaidic Post Graduate College   (India)

^d DBS Post Graduate College Dehradun   (India)

Author keywords

Chirality; Gene; Liquid chromatography; Nano detection; Preparation; Proteomics

Indexed keywords

PROTEOME; SNAKE VENOM;

AFFINITY CHROMATOGRAPHY; CAPILLARY CHROMATOGRAPHY; CAPILLARY ELECTROCHROMATOGRAPHY; CELL MEMBRANE; CHIRALITY; GEL PERMEATION CHROMATOGRAPHY; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; INTERMETHOD COMPARISON; ION EXCHANGE CHROMATOGRAPHY; LIQUID CHROMATOGRAPHY; NONHUMAN; PROTEIN ANALYSIS; PROTEOMICS; REVERSED PHASE HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; REVIEW; SEPARATION TECHNIQUE;

EID: 77950502931     PISSN: 13190164     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jsps.2010.02.001     Document Type: Review

References (77)

1. Andre M., Le Caer J.P., Greco C., Planchon S., El Nemer W., Boucheix C., Rubinstein E., Chamot-Rooke J., and Le Naour F. Proteomic analysis of the tetraspanin web using LC-ESI-MS/MS and MALDI-FTICR-MS. Proteomics 6 (2006) 1437-1449
2. Azarkan M., Huet J., Baeyens-Volant D., Looze Y., and Vandenbussche G. Affinity chromatography: a useful tool in proteomic studies. J. Chromatogr. B 849 (2007) 81-90
3. Babusiak M., Man P., Petrak J., and Vyoral D. Native proteomic analysis of protein complexes in murine intestinal brush border membranes. Proteomics 7 (2007) 121-129
4. Banfi C., Brioschi M., Wait R., Begum S., Gianazza E., Fratto P., Polvani G., Vitali E., Parolari A., Mussoni L., and Tremoli E. Proteomic analysis of membrane microdomains derived from both failing and non-failing human hearts. Proteomics 6 (2006) 1976-1988
5. Bihan T.L., Robinson M.D., Stewart I.I., and Figeys D. Definition and characterization of a "Trypsinosome" from specific peptide characteristics by nano-HPLC-MS/MS and in silico analysis of complex protein mixtures. J. Proteome Res. 3 (2004) 1138-1148
6. Boisvert F.M., Cote J., Boulanger M.C., and Richard S. A proteomic analysis of arginine-methylated protein complexes. Mol. Cell Proteomics 2 (2003) 1319-1330
7. Brock J.W., Hinton D.J., Cotham W.E., Metz T.O., Thorpe S.R., Baynes J.W., and Ames J.M. Proteomic analysis of the site specificity of glycation and carboxymethylation of ribonuclease. J. Proteome Res. 2 (2003) 506-513
8. Calvete J.J., Escolano J., and Sanz L. Snake venomics of Bitis species reveals large intragenus venom toxin composition variation: application to taxonomy of congeneric taxa. J. Proteome Res. 6 (2007) 2732-2745
9. Cantin G.T., Venable J.D., Cociorva D., and Yates III J.R. Quantitative phosphoproteomic analysis of the tumor necrosis factor pathway. J. Proteome Res. 5 (2006) 127-134
10. Cao P., and Stults J.T. Mapping the phosphorylation sites of proteins using on-line immobilized metal affinity chromatography/capillary electrophoresis/electrospray ionization multiple stage tandem mass spectrometry. Rapid Commun. Mass Spectrom. 14 (2000) 1600-1606
11. Carlsohn E., Nystrom J., Karlsson H., Svennerholm A.M., and Nilsson C.L. Characterization of the outer membrane protein profile from disease-related Helicobactor pylori isolates by subcellular fractionation and nano-LCFT-ICR MS analysis. J. Proteome Res. 5 (2006) 3197-3204
12. Casado B., Pannell L.K., Iadarola P., and Baraniuk J.N. Identification of human nasal mucous proteins using proteomics. Proteomics 5 (2005) 2949-2959
