title: System-Wide Quantitative Proteomics of the Metabolic Syndrome in Mice: Genotypic and Dietary Effects.
abstract: Advances in mass spectrometry have made the quantitative measurement of proteins across multiple samples a reality, allowing for the study of complex biological systems such as the metabolic syndrome. Although the deregulation of lipid metabolism and increased hepatic storage of triacylglycerides are known to play a part in the onset of the metabolic syndrome, its molecular basis and dependency on dietary and genotypic factors are poorly characterized. Here, we used an experimental design with two different mouse strains and dietary and metabolic perturbations to generate a compendium of quantitative proteome data using three mass spectrometric techniques. The data reproduce known properties of the metabolic system and indicate differential molecular adaptation of the two mouse strains to perturbations, contributing to a better understanding of the metabolic syndrome. We show that high-quality, high-throughput proteomic data sets provide an unbiased broad overview of the behavior of complex systems after perturbation.
authors.affiliation: European Molecular Biology Laboratory, European Bioinformatics Institute , Cambridge, U.K.
authors.forename: Camille
authors.initials: C
authors.lastname: Terfve
authors.affiliation: Department of Biology, Institute of Molecular Systems Biology, ETH Zürich , Zürich 8093, Switzerland.
authors.forename: Eduard
authors.identifier: 0000-0001-6506-7714
authors.initials: E
authors.lastname: Sabidó
authors.affiliation: Department of Biology, Institute of Molecular Systems Biology, ETH Zürich , Zürich 8093, Switzerland.
authors.forename: Yibo
authors.initials: Y
authors.lastname: Wu
authors.affiliation: European Molecular Biology Laboratory, European Bioinformatics Institute , Cambridge, U.K.
authors.forename: Emanuel
authors.initials: E
authors.lastname: Gonçalves
authors.affiliation: College of Science and College of Computer and Information Science, Northeastern University , Boston, Massachusetts 02115, United States.
authors.forename: Meena
authors.identifier: 0000-0002-6025-5035
authors.initials: M
authors.lastname: Choi
authors.affiliation: Department of Biology, Institute of Molecular Systems Biology, ETH Zürich , Zürich 8093, Switzerland.
authors.forename: Stefania
authors.initials: S
authors.lastname: Vaga
authors.affiliation: College of Science and College of Computer and Information Science, Northeastern University , Boston, Massachusetts 02115, United States.
authors.forename: Olga
authors.identifier: 0000-0003-1728-1104
authors.initials: O
authors.lastname: Vitek
authors.affiliation: European Molecular Biology Laboratory, European Bioinformatics Institute , Cambridge, U.K.|RWTH-Aachen, Faculty of Medicine, Joint Research Center for Computational Biomedicine , Aachen D-52074, Germany.
authors.forename: Julio
authors.initials: J
authors.lastname: Saez-Rodriguez
authors.affiliation: Department of Biology, Institute of Molecular Systems Biology, ETH Zürich , Zürich 8093, Switzerland.|Department of Science, Faculty of Science, University of Zürich , Zürich CH-8006, Switzerland.
authors.forename: Ruedi
authors.initials: R
authors.lastname: Aebersold
mesh_terms: D000818:Animals; D002460:Cell Line; D059305:Diet, High-Fat / Q000009:adverse effects; D004195:Disease Models, Animal; D005786:Gene Expression Regulation; D005838:Genotype; D022781:Hepatocytes / Q000378:metabolism* / Q000473:pathology; D007553:Isotope Labeling; D008099:Liver / Q000378:metabolism* / Q000473:pathology; D013058:Mass Spectrometry / Q000379:methods; D053858:Metabolic Networks and Pathways / Q000235:genetics; D024821:Metabolic Syndrome / Q000209:etiology / Q000235:genetics / Q000378:metabolism* / Q000473:pathology; D057507:Mice, 129 Strain; D008810:Mice, Inbred C57BL; D025341:Principal Component Analysis; D020543:Proteome / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism; D014280:Triglycerides / Q000302:isolation & purification / Q000378:metabolism
chemical_list: D020543:Proteome; D014280:Triglycerides
keywords: SWATH-MS; mass spectrometry; metabolic syndrome