Protein prefractionation; Major protein depletion; Plasma; Serum; SELDI-TOF-MS
Abstract :
[en] In most diseases, the clinical need for serum/plasma markers has never been so crucial, not only for diagnosis, but also for the selection of the most efficient therapies, as well as exclusion of ineffective or toxic treatment. Due to the high sample complexity, prefractionation is essential for exploring the deep proteome and finding specific markers.
In this study, three different sample preparation methods (i.e., highly abundant protein precipitation, restricted access materials (RAM) combined with IMAC chromatography and peptide ligand affinity beads) were investigated in order to select the best fractionation step for further differential proteomic experiments focusing on the LMW proteome (MW inferior to 40,000 Da). Indeed, the aim was not to cover the entire plasma/serum proteome, but to enrich potentially interesting tissue leakage proteins. These three methods were evaluated on their reproducibility, on the SELDI-TOF-MS peptide/protein peaks generated after fractionation and on the information supplied.
The studied methods appeared to give complementary information and presented good reproducibility (below 20%). Peptide ligand affinity beads were found to provide efficient depletion of HMW proteins and peak enrichment in protein/peptide profiles.
Meuwis, Marie-Alice ; Centre Hospitalier Universitaire de Liège - CHU > Gastro-Entérologie-Hépatologie
Servais, Anne-Catherine ; Université de Liège - ULiège > Département de pharmacie > Analyse des médicaments
Minh, Tran Quang; Affiland
Closset, Jean ; Université de Liège - ULiège > Département des sciences biomédicales et précliniques > Département des sciences biomédicales et précliniques
Chapelle, Jean-Paul ; Université de Liège - ULiège > Département de pharmacie > Chimie médicale
Louis, Edouard ; Université de Liège - ULiège > Département des sciences cliniques > Hépato-gastroentérologie - Relations académiques et scientifiques (Médecine)
Malaise, Michel ; Université de Liège - ULiège > Département des sciences cliniques > Rhumatologie
Merville, Marie-Paule ; Université de Liège - ULiège > Département de pharmacie > Chimie médicale
Fillet, Marianne ; Université de Liège - ULiège > Département de pharmacie > Analyse des médicaments
Language :
English
Title :
Comparison of three methods for fractionation and enrichment of low molecular weight proteins for SELDI-TOF-MS differential analysis
Publication date :
2010
Journal title :
Talanta
ISSN :
0039-9140
eISSN :
1873-3573
Publisher :
Elsevier Science, Amsterdam, Netherlands
Volume :
82
Pages :
245-254
Peer reviewed :
Peer Reviewed verified by ORBi
Funders :
F.R.S.-FNRS - Fonds de la Recherche Scientifique Fonds Léon Fredericq CAC - Centre anticancéreux près l'Université de Liège asbl Télévie
scite shows how a scientific paper has been cited by providing the context of the citation, a classification describing whether it supports, mentions, or contrasts the cited claim, and a label indicating in which section the citation was made.
Bibliography
M.C. Gast, J.H. Schellens, and J.H. Beijnen Breast Cancer Res. Treat. 116 2009 17 29
L.C. Whelan, K.A. Power, D.T. McDowell, J. Kennedy, and W.M. Gallagher J. Cell. Mol. Med. 12 2008 1535 1547
