title: Different impact of staining procedures using visible stains and fluorescent dyes for large-scale investigation of proteomes by MALDI-TOF mass spectrometry.
abstract: Replicate 2-D gels were stained with four visible or fluorescent dyes using published procedures, and 48 co-detected spots were selected for contrasting values in abundance, M(r) and pI. Success rate of identification and sequence coverage were affected in a dye-dependent manner by the three parameters. Frequency of missed cleavages and recovery of sulfur-containing peptides also depended on the dye. Finally, the dataset was used to predict the number of proteins identifiable when integrating the differential contribution of each parameter. Sypro Ruby appeared to combine several favorable features: no dependence of the identification rate upon the physicochemical properties of proteins, no impact on frequency of missed cleavages, and a higher predicted identification rate.
authors.affiliation: Laboratoire de Protéomique, INRA, UR 1199, 2 place Viala, 34060 Montpellier Cedex 1, France.
authors.forename: François
authors.initials: F
authors.lastname: Chevalier
authors.forename: Delphine
authors.initials: D
authors.lastname: Centeno
authors.forename: Valérie
authors.initials: V
authors.lastname: Rofidal
authors.forename: Marc
authors.initials: M
authors.lastname: Tauzin
authors.forename: Olivier
authors.initials: O
authors.lastname: Martin
authors.forename: Nicolas
authors.initials: N
authors.lastname: Sommerer
authors.forename: Michel
authors.initials: M
authors.lastname: Rossignol
mesh_terms: D029681:Arabidopsis Proteins / Q000032:analysis / Q000737:chemistry; D002478:Cells, Cultured; D015180:Electrophoresis, Gel, Two-Dimensional; D005456:Fluorescent Dyes; D020543:Proteome / Q000032:analysis / Q000737:chemistry*; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; D013194:Staining and Labeling
chemical_list: D029681:Arabidopsis Proteins; D005456:Fluorescent Dyes; D020543:Proteome