13. Chen X., Cushman S.W., Pannel L.K., and Hess S. Quantitative proteomic analysis of the secretory proteins from rat adipose cells using a-2D liquid chromatography MS/MS approach. J. Proteome Res. 4 (2005) 570-577
14. Crugliano T., Quaresima B., Gaspari M., Faniello M.C., Romeo F., Baudif, Cuda G., Costanzo F., and Venuta S. Specific changes in the proteomic pattern produced by the BRCA1-Ser1841 Asn missense mutation. Int. J. Biochem. Cell Biol. 39 (2007) 220-226
15. de la Fuente van Bentem S., Anrather D., Roitinger E., Djamei A., Hufnagl T., Barta A., Csaszar E., Dohnal I., Lecourieux D., and Hirt H. Phosphoproteomics reveals extensive in vivo phophorylation of arabidopsis proteins involved in RNA metabolism. Nucl. Acids Res. 34 (2006) 3267-3278
16. Drew J.E., Rucklidge G.J., Duncan G., Lufty A., Farquharson A.J., Reid M.D., Russell W.R., Morrice P.C., Arthur J.R., and Duthie G.G. A proteomics approach to identify changes in protein profiles in pre-cancerous colon. Biochem. Biophys. Res. Commun. 330 (2005) 81-87
17. Elortza F., Mohammed S., Bunkenborg J., Foster L.J., Nuhse T.S., Brodbeck Urs., Peck S.C., and Jensen O.N. Modification-specific proteomics of plasma membrane proteins: identification and characterization of glycosylphosphatidylinositol-anchored proteins released upon phospholipase D treatment. J. Proteome Res. 5 (2006) 935-943
18. Fung K.Y., Morris C., Sathe S., Sack R., and Duncan M.W. Characterization of the in vivo forms of lacrimal-specific proline-rich proteins in human tear fluid. Proteomics 4 (2004) 3953-3959
19. Gallagher E.P., Gardner J.L., and Barber D.S. Several glutathione S-transferase isozymes that protect against oxidative injury are expressed in human liver mitochondria. Biochem. Pharmacol. 71 (2006) 1619-1628
20. Garcia A., Zitzmann N., and Watson S.P. Analyzing the platelet proteome. Semin. Thromb. Hemost. 30 (2004) 485-489
21. Garcia A., Watson S.P., Dwek R.A., and Zitzmann N. Applying proteomics technology to platelet research. Mass Spectrom. Rev. 24 (2005) 918-930
22. Garcia B.A., Smalley D.M., Cho H., Shabanowitz J., Ley K., and Hunt F. The platelet microparticle proteome. J. Proteome Res. 4 (2005) 1516-1521
23. Glinski M., and Weckwerth W. The role of mass spectrometry in plant systems biology. Mass Spectrom. Rev. 25 (2006) 173-214
24. Hoffert J.D., Wang G., Pisitkun T., Shen R.F., and Knepper M.A. An automated platform for analysis of phosphoproteomic datasets: application to kidney collecting duct phosphoproteins. J. Proteome Res. 6 (2007) 3501-3508
25. Hortin G.L., Shen R.F., Martin B.M., and Remaley A.T. Diverse range of small peptides associated with high-density lipoprotein. Biochem. Biophys. Res. Commun. 340 (2006) 909-915
26. Husson S.J., Clynen E., Baggerman G., De Loof A., and Schoofs L. Discovering neuropeptides in Caenorhabditis elegans by two dimensional liquid chromatography and mass spectrometry. Biochem. Biophys. Res. Commun. 335 (2005) 76-86
27. Husson S.J., Clynen E., Baggerman G., Janssen T., and Schoofs L. Defective processing of neuropeptide precursors in Caenorhabditis elegans lacking proprotein convertase 2 (KPC-2/EGL-3): mutant analysis by mass spectrometry. J. Neurochem. 98 (2006) 1999-2012
28. Kawamura A., and Hindi S. Protein fishing with chiral molecular baits. Chirality 17 (2005) 332-337
