A super-SILAC based proteomics analysis of diffuse large B-cell lymphoma-NOS patient samples to identify new proteins that discriminate GCB and non-GCB lymphomas

• Published in: PloS one Vol. 14; no. 10; p. e0223260
• Main Authors: van der Meeren, L E, Kluiver, J, Rutgers, B, Alsagoor, Y, Kluin, P M, van den Berg, A, Visser, L
• Format: Journal Article
• Language: English
• Published: United States Public Library of Science 11.10.2019; Public Library of Science (PLoS)
• Subjects: Adaptor Proteins, Signal Transducing - genetics; Adaptor Proteins, Signal Transducing - immunology; Adolescent; Adult; Aged; Aged, 80 and over; Algorithms; Angiogenesis; B cells; B-cell lymphoma; B-Lymphocytes - immunology; B-Lymphocytes - pathology; Biology; Biology and Life Sciences; Biomarkers, Tumor - genetics; Biomarkers, Tumor - immunology; Care and treatment; Cell Line, Tumor; Child; Classification; Cloning; Cohort Studies; Female; Gene Expression; Genetic aspects; Germinal Center - immunology; Germinal Center - pathology; Hodgkin's disease; Humans; Immunohistochemistry; Isotope Labeling - methods; Lymphocyte Activation; Lymphocytes B; Lymphoma; Lymphoma, Large B-Cell, Diffuse - classification; Lymphoma, Large B-Cell, Diffuse - diagnosis; Lymphoma, Large B-Cell, Diffuse - immunology; Lymphoma, Large B-Cell, Diffuse - pathology; Male; Medical research; Medicine and Health Sciences; Middle Aged; Myc protein; Neoplasm Staging; Non-Hodgkin's lymphoma; Non-Hodgkin's lymphomas; p53 Protein; Pathology; Physical Sciences; Proteins; Proteomics; Proteomics - methods; Proto-Oncogene Proteins c-myc - genetics; Proto-Oncogene Proteins c-myc - immunology; Replication; Research and Analysis Methods; Ribosomal protein L23; Ribosomal Proteins - genetics; Ribosomal Proteins - immunology; Studies; Subgroups; Tumor cell lines; Tumor Suppressor Protein p53 - genetics; Tumor Suppressor Protein p53 - immunology; Netherlands; United Kingdom > UK; United States > US; Germany
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0223260

Diffuse large B-cell lymphoma-not otherwise specified (DLBCL-NOS) is a large and heterogeneous subgroup of non-Hodgkin lymphoma. DLBCL can be subdivided into germinal centre B-cell like (GCB) and activated B-cell like (ABC or non-GCB) using a gene-expression based or an immunohistochemical approach. In this study we aimed to identify additional proteins that are differentially expressed between GCB and non-GCB DLBCL. A reference super-SILAC mix, including proteins of eight B-cell lymphoma cell lines, was mixed with proteins isolated from seven non-GCB DLBCL and five GCB DLBCL patient tissue samples to quantify protein levels. Protein identification and quantification was performed by LC-MS. We identified a total of 4289 proteins, with a four-fold significant difference in expression between non-GCB and GCB DLBCL for 37 proteins. Four proteins were selected for validation in the same cases and replication in an independent cohort of 47 DLBCL patients by immunohistochemistry. In the validation cohort, we observed a non-significant trend towards the same differential expression pattern as observed in the proteomics. The replication study showed significant and consistent differences for two of the proteins: expression of glomulin (GLMN) was higher in GCB DLBCL, while expression of ribosomal protein L23 (RPL23) was higher in non-GCB DLBCL. These proteins are functionally linked to important pathways involving MYC, p53 and angiogenesis. In summary, we showed increased expression of RPL23 and decreased expression of GLMN in non-GCB compared to GCB DLBCL on purified primary DLBCL patient samples and replicated these results in an independent patient cohort.