Research Papers:

Proteomic changes in cerebrospinal fluid from primary central nervous system lymphoma patients are associated with protein ectodomain shedding

Daniel Michael Waldera-Lupa, Omid Etemad-Parishanzadeh, Mareike Brocksieper, Nina Kirchgaessler, Sabine Seidel, Thomas Kowalski, Manuel Montesinos-Rongen, Martina Deckert, Uwe Schlegel and Kai Stühler _

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Oncotarget. 2017; 8:110118-110132. https://doi.org/10.18632/oncotarget.22654

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Daniel Michael Waldera-Lupa1, Omid Etemad-Parishanzadeh1, Mareike Brocksieper1, Nina Kirchgaessler1, Sabine Seidel2, Thomas Kowalski2, Manuel Montesinos-Rongen3, Martina Deckert3, Uwe Schlegel2,* and Kai Stühler1,4,*

1Molecular Proteomics Laboratory, Institute of Molecular Medicine, Universitaetsklinikum Düsseldorf, Düsseldorf, Germany

2Department of Neurology, Knappschaftskrankenhaus, Ruhr-University Bochum, Bochum, Germany

3Institute of Neuropathology, University of Cologne, Cologne, Germany

4Biologisch-Medizinisches Forschungszentrum, Heinrich-Heine-University Düsseldorf, Düsseldorf, Germany

*These authors contributed equally to this work

Correspondence to:

Kai Stühler, email: [email protected]

Keywords: primary central nervous system lymphoma; proteomics; cerebrospinal fluid; ectodomain shedding; protein secretion

Received: June 21, 2017     Accepted: October 27, 2017     Published: November 24, 2017


Primary central nervous system lymphomas (PCNSLs) are mature B-cell lymphomas confined to the central nervous system (CNS). Blood-brain barrier (BBB) dysfunction drastically alters the cerebrospinal fluid (CSF) proteome in PCNSL patients. To reveal the interaction of PCNSL tumors with CNS structures and the vasculature, we conducted a whole-proteome analysis of CSF from PCNSL patients (n = 17 at initial diagnosis) and tumor-free controls (n = 10) using label-free quantitative mass spectrometry. We identified 601 proteins in the CSF proteome using a one-step approach without further prefractionation, and quantified 438 proteins in detail using the Hi-N method. An immunoassay revealed that 70% of the patients in our unselected PCNSL patient cohort had BBB dysfunction. Correlation analysis indicated that 127 (30%) of the quantified proteins were likely increased in PCSNL patients due to BBB dysfunction. After the exclusion of these proteins, 66 were found to differ in abundance (fold-change > 2.0, p < 0.05) between PCNSL and control CSF proteomes, and most of those were associated with the CNS. These data also provide the first evidence that proteomic changes in CSF from PCNSL patients are mainly associated with protein ectodomain shedding, and that shedding of human leukocyte antigen class 2 proteins is a mechanism of tumor-cell immune evasion.

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