Comparative analysis of OFFGel, strong cation exchange with pH gradient, and RP at high pH for first-dimensional separation of peptides from a membrane-enriched protein fraction Export

@article{citeulike:6102984, abstract = {The analysis and quantitation of membrane proteins have proved challenging for proteomics. Although several approaches have been introduced to complement gel-based analysis of intact proteins, the literature is rather limited in comparing major emerging approaches. Peptide fractionation using IEF (OFFGel), strong cation exchange HPLC using a pH gradient (SCX-pG), and RP HPLC at high pH, have been shown to increase peptide and protein identification over classic MudPIT approaches. This article compares these three approaches for first-dimensional separation of peptides using a detergent phase (Triton X-114) enriched membrane fraction from mouse cortical brain tissue. Results indicate that RP at high pH (pH 10) was superior for the identification of more peptides and proteins in comparison to the OFFGel or the SCX-pG approaches. In addition, gene ontology analysis (GOMiner) revealed that RP at high pH (pH 10) successfully identified an increased number of proteins with ldquomembranerdquo ontology, further confirming its suitability for membrane protein analysis, in comparison to SCX-pG and OFFGel techniques.}, address = {Proteome Research Centre, UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine and Medical Science, University College of Dublin, Dublin, Ireland; Proteomics Unit, Center for Neuroscience and Cell Biology, University of Coimbra, Coimbra, Portugal; Department of Psychiatry, Royal College of Surgeons in Ireland, RCSI ERC, Smurfit Building, Beaumont Hospital, Dublin, Ireland}, author = {Manadas, Bruno and English, Jane A. and Wynne, Kieran J. and Cotter, David R. and Dunn, Michael J.}, citeulike-article-id = {6102984}, citeulike-linkout-0 = {http://dx.doi.org/10.1002/pmic.200900349}, citeulike-linkout-1 = {http://www3.interscience.wiley.com/cgi-bin/abstract/122603431/ABSTRACT}, doi = {10.1002/pmic.200900349}, issn = {1615-9861}, journal = {PROTEOMICS}, keywords = {chromatography, electrophoresis, proteomics}, number = {9999}, pages = {NA+}, posted-at = {2009-11-12 18:14:15}, priority = {2}, title = {Comparative analysis of OFFGel, strong cation exchange with pH gradient, and RP at high pH for first-dimensional separation of peptides from a membrane-enriched protein fraction}, url = {http://dx.doi.org/10.1002/pmic.200900349}, volume = {9999}, year = {2009} }

TY - JOUR ID - citeulike:6102984 L3 - citeulike-article-id:6102984 N2 - The analysis and quantitation of membrane proteins have proved challenging for proteomics. Although several approaches have been introduced to complement gel-based analysis of intact proteins, the literature is rather limited in comparing major emerging approaches. Peptide fractionation using IEF (OFFGel), strong cation exchange HPLC using a pH gradient (SCX-pG), and RP HPLC at high pH, have been shown to increase peptide and protein identification over classic MudPIT approaches. This article compares these three approaches for first-dimensional separation of peptides using a detergent phase (Triton X-114) enriched membrane fraction from mouse cortical brain tissue. Results indicate that RP at high pH (pH 10) was superior for the identification of more peptides and proteins in comparison to the OFFGel or the SCX-pG approaches. In addition, gene ontology analysis (GOMiner) revealed that RP at high pH (pH 10) successfully identified an increased number of proteins with ldquomembranerdquo ontology, further confirming its suitability for membrane protein analysis, in comparison to SCX-pG and OFFGel techniques. IS - 9999 JF - PROTEOMICS SN - 1615-9861 AD - Proteome Research Centre, UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine and Medical Science, University College of Dublin, Dublin, Ireland; Proteomics Unit, Center for Neuroscience and Cell Biology, University of Coimbra, Coimbra, Portugal; Department of Psychiatry, Royal College of Surgeons in Ireland, RCSI ERC, Smurfit Building, Beaumont Hospital, Dublin, Ireland TI - Comparative analysis of OFFGel, strong cation exchange with pH gradient, and RP at high pH for first-dimensional separation of peptides from a membrane-enriched protein fraction VL - 9999 SP - NA KW - chromatography KW - electrophoresis KW - proteomics AU - Manadas, Bruno AU - English, Jane AU - Wynne, Kieran AU - Cotter, David AU - Dunn, Michael PY - 2009/// UR - http://dx.doi.org/10.1002/pmic.200900349 ER -