D. de Seny, M. Fillet, and C. Ribbens Clin. Chem. 54 2008 1066 1075
M.A. Meuwis, M. Fillet, and P. Geurts Biochem. Pharmacol. 73 2007 1422 1433
E.P. Diamandis, and D.E. van der Merwe Clin. Cancer Res. 11 2005 963 965
S.R. Master Clin. Chem. 51 2005 1333 1334
R. Etzioni, N. Urban, and S. Ramsey Nat. Rev. Cancer 3 2003 243 252
N.L. Anderson, and N.G. Anderson Mol. Cell. Proteomics 1 2002 845 867
M. Fountoulakis, J.F. Juranville, and L. Jiang Amino Acids 27 2004 249 259
N. Ahmed, and G.E. Rice J. Chromatogr. B: Analyt. Technol. Biomed. Life Sci. 815 2005 39 50
M.A. Gillette, D.R. Mani, and S.A. Carr J. Proteome Res. 4 2005 1143 1154
F.E. Ahmed J. Sep. Sci. 32 2009 771 798
A. Villar-Garea, M. Griese, and A. Imhof J. Chromatogr. B: Analyt. Technol. Biomed. Life Sci. 849 2007 105 114
Y. Jmeian, and Z. El Rassi Electrophoresis 30 2009 249 261
D.W. Greening, and R.J. Simpson J. Proteomics 73 2009 637 648
O. Chertov, J.T. Simpson, A. Biragyn, T.P. Conrads, T.D. Veenstra, and R.J. Fisher Expert Rev. Proteomics 2 2005 139 145
L. Hu, K.S. Boos, M. Ye, R. Wu, and H. Zou J. Chromatogr. A 1216 2009 5377 5384
S. Hartwig, J. Kotzka, H. Muller, D. Muller-Wieland, J. Eckel, and S. Lehr Arch. Physiol. Biochem. 115 2009 259 266
M. Pernemalm, L.M. Orre, J. Lengqvist, P. Wikstrom, R. Lewensohn, and J. Lehtio J. Proteome Res. 7 2008 2712 2722
X. Fang, and W.W. Zhang J. Proteomics 71 2008 284 303
O. Chertov, A. Biragyn, and L.W. Kwak Proteomics 4 2004 1195 1203
Y. Shen, J. Kim, and E.F. Strittmatter Proteomics 5 2005 4034 4045
K. Bjorhall, T. Miliotis, and P. Davidsson Proteomics 5 2005 307 317
Y. Gong, X. Li, and B. Yang J. Proteome Res. 5 2006 1379 1387
M. De Bock, D. de Seny, M.A. Meuwis, et al., J Biomed Biotechnol (2010). Article ID 906082, 15 pages.
Y. Fan, L. Shi, and Q. Liu Mol. Cancer 8 2009 79
J. Guo, W. Wang, and P. Liao Cancer Sci. 100 2009 2292 2301
D. de Seny, M. Fillet, and M.A. Meuwis Arthritis Rheum. 52 2005 3801 3812
R. Srinivasan, J. Daniels, and V. Fusaro Exp. Hematol. 34 2006 796 801
S. Hu, J.A. Loo, and D.T. Wong Proteomics 6 2006 6326 6353
L. Sennels, M. Salek, L. Lomas, E. Boschetti, P.G. Righetti, and J. Rappsilber J. Proteome Res. 6 2007 4055 4062
K. Merrell, K. Southwick, S.W. Graves, M.S. Esplin, N.E. Lewis, and C.D. Thulin J. Biomol. Tech. 15 2004 238 248
S.W. Tam, J. Pirro, and D. Hinerfeld Expert Rev. Proteomics 1 2004 411 420
E. Boschetti, and P.G. Righetti Proteomics 9 2009 1492 1510
P.G. Righetti, E. Boschetti, L. Lomas, and A. Citterio Proteomics 6 2006 3980 3992
P.G. Righetti, and E. Boschetti Mass Spectrom. Rev. 27 2008 596 608
C. Simo, A. Bachi, and A. Cattaneo Anal. Chem. 80 2008 3547 3556
G.L. Hortin Clin. Chem. 52 2006 1223 1237
J. Villanueva, D.R. Shaffer, and J. Philip J. Clin. Invest. 116 2006 271 284
J.F. Timms, E. Arslan-Low, and A. Gentry-Maharaj Clin. Chem. 53 2007 645 656
J.Y. Engwegen, A.C. Depla, and M.E. Smits Biomark. Insights 3 2008 375 385
T. Sundsten, B. Zethelius, C. Berne, and P. Bergsten Clin. Sci. (Lond.) 114 2008 499 507
K.J. Vanhoutte, C. Laarakkers, and E. Marchiori Nephrol. Dial. Transplant. 22 2007 2932 2943
M.S.A.K. Fentz, J. Spangenberg, H.J. List, C. Zornig, A. Dörner, H. Juhl, and K.A. David Proc. Am. Assoc. Cancer Res. 47 2006
F.H. Grus, V.N. Podust, and K. Bruns Invest. Ophthalmol. Vis. Sci. 46 2005 863 876
M. Takano, Y. Kikuchi, and T. Asakawa J. Cancer Res. Clin. Oncol. 136 2010 475 481
R.L. Lundblad Internet J. Genomics Proteomics 1 2004
T. Ichibangase, K. Moriya, K. Koike, and K. Imai Biomed. Chromatogr. 23 2009 480 487
R.L. Gundry, M.Y. White, J. Nogee, I. Tchernyshyov, and J.E. Van Eyk Proteomics 9 2009 2021 2028
Similar publications
Sorry the service is unavailable at the moment. Please try again later.
This website uses cookies to improve user experience. Read more
Save & Close
Accept all
Decline all
Show detailsHide details
Cookie declaration
About cookies
Strictly necessary
Performance
Strictly necessary cookies allow core website functionality such as user login and account management. The website cannot be used properly without strictly necessary cookies.
This cookie is used by Cookie-Script.com service to remember visitor cookie consent preferences. It is necessary for Cookie-Script.com cookie banner to work properly.
Performance cookies are used to see how visitors use the website, eg. analytics cookies. Those cookies cannot be used to directly identify a certain visitor.
Used to store the attribution information, the referrer initially used to visit the website
Cookies are small text files that are placed on your computer by websites that you visit. Websites use cookies to help users navigate efficiently and perform certain functions. Cookies that are required for the website to operate properly are allowed to be set without your permission. All other cookies need to be approved before they can be set in the browser.
You can change your consent to cookie usage at any time on our Privacy Policy page.