29. Kikuchi M., Hatano N., Yokota S., Shimozawa N., Imanaka T., and Taniguchi H. Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease. J. Biol. Chem. 279 (2004) 421-428
30. Le Naour F., Andre M., Greco C., Billard M., Sordt B., Emile J.F., Lanza F., Boucheix C., and Rubinstein E. Profiling of the tetraspanin web of human colan cancer cells. Mol. Cell Proteomics 5 (2006) 845-857
31. Lecchi P., Gupte A.R., Perez R.E., Stockert L.V., and Abramson F.P. Size-exclusion chromatography in multidimensional separation schemes for proteomic analysis. J. Biochem. Biophys. Methods 56 (2003) 141-152
32. Li K.W., Miller S., Klychnikov O., Loos M., Stahl-Zeng J., Spijker S., Mayford M., and Smit A.B. Quantitative proteomics and protein network analysis of Hippocampal synapses of CaMKIIα mutant mice. J. Proteome Res. 6 (2007) 3127-3133
33. Liang X., Zhao J., Hajivandi M., Wu R., Tao J., Amshey J.W., and Pope R.M. Quantification of membrane and membrane-bound proteins in normal and malignant breast cancer cells isolated from the same patient with primary breast carcinoma. J. Proteome Res. 5 (2006) 2632-2641
34. Lindsey Rose K.M., Gourdie R.G., Prescott A.R., Quinlan R.A., Crouch R.K., and Schey K.L. The C terminus of lens aquaporin interacts with the cytoskeletal proteins filensin and CP49. Invest. Ophthalmol. Vis. Sci. 47 (2006) 1562-1570
35. Link A.J. Multidimensional peptide separations in proteomics. Trends Biotechnol. 20 (2002) S8-S13
36. Lominadze G., Powell D.W., Luerman G.C., Link A.J., Ward R.A., and McLeish K.R. Proteomic analysis of human neutrophil granules. Mol. Cell Proteomics 4 (2005) 1503-1521
37. Martinovic S., Berger S.J., Pasa-Tolic L., and Smith R.D. Separation and detection of intact noncovalent protein complexes from mixtures by on-line capillary isoelectric focusing-mass spectrometry. Anal. Chem. 72 (2000) 5356-5360
38. Matsumoto M., Hatakeyama S., Oyamada K., Oda Y., Nishimura T., and Nakayama K.I. Large-scale analysis of the human ubiquitin-related proteome. Proteomics 5 (2005) 4145-4151
39. Meek S.E., Lane W.S., and Piwnica-Worms H.J. Comprehensive proteomic analysis of interphase and mitotic 14-3-3-binding proteins. Biol. Chem. 279 (2004) 32046-32054
40. Metodiev M.V., Timanova A., and Stone D.E. Differential phosphoproteome profiling by affinity capture and tandem matrix-assisted laser desorption/ionization mass spectrometry. Proteomics 4 (2004) 1433-1438
41. Metz T.O., Jacobs J.M., Gritsenko M.A., Fontes G., Qian W.J., Camp II D.G., Pointout V., and Smith R.D. Characterization of the human pancreatic islet proteome by two-dimensional LC/MS/MS. J. Proteome Res. 5 (2006) 3345-3354
42. Monti G., Napoli L.D., Mainolfi P., Barone R., Guida M., Marino G., and Amoresano A. Monitoring food quality by microfluidic electrophoresis, gas chromatography, and mass spectrometry techniques: effects of aquaculture on the sea bass (Dicentrarchus labrax). Anal. Chem. 77 (2005) 2587-2594
43. Montine T.J., Woltjer R.L., Pan C., Montine K.S., and Zhang J. Liquid chromatography with tandem mass spectrometry-based proteomic discovery in aging and Alzheimer's disease. Neuro. Rx 3 (2006) 336-343
44. Nepomuceno A.I., Muddiman D.C., Bergen III H.R., Craighead J.R., Burke M.J., Caskey P.E., and Allan J.A. Dual electrospray ionization source for confident generation of accurate mass tags using liquid chromatography Fourier transform ion cyclotron resonance mass spectrometry. Anal. Chem. 75 (2003) 3411-3418
