Structural analysis of N- and O-glycans released from glycoproteins

Nature Protocols

Volumn 7, Issue 7, 2012, Pages 1299-1310

  Jensen, Pia H ^a,c   Karlsson, Niclas G ^b   Kolarich, Daniel ^a,d   Packer, Nicolle H ^a  

^a MACQUARIE UNIVERSITY   (Australia)

^b UNIVERSITY OF GOTHENBURG   (Sweden)

^c UNIVERSITY OF SOUTHERN DENMARK   (Denmark)

^d MAX PLANCK INSTITUTE OF COLLOIDS AND INTERFACES   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

EXOGLYCOSIDASE; GLYCAN; GLYCOPROTEIN; GLYCOSIDASE; SIALIDASE; UNCLASSIFIED DRUG;

ARTICLE; CARBOHYDRATE ANALYSIS; CATION EXCHANGE; CLINICAL PROTOCOL; ELECTROSPRAY MASS SPECTROMETRY; ENZYME RELEASE; EXPERIMENTAL DESIGN; LIQUID CHROMATOGRAPHY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN GLYCOSYLATION; PROTEIN IMMOBILIZATION; PROTEIN PURIFICATION; PROTEIN SECRETION; PROTEIN STRUCTURE; STRUCTURE ANALYSIS; TANDEM MASS SPECTROMETRY;

CHROMATOGRAPHY, ION EXCHANGE; CHROMATOGRAPHY, LIQUID; GLYCOMICS; GLYCOPROTEINS; HUMANS; IMMUNOGLOBULIN G; MEMBRANES, ARTIFICIAL; PEPTIDE-N4-(N-ACETYL-BETA-GLUCOSAMINYL) ASPARAGINE AMIDASE; POLYSACCHARIDES; POLYVINYLS; TANDEM MASS SPECTROMETRY;

EID: 84862168794     PISSN: 17542189     EISSN: 17502799     Source Type: Journal    
DOI: 10.1038/nprot.2012.063     Document Type: Article

References (47)

