title: Proteomic analysis and discovery using affinity proteomics and mass spectrometry.
abstract: Antibody-based microarrays are a rapidly evolving affinity-proteomic methodology that recently has shown great promise in clinical applications. The resolution of these proteomic analyses is, however, directly related to the number of data-points, i.e. antibodies, included on the array. Currently, this is a key bottleneck because of limited availability of numerous highly characterized antibodies. Here, we present a conceptually new method, denoted global proteome survey, opening up the possibility to probe any proteome in a species-independent manner while still using a limited set of antibodies. We use context-independent-motif-specific antibodies directed against short amino acid motifs, where each motif is present in up to a few hundred different proteins. First, the digested proteome is exposed to these antibodies, whereby motif-containing peptides are enriched, which then are detected and identified by mass spectrometry. In this study, we profiled extracts from human colon tissue, yeast cells lysate, and mouse liver tissue to demonstrate proof-of-concept.
authors.affiliation: Department of Immunotechnology, Lund University, Lund, Sweden, and CREATE Health, BMC D13, Lund, Sweden.
authors.forename: Niclas
authors.initials: N
authors.lastname: Olsson
authors.forename: Christer
authors.initials: C
authors.lastname: Wingren
authors.forename: Mikael
authors.initials: M
authors.lastname: Mattsson
authors.forename: Peter
authors.initials: P
authors.lastname: James
authors.forename: David
authors.initials: D
authors.lastname: O'Connell
authors.forename: Fredrik
authors.initials: F
authors.lastname: Nilsson
authors.forename: Dolores J
authors.initials: DJ
authors.lastname: Cahill
authors.forename: Carl A K
authors.initials: CA
authors.lastname: Borrebaeck
mesh_terms: D020816:Amino Acid Motifs / Q000276:immunology*; D000818:Animals; D000915:Antibody Affinity / Q000276:immunology*; D003106:Colon / Q000276:immunology / Q000378:metabolism; D005656:Fungal Proteins / Q000032:analysis; D006801:Humans; D008099:Liver / Q000276:immunology / Q000378:metabolism; D013058:Mass Spectrometry / Q000379:methods; D051379:Mice; D040081:Protein Array Analysis / Q000379:methods*; D020543:Proteome / Q000032:analysis*; D040901:Proteomics / Q000379:methods*; D057127:Single-Chain Antibodies / Q000276:immunology; D013045:Species Specificity
chemical_list: D005656:Fungal Proteins; D020543:Proteome; D057127:Single-Chain Antibodies