title: Compartment resolved reference proteome map from highly purified naïve, activated, effector, and memory CD8⁺ murine immune cells.
abstract: Differentiation of CD8(+) T lymphocytes into effector and memory cells is key for an adequate immune response and relies on complex interplay of pathways that convey signals from the cell surface to the nucleus. In this study, we investigated the proteome of four cytotoxic T-cell subtypes; naïve, recently activated effector, effector, and memory cells. Cells were fractionated into membrane, cytosol, soluble nuclear, chromatin-bound, and cytoskeletal compartments. Following LC-MS/MS analysis, identified peptides were analyzed via MaxQuant. Compartment fractionation and gel-LC-MS separation resulted in 2399 proteins identified in total. Comparison between the different subsets resulted in 146 significantly regulated proteins for naïve and effector cells, followed by 116 for activated, and 55 for memory cells. Besides Granzyme B signaling (for activated and/ or effector cells vs. naïve cells), the most prominent changes occurred in the TCA cycle and aspartate degradation. These changes suggest that correct balancing of metabolism is key for differentiation processes. All MS data have been deposited in the ProteomeXchange with identifier PXD001065 (http://proteomecentral.proteomexchange.org/dataset/PXD001065).
authors: T Cell Laboratory, School of Molecular Science, La Trobe University, Bundoora, Australia.
authors: Damien
authors: D
authors: Zanker
authors: Department of Proteomics, Helmholtz Centre for Environmental Research, Leipzig, Germany.
authors: Wolfgang
authors: W
authors: Otto
authors: T Cell Laboratory, School of Molecular Science, La Trobe University, Bundoora, Australia.
authors: Weisan
authors: W
authors: Chen
authors: Department of Proteomics, Helmholtz Centre for Environmental Research, Leipzig, Germany.|Department of Metabolomics, Helmholtz Centre for Environmental Research, Leipzig, Germany.|Department of Biotechnology and Environmental Engineering, University of Aalborg, Aalborg, Denmark.
authors: Martin
authors: M
authors: von Bergen
authors: Department of Proteomics, Helmholtz Centre for Environmental Research, Leipzig, Germany.
authors: Janina M
authors: JM
authors: Tomm
mesh_terms: D000818:Animals; D018414:CD8-Positive T-Lymphocytes / Q000276:immunology* / Q000378:metabolism*; D002851:Chromatography, High Pressure Liquid; D030562:Databases, Protein; D007156:Immunologic Memory; D013058:Mass Spectrometry; D008810:Mice, Inbred C57BL; D020543:Proteome / Q000032:analysis* / Q000302:isolation & purification; D053719:Tandem Mass Spectrometry
chemical_list: D020543:Proteome
keywords: Cell biology; Cytotoxic T lymphocytes; Global proteome; Immunology; Mouse