1. Dennis, J.W., Granovsky, M. & Warren, C.E. Glycoprotein glycosylation and cancer progression. Biochim. Biophys. Acta 1473, 21-34 (1999
2. Otake, Y. et al. Isolation and characterization of an N-linked oligosaccharide that is significantly increased in sera from patients with non-small cell lung cancer. J. Biochem. 129, 537-542 (2001
3. Karlsson, N.G. et al. Identification of transient glycosylation alterations of sialylated mucin oligosaccharides during infection by the rat intestinal parasite Nippostrongylus brasiliensis. Biochem. J. 350, 805-814 (2000
4. Landberg, E. et al. Changes in glycosylation of human bile-salt-stimulated lipase during lactation. Arch. Biochem. Biophys. 377, 246-254 (2000
5. Nakano, M., Saldanha, R., Gobel, A., Kavallaris, M. & Packer, N.H. Identification of glycan structure alterations on cell membrane proteins in desoxyepothilone B resistant leukemia cells. Mol. Cell Proteomics 10, M111 009001 (2011
6. Wilson, N.L. et al. Glycoproteomics of milk: differences in sugar epitopes on human and bovine milk fat globule membranes. J. Proteome Res. 7, 3687-3696 (2008
7. Aggarwal, S. What's fueling the biotech engine? Nat. Biotechnol. 25, 1097-1104 (2007
8. Maiorella, B.L. et al. Effect of culture conditions on IgM antibody structure, pharmacokinetics and activity. Biotechnology (N Y) 11, 387-392 (1993
9. Moll, M., Kaufmann, A. & Maisner, A. Influence of N-glycans on processing and biological activity of the nipah virus fusion protein. J. Virol. 78, 7274-7278 (2004
10. Morais, V.A., Costa, M.T. & Costa, J. N-Glycosylation of recombinant human fucosyltransferase III is required for its in vivo folding in mammalian and insect cells. Biochim. Biophys. Acta 1619, 133-138 (2003
11. Kolarich, D., Jensen, P.H., Altmann, F. & Packer, N.H. Determination of site-specific glycan heterogeneity on glycoproteins. Nat. Protoc. 7, 1285-1298 (2012
12. Wilson, N.L., Schulz, B.L., Karlsson, N.G. & Packer, N.H. Sequential analysis of N- and O-linked glycosylation of 2D-PAGE-separated glycoproteins. J. Proteome Res. 1, 521-529 (2002
13. Schulz, B.L., Packer, N.H. & Karlsson, N.G. Small-scale analysis of O-linked oligosaccharides from glycoproteins and mucins separated by gel electrophoresis. Anal. Chem. 74, 6088-6097 (2002
14. Karlsson, N.G. et al. Negative ion graphitised carbon nano-liquid chromatography/mass spectrometry increases sensitivity for glycoprotein oligosaccharide analysis. Rapid Commun. Mass Spectrom. 18, 2282-2292 (2004
15. Karlsson, N.G., Schulz, B.L. & Packer, N.H. Structural determination of neutral O-linked oligosaccharide alditols by negative ion LC-electrospray-MSn. J. Am. Soc. Mass Spectrom. 15, 659-672 (2004
16. Schulz, B.L. et al. Mucin glycosylation changes in cystic fibrosis lung disease are not manifest in submucosal gland secretions. Biochem. J. 387, 911-919 (2005
17. Schulz, B.L. et al. Glycosylation of sputum mucins is altered in cystic fibrosis patients. Glycobiology 17, 698-712 (2007
18. Estrella, R.P., Whitelock, J.M., Packer, N.H. & Karlsson, N.G. Graphitized carbon LC-MS characterization of the chondroitin sulfate oligosaccharides of aggrecan. Anal. Chem. 79, 3597-3606 (2007
19. Thomson, K.A., Schulz, B.L., Packer, N.H. & Karlsson, N.G. MUC5B glycosylation in human saliva reflects blood group and secretor status. Glycobiology 15, 791-804 (2005
20. Wada, Y. et al. Comparison of the methods for profiling glycoprotein glycans-HUPO Human Disease Glycomics/Proteome Initiative multi-institutional study. Glycobiology 17, 411-422 (2007
21. Wada, Y. et al. Comparison of methods for profiling O-glycosylation: Human Proteome Organisation Human Disease Glycomics/Proteome Initiative multi-institutional study of IgA1. Mol. Cell Proteomics 9, 719-727 (2010
22. Wilson, N.L. et al. Glycoproteomics of milk: differences in sugar epitopes on human and bovine milk fat globule membranes. J. Proteome Res. 7, 3687-3696 (2008
23. Deshpande, N., Jensen, P.H., Packer, N.H. & Kolarich, D. GlycoSpectrumScan: fishing glycopeptides from MS spectra of protease digests of human colostrum sIgA. J. Proteome Res. 9, 1063-1075 (2010
24. Lee, A. et al. Liver membrane proteome glycosylation changes in mice bearing an extra-hepatic tumour. Mol. Cell Proteomics doi:10.1074/mcp.M900538- MCP200 (2010
25. Lee, A. et al. The lectin riddle: glycoproteins fractionated from complex mixtures have similar glycomic profiles. OMICS 14, 487-499 (2010
26. Natsuka, S. & Hase, S. Analysis of N- and O-glycans by pyridylamination. Methods Mol. Biol. 76, 101-113 (1998
27. Guile, G.R., Rudd, P.M., Wing, D.R., Prime, S.B. & Dwek, R.A. A rapid high-resolution high-performance liquid chromatographic method for separating glycan mixtures and analyzing oligosaccharide profiles. Anal. Biochem. 240, 210-226 (1996
28. Rudd, P.M. et al. Oligosaccharide sequencing technology. Nature 388, 205-207 (1997
29. Ceroni, A. et al. GlycoWorkbench: a tool for the computer-assisted annotation of mass spectra of glycans. J. Proteome Res. 7, 1650-1659 (2008
30. Goldberg, D. et al. Automated N-glycopeptide identification using a combination of single- and tandem-MS. J. Proteome Res. 6, 3995-4005 (2007
31. Jang-Lee, J. Glycomic profiling of cells and tissues by mass spectrometry: fingerprinting and sequencing methodologies. et al. in Methods in Enzymology Vol. 415 (ed. Fukuda, M.) 59-86 (Academic Press, 2006
32. Dell, A. & Morris, H.R. Glycoprotein structure determination by mass spectrometry. Science 291, 2351-2356 (2001
33. Stumpo, K.A. & Reinhold, V.N. The N-glycome of human plasma. J. Proteome Res. 9, 4823-4830 (2010
34. Lei, M., Mechref, Y. & Novotny, M.V. Structural analysis of sulfated glycans by sequential double-permethylation using methyl iodide and deuteromethyl iodide. J. Am. Soc. Mass Spectrom. 20, 1660-1671 (2009
35. Srikrishna, G. et al. A novel anionic modification of N-glycans on mammalian endothelial cells is recognized by activated neutrophils and modulates acute inflammatory responses. J. Immunol. 166, 624-632 (2001
36. Wuhrer, M., de Boer, A.R. & Deelder, A.M. Structural glycomics using hydrophilic interaction chromatography (HILIC) with mass spectrometry. Mass Spectrom. Rev. 28, 192-206 (2009
37. Lee, A. et al. Rat liver membrane glycoproteome: enrichment by phase partitioning and glycoprotein capture. J. Proteome Res. 8, 770-781 (2009
38. Schulz, B.L. et al. Mucin glycosylation changes in cystic fibrosis lung disease are not manifest in submucosal gland secretions. Biochem. J. 387, 911-919 (2005
39. Harvey, D.J. Matrix-assisted laser desorption/ionization mass spectrometry of sphingo- and glycosphingo-lipids. J. Mass Spectrom. 30, 1311-1324 (1995
40. Zaia, J. Mass spectrometry and glycomics. OMICS 14, 401-418 (2010
41. Kawasaki, N., Ohta, M., Hyuga, S., Hyuga, M. & Hayakawa, T. Application of liquid chromatography/mass spectrometry and liquid chromatography with tandem mass spectrometry to the analysis of the site-specific carbohydrate heterogeneity in erythropoietin. Anal. Biochem. 285, 82-91 (2000
42. Pabst, M., Bondili, J.S., Stadlmann, J., Mach, L. & Altmann, F. Mass plus retention time = structure: a strategy for the analysis of N-glycans by carbon LC-ESI-MS and its application to fibrin N-glycans. Anal. Chem. 79, 5051-5057 (2007
43. Wada, Y. et al. Comparison of methods for profiling O-glycosylation. Mol. Cell. Proteomics 9, 719-727 (2010
44. Wuhrer, M., Koeleman, C.A., Hokke, C.H. & Deelder, A.M. Mass spectrometry of proton adducts of fucosylated N-glycans: fucose transfer between antennae gives rise to misleading fragments. Rapid Commun. Mass Spectrom.: RCM 20, 1747-1754 (2006
45. Hayes, C.A. et al. UniCarb-DB: a database resource for glycomic discovery. Bioinformatics 27, 1343-1344 (2011
46. Campbell, M.P. et al. UniCarbKB: putting the pieces together for glycomics research. Proteomics 11, 4117-4121 (2011
47. Ito, H., Kameyama, A., Sato, T. & Narimatsu, H. Preparation of a glycan library using a variety of glycosyltrasferases. Methods Mol. Biol. 534, 283-291 (2009)