title: Diagonal chromatography to study plant protein modifications.
abstract: An interesting asset of diagonal chromatography, which we have introduced for contemporary proteome research, is its high versatility concerning proteomic applications. Indeed, the peptide modification or sorting step that is required between consecutive peptide separations can easily be altered and thereby allows for the enrichment of specific, though different types of peptides. Here, we focus on the application of diagonal chromatography for the study of modifications of plant proteins. In particular, we show how diagonal chromatography allows for studying proteins processed by proteases, protein ubiquitination, and the oxidation of protein-bound methionines. We discuss the actual sorting steps needed for each of these applications and the obtained results. This article is part of a Special Issue entitled: Plant Proteomics--a bridge between fundamental processes and crop production, edited by Dr. Hans-Peter Mock.
authors.affiliation: Department of Medical Protein Research, VIB, 9000 Ghent, Belgium; Department of Biochemistry, Ghent University, 9000 Ghent, Belgium; Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium.
authors.forename: Alan
authors.initials: A
authors.lastname: Walton
authors.affiliation: Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, the Netherlands; Netherlands Proteomics Centre, Padualaan 8, 3584 CH Utrecht, the Netherlands.
authors.forename: Liana
authors.initials: L
authors.lastname: Tsiatsiani
authors.affiliation: Department of Medical Protein Research, VIB, 9000 Ghent, Belgium; Department of Biochemistry, Ghent University, 9000 Ghent, Belgium; Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium.
authors.forename: Silke
authors.initials: S
authors.lastname: Jacques
authors.affiliation: Department of Medical Protein Research, VIB, 9000 Ghent, Belgium; Department of Biochemistry, Ghent University, 9000 Ghent, Belgium; Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium.
authors.forename: Elisabeth
authors.initials: E
authors.lastname: Stes
authors.affiliation: Structural Biology Research Center, VIB, 1050 Brussels, Belgium; Brussels Center for Redox Biology, 1050 Brussels, Belgium; Structural Biology Brussels, Vrije Universiteit Brussel, 1050 Brussels, Belgium.
authors.forename: Joris
authors.initials: J
authors.lastname: Messens
authors.affiliation: Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium.
authors.forename: Frank
authors.initials: F
authors.lastname: Van Breusegem
authors.affiliation: Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium; Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium.
authors.forename: Sofie
authors.initials: S
authors.lastname: Goormachtig
authors.affiliation: Department of Medical Protein Research, VIB, 9000 Ghent, Belgium; Department of Biochemistry, Ghent University, 9000 Ghent, Belgium. Electronic address: kris.gevaert@vib-ugent.be.
authors.forename: Kris
authors.initials: K
authors.lastname: Gevaert
mesh_terms: D002845:Chromatography / Q000379:methods; D010084:Oxidation-Reduction; D010940:Plant Proteins / Q000378:metabolism*; D010944:Plants / Q000378:metabolism*; D011499:Protein Processing, Post-Translational / Q000502:physiology*; D020543:Proteome / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*; D054875:Ubiquitination / Q000502:physiology
chemical_list: D010940:Plant Proteins; D020543:Proteome
keywords: COFRADIC; ChaFRADIC; Diagonal chromatography; Methionine oxidation; Methionine sulfoxide; Protease; Protein processing; Protein ubiquitination