45. Neverova I., and Van Eyk J.E. Role of chromatographic techniques in proteomic analysis. J. Chromatogr. B 815 (2005) 51-63
46. Opiteck C.J., Lewis K.C., Jorgenson J.W., and Anderegg R.J. Comprehensive on-line LC/LC/MS of proteins. Anal. Chem. 69 (1997) 1518-1524
47. Opiteck G.J., Ramirez S.M., Jorgenson J.W., and Moseley M.A. Comprehensive two-dimensional high-performance liquid chromatography for the isolation of overexpressed proteins and proteome mapping. Anal. Biochem. 258 (1998) 349-361
48. Pan H., Che F.Y., Peng B., Steiner D.F., Pintar J.E., and Fricker L.D. The role of prohormone convertase-2 in hypothalamic neuropeptide processing: a quantitative neuropeptidomic study. J. Neurochem. 98 (2006) 1763-1777
49. Reh E., Hahn B., and Lamotte S. Evaluation of stationary phases for 2-dimensional HPLC of proteins part 1. Validation of commercial RP-columns. J. Chromatogr. B 844 (2006) 204-212
50. Reinhardt T.A., and Lippolis J.D. Bovine milk fat globule membrane proteome. J. Dairy Res. 73 (2006) 406-416
51. Righetti P.G., Castagna A., Antonioli P., Cecconi D., Campostrini N., and Righetti S.C. Proteomic approaches for studying chemoresistance in cancer. Expert Rev. Proteomics 2 (2005) 215-228
52. Rosas-Acosta G., Russell W.K., Deyrieux A., Russell D.H., and Wilson V.G. A universal strategy for proteomic studies of SUMO and other ubiquitin-like modifiers. Mol. Cell Proteomics 4 (2005) 56-72
53. Ryu J., Kim H., Lee S.K., Chang E.J., Kim H.J., and Kim H.H. Proteomic identification of the TRAF6 regulation of vacuolar ATPase for osteoclast function. Proteomics 5 (2005) 4152-4160
54. Sapra R., Gaucher S.P., Lachmann J.S., Buffleben G.M., Chirica G.S., Comer J.E., Peterson J.W., Chopra A.K., and Singh A.K. Proteomic analyses of murine macrophages treated with Bacillus anthracis lethal toxin. Microb. Pathog. 41 (2006) 157-167
55. Schluesener D., Fischer F., Kruip J., Rogner M., and Poetsch A. Mapping the membrane proteome of Corynebacterium glutamicum. Proteomics 5 (2005) 1317-1330
56. Schluesener D., Rogner M., and Poetsch A. Evaluation of two proteomics technologies used to screen the membrane proteomes of wild-type Corynebacterium glutamicum and an l-lysine producing strain. Anal. Bioanal. Chem. 389 (2007) 1055-1064
57. Senis Y.A., Tomlinson M.G., Garcia A., Dumon S., Heath V.L., Herbert J., Cobbold P., Spalton J.C., Ayman S., Antrobus R., Zitzmann N., Bicknell R., Frampton J., Authi K., Martin A., Wakelam M.J., and Watson S.P. A comprehensive proteomics and genomics analysis reveals novel transmembrane proteins in human platelets and mouse megakaryocytes including G6b-B, a novel immunoreceptor tyrosine-based inhibitory motif protein. Mol. Cell Proteomics 6 (2007) 548-564
58. Seshi B. An integrated approach to mapping the proteome of the human bone marrow stromal cell. Proteomics 6 (2006) 5169-5182
59. Shen Y., and Smith R.D. Proteomics based on high-efficiency capillary separations. Electrophoresis 23 (2002) 3106-3124
60. Shen Y., Tolic N., Masselon C., Pasa-Tolic L., Camp II D.G., Hixson K.K., and Zhao R. Ultrasensitive proteomics using high-efficiency on-line micro-SPE-nano LC-nanoESI MS and MS/MS. Anal. Chem. 76 (2004) 144-154
61. Shin S.J., Lee S.E., Boo J.H., Kim M., Yoon Y.D., Kim S.I., and Mook-Jung I. Profiling proteins related to amyloid deposited brain of Tg2576 mice. Proteomics 4 (2004) 3359-3368
