Abstract
Immobilized metal affinity chromatography is a widely used method for the enrichment of phosphopeptides from proteolytic digests prior to mass spectrometric analysis. Here, we describe the selective enrichment of phosphopeptides from tryptic digests of proteins (α- and β-caseins) by zirconium phosphonate-magnetic Fe3O4/SiO2 (core/shell) nanoparticles for phosphoproteome analysis with MALDI-TOF mass spectrometry.
This chapter is based on an article that was published in J. Am. Soc. Mass Spectrom., 2008, 19, 1176–1186, L. Zhao, R. Wu, G. Han, H. Zhou, L. Ren, R. Tian, H. Zou, The Highly Selective Capture of Phosphopeptides by Zirconium Phosphonate-Modified Magnetic Nanoparticles for Phosphoproteome Analysis, copyright (2008), with permission from Elsevier. Hyper-text to the Elsevier homepage at http://www.elsevier.com.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Hunter, T. (2000) Signaling--2000 and beyond. Cell 100, 113–127.
Giorgianni, F., Beranova-Giorgianni, S., Desiderio, D.M. (2004) Identification and characterization of phosphorylated proteins in the human pituitary. Proteomics 4, 587–598.
Mann M., Jensen, O.N. (2003) Proteomic analysis of post-translation modification. Nat Biotechnol 21, 255–261.
Jin, W.H., Dai, J., Zhou, H., et al. (2004) Phosphoproteome analysis of mouse liver using liquid chromatography coupled to MS2/MS3. Rapid Commum Mass Spectrom 19, 3626–3632.
MacLachlan, D.T., Chait, B.T. (2001) Analysis of phosphorylated proteins and peptides by mass spectrometry. Curr Opin Chem Biol 5, 591–602.
Bennet, K.L., Stensballe, A., Podtelejnikov, A.V., et al. (2002) Phosphopeptide detection and sequencing by matrix-assisted laser desorption/ionization quadrupole time-of-flight tandem mass spectrometry. J Mass Spectrom 37, 179–190.
Pandey, A., Podtelejnikov, A.V., Blagoev, B., et al. (2000) Analysis of Receptor Signaling Pathways by Mass Spectrometry: Identification of Vav-2 as a Substrate of the Epidermal and Platelet-Derived Growth Factor Receptors. Proc Natl Acad Sci U S A 97, 179–184.
Conrads, T.P., Veenstra, T.D. (2005) An enriched look at tyrosine phosphorylation. Nat Biotechnol 19, 379–382.
Oda, Y., Nagasu, T., Chait, B.T. (2001) Enrichment analysis of phosphorylated proteins as a tool for probing the phosphoproteome. Nat Biotechnol 19, 379–382.
Zhou, H., Watts, J.D., Aebersold, R. (2001) A systematic approach to the analysis of protein phosphorylation. Nat Biotechnol 19, 375–382.
Beausoleil, S.A., Jedrychowski, M., Schwartz, D., et al. (2004) Large-scale characterization of HeLa cell nuclear phosphoproteins. Proc Natl Acad Sci U.S.A. 101, 12130–12135.
Ballif, B.A., Villen, J., Beausoleil, S.A., et al. (2004) Phosphoproteomic analysis of the developing mouse brain. Mol Cell Proteomics 3, 1093–1101.
Larsen, M.R., Thingholm, T.E., Jensen, O.N., et al. (2005) Highly selective enrichment of phosphorylated peptides from peptide mixtures using titanium dioxide microcolumns. Mol Cell Proteomics 4, 873–886.
Kweon, H.K., Hakansson, K. (2006) Selective zirconium dioxide-based enrichment of phosphorylated peptides for mass spectrometric analysis. Anal Chem 78, 1743–1749.
Sugiyama, N., Masuda, T., Shinoda, K., et al. (2007) Phosphopeptide enrichment by aliphatic hydroxyl acid-modified metal oxide chromatography for nano-LC-MS/MS in proteomics applications. Mol Cell Proteomics 6, 1103–1109.
Zhou, H.J., Xu, S.Y., Ye, M.L., et al. (2006) Zirconium phosphonate-modified porous silicon for highly specific capture of phosphopeptides and MALDI-TOF MS analysis. J Proteome Res 5, 2431–2437.
Nuhse, T.S., Stensballe, A., Jensen, O.N., et al. (2003) Large-scale analysis of in vivo phosphorylated membrane proteins by immobilized metal ion affinity chromatography and mass spectrometry. Mol Cell Proteomics 2, 1234–1243.
Posewitz, M.C., Tempst, P. (1999) Immobilized gallium(III) affinity chromatography of phosphopeptides. Anal Chem 71, 2883–2892.
Imanishi, S.Y., Kochin, V., Eriksson, J.E. (2007) Optimization of phosphopeptide elution conditions in immobilized Fe(III) affinity chromatography. Proteomics 7, 174–176.
Feng, S., Ye, M.L., Zhou, H.J., et al. (2007) Immobilized zirconium ion affinity chromatography for specific enrichment of phosophopeptides in phosphoproteome analysis. Mol Cell Proteomics 6, 1656–1665.
Kjelistrom, S., Jensen, O.N. (2004) Phosphoric acid as a matrix additive for MALDI MS analysis of phosphopeptides and phosphoproteins. Anal Chem 76, 5109–5117.
Acknowledgments
The authors acknowledge that this work was supported by the National Natural Science Foundation of China (No. 20875089), the National High Technology Research and Development Program of China (863 Program) (No. 2008AA02Z211), the Knowledge Innovation Program of Chinese Academy of Sciences (No. KSCX2-YW-G-046), and the Hundred Talent Program of the Chinese Academy of Sciences.
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2011 Springer Science+Business Media, LLC
About this protocol
Cite this protocol
Zhao, L., Wu, R., Zou, H. (2011). Selective Capture of Phosphopeptides by Zirconium Phosphonate-Magnetic Nanoparticles. In: Toms, S., Weil, R. (eds) Nanoproteomics. Methods in Molecular Biology, vol 790. Humana Press. https://doi.org/10.1007/978-1-61779-319-6_17
Download citation
DOI: https://doi.org/10.1007/978-1-61779-319-6_17
Published:
Publisher Name: Humana Press
Print ISBN: 978-1-61779-318-9
Online ISBN: 978-1-61779-319-6
eBook Packages: Springer Protocols