title: Comparative Proteome Analysis in Schizosaccharomyces pombe Identifies Metabolic Targets to Improve Protein Production and Secretion.
abstract: Protein secretion in yeast is a complex process and its efficiency depends on a variety of parameters. We performed a comparative proteome analysis of a set of Schizosaccharomyces pombe strains producing the α-glucosidase maltase in increasing amounts to investigate the overall proteomic response of the cell to the burden of protein production along the various steps of protein production and secretion. Proteome analysis of these strains, utilizing an isobaric labeling/two dimensional LC-MALDI MS approach, revealed complex changes, from chaperones and secretory transport machinery to proteins controlling transcription and translation. We also found an unexpectedly high amount of changes in enzyme levels of the central carbon metabolism and a significant up-regulation of several amino acid biosyntheses. These amino acids were partially underrepresented in the cellular protein compared with the composition of the model protein. Additional feeding of these amino acids resulted in a 1.5-fold increase in protein secretion. Membrane fluidity was identified as a second bottleneck for high-level protein secretion and addition of fluconazole to the culture caused a significant decrease in ergosterol levels, whereas protein secretion could be further increased by a factor of 2.1. In summary, we show that high level protein secretion causes global changes of protein expression levels in the cell and that precursor availability and membrane composition limit protein secretion in this yeast. In this respect, comparative proteome analysis is a powerful tool to identify targets for an efficient increase of protein production and secretion in S. pombe Data are available via ProteomeXchange with identifiers PXD002693 and PXD003016.
authors.affiliation: From the ‡Institute for Experimental Medicine, Div. Systematic Proteome Research & Bioanalytics, Christian-Albrechts-Universität zu Kiel, 24105 Kiel, Germany.
authors.forename: Chien-Wen
authors.initials: CW
authors.lastname: Hung
authors.affiliation: §Biochemical Engineering Institute, Saarland University, 66123 Saarbrücken, Germany.
authors.forename: Tobias
authors.initials: T
authors.lastname: Klein
authors.affiliation: From the ‡Institute for Experimental Medicine, Div. Systematic Proteome Research & Bioanalytics, Christian-Albrechts-Universität zu Kiel, 24105 Kiel, Germany.
authors.forename: Liam
authors.initials: L
authors.lastname: Cassidy
authors.affiliation: From the ‡Institute for Experimental Medicine, Div. Systematic Proteome Research & Bioanalytics, Christian-Albrechts-Universität zu Kiel, 24105 Kiel, Germany.
authors.forename: Dennis
authors.initials: D
authors.lastname: Linke
authors.affiliation: §Biochemical Engineering Institute, Saarland University, 66123 Saarbrücken, Germany.
authors.forename: Sabrina
authors.initials: S
authors.lastname: Lange
authors.affiliation: ¶Roche Diagnostics GmbH, 68305 Mannheim, Germany.
authors.forename: Uwe
authors.initials: U
authors.lastname: Anders
authors.affiliation: ‖PomBioTech GmbH, 66123 Saarbrücken, Germany; **School of Pharmaceutical Science and Technology, Tianjin University, Tianjin 300072, P.R. China.
authors.forename: Matthias
authors.initials: M
authors.lastname: Bureik
authors.affiliation: §Biochemical Engineering Institute, Saarland University, 66123 Saarbrücken, Germany.
authors.forename: Elmar
authors.initials: E
authors.lastname: Heinzle
authors.affiliation: §Biochemical Engineering Institute, Saarland University, 66123 Saarbrücken, Germany.
authors.forename: Konstantin
authors.initials: K
authors.lastname: Schneider
authors.affiliation: From the ‡Institute for Experimental Medicine, Div. Systematic Proteome Research & Bioanalytics, Christian-Albrechts-Universität zu Kiel, 24105 Kiel, Germany; a.tholey@iem.uni-kiel.de.
authors.forename: Andreas
authors.initials: A
authors.lastname: Tholey
mesh_terms: D002853:Chromatography, Liquid; D015966:Gene Expression Regulation, Fungal; D040901:Proteomics / Q000379:methods*; D012568:Schizosaccharomyces / Q000145:classification / Q000378:metabolism*; D029702:Schizosaccharomyces pombe Proteins / Q000378:metabolism*; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; D000520:alpha-Glucosidases / Q000378:metabolism
chemical_list: D029702:Schizosaccharomyces pombe Proteins; D000520:alpha-Glucosidases