62. Soreghan B.A., Yang F., Thomas S.N., Hsu J., and Yang A. High-throughput proteomic-based identification of oxidatively induced protein carbonylation in mouse brain. J. Pharm. Res. 20 (2003) 1713-1720
63. Stensballe A., Andersen S., and Jensen O.N. Characterization of phosphoproteins from electrophoretic gels by nanoscale Fe(III) affinity chromatography with off-line mass spectrometry analysis. Proteomics 1 (2001) 207-222
64. Tran H.T., Ulke A., Morrice N., Johannes C.J., and Moorhead G.B. Proteomic characterization of protein phosphatase complexes of the mammalian nucleus. Mol. Cell Proteomics 3 (2004) 257-265
65. Tyan Y.C., Guo H.R., Liu C.Y., and Liao P.C. Proteomic profiling of human urinary proteome using nano-high performance liquid chromatography/electrospray ionization tandem mass spectrometry. Anal. Chem. Acta 579 (2006) 158-176
66. Vanrobaeys F., Van Coster R., Dhondt G., Devreese B., and Van Beeumen J. Profiling of myelin proteins by 2D-gel electrophoresis and multidimensional liquid chromatography coupled to MALDI-TOF-TOF mass spectrometry. J. Proteome Res. 4 (2005) 2283-2293
67. Vasilescu J., Smith J.C., Ethier M., and Figeys D. Proteomic analysis of ubiquitinated proteins from human MCF-7 breast cancer cells by immunoaffinity purification and mass spectrometry. J. Proteome Res. 4 (2005) 2192-2200
68. Wagner K., Miliotis T., Marko-Varga G., Bischoff R., and Unger K.K. An automated on-line multidimensional HPLC system for protein and peptide mapping with integrated sample preparation. Anal. Chem. 74 (2002) 809-820
69. Wang Y., Balgley B.M., Rudnick P.A., and Lee C.S. Effects of chromatography conditions on intact protein separations for top-down proteomics. J. Chromatogr. A 1073 (2005) 35-41
70. Welch K., Wen B., Goodlett D.R., Yi E.C., Lee H., Reilly T.P., Nelson S.D., and Pohl L.R. Proteomic identification of potential susceptibility factors in drug-induced liver disease. Chem. Res. Toxicol. 18 (2005) 924-933
71. Xiang R., Shi Y., Dillon D.A., Negin B., Horvath C., and Wilkins J.A. 2D LC/MS analysis of membrane proteins from breast cancer cell lines MCF7 and BT 474. J. Proteome Res. 3 (2004) 1278-1283
72. Yang P.Y., Rui Y.C., Yang P.Y., and Yu Y.L. Proteomic analysis of foam cells. Methods Mol. Biol. 357 (2007) 297-305
73. Yuan X., and Desiderio D.M. Human cerebrospinal fluid peptidomics. J. Mass Spectrom. 40 (2005) 176-181
74. Yuan Q., and Zhao F.K. New frontiers in the proteome research quantitative proteomics. Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao (Shanghai) 33 (2001) 477-482
75. Zhang H., Li X.J., Martin D.B., and Aebersold R. Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry. Nat. Biotechnol. 21 (2003) 660-666
76. Zhang Q., Qian W.J., Knyushko T.V., Clauss T.R.W., Purvine S.O., Moore R.J., Sacksteder C.A., Chin M.H., Smith D.J., Camp II D.G., Bigelow D.J., and Smith R.D. A method for selective enrichment and analysis of nitrotyrosine - containing peptides in complex proteome samples. J. Proteome Res. 6 (2007) 2257-2268
77. Zolla L., Timperio A.M., Walcher W., and Huber C.G. Proteomics of light-harvesting proteins in different plant species. Analysis and comparison by liquid chromatography-electrospray ionization mass spectrometry. Plant Physiol. 131 (2003) 198-214