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From the Senckenberg Institute for Pathology,* University of Frankfurt, Frankfurt; the Institute of Human Genetics,
University Hospital Schleswig-Holstein, Campus Kiel, Kiel; and the Institute for Cell Biology (Tumor Research),
University of Duisburg-Essen, Essen, Germany
| Abstract |
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In most lymphomas derived from mature B lymphocytes, B-cell-specific differentiation is largely retained.10,11 For the HRS cells of cHL, however, global gene expression analysis using microarrays revealed that not only were a few B-cell genes not expressed, as previously recognized, but that with a few exceptions, nearly the complete B-cell-specific gene expression was lost.12
From early B-cell development, three transcription factors, namely E2A, EBF, and PAX5, are known to regulate the expression of several B-cell-specific genes in a pleiotropic fashion, among them CD19, CD79A, and the pre-B-cell receptor surrogate light chain constituents.13,14 E2A is the first one of the three to be expressed, and E2A together with EBF regulate the expression of PAX5.15,16 All three factors are also expressed in mature B cells, with the exception of plasma cells, where EBF and PAX5 are down-regulated.13,17 For PAX5, an essential role for maintenance of the B-cell-specific gene expression in mature B cells has been demonstrated by conditional inactivation of the PAX5 gene, and several B-cell genes directly regulated by PAX5, among them CD79A, CD19, and BLNK, have been identified.18,19 The functions of E2A and EBF in mature B cells are less clear. For E2A, an important role in regulation of class switch recombination and somatic hypermutation and in marginal zone B-cell differentiation has been shown.20,21
E2A is negatively regulated by direct interaction with the inhibitor of DNA binding ID2, and in vitro analysis showed that ID2 can also bind PAX5.16,22 All ID proteins dimerize with transcription factors, and, due to a lack of a DNA binding domain in the ID proteins, DNA binding of the heterodimers is prevented, thus inactivating transcription factors.23 ID2 expression in developing hematopoietic cells seems to repress B-cell development and B-cell-specific gene expression and to favor development of other lineages,24-28 whereas in mature B cells, ID2 is up-regulated on plasma cell differentiation with concomitant loss of expression of several B-cell genes.17 Furthermore, the balances between ID2 and E2A and ID2 and PAX5 seem to be important for B-cell differentiation in the spleen and the regulation of AID expression in GC-B cells, respectively.29,30
Given the loss of B-cell gene expression in HRS cells and the importance of E2A, EBF, and PAX5 for B-cell gene expression, the presence of these factors in HRS-derived cell lines and primary HRS cells has been analyzed by several groups. However, in most cell lines and in primary cases, all three factors are expressed, although mostly at reduced levels compared with normal B cells,29,31-33 and in an analysis of PAX5 transcripts in HRS-cell lines, no inactivating mutations were detected.12 We and others thus speculated that aberrant expression of negative regulators of these transcription factors could contribute to the loss of the B-cell-specific gene expression in HRS cells.12,33 The review of our global gene-expression data of HRS-cell lines indicated a strong ID2 expression in HRS-cell lines, and we present here our analysis of ID2 expression in HL and other lymphomas. Furthermore, we demonstrate the interaction of ID2 with E2A in HRS-cell lines and show that gains of the ID2 gene might contribute to the aberrant ID2 expression in primary HRS cells.
| Materials and Methods |
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Cell lines used in this study were the HRS-cell lines L1236, L428, KMH2, and HDLM2, the Epstein-Barr virus-transformed lymphoblastoid cell line NCNC, the mantle cell lymphoma (MCL) lines Granta 519 and NCEB1, DEV (derived from a patient with lpHL), the diffuse large B-cell lymphoma (DLBCL) lines SuDHL6 and OCI-LY7, and the Burkitts lymphoma (BL) lines Raji and DG75. L1236, L428, KMH2, HDLM2, NCNC, and Granta 519 were grown according to the Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSMZ, Braunschweig, Germany) recommendations (DSMZ), and NCEB1 and DEV were grown in RPMI 1640 with 10% fetal calf serum and antibiotics. All tissues used for immunohistochemistry (IHC) and immunofluorescence (IF) were fixed at room temperature overnight in 5% phosphate-buffered formalin and retrieved from the files of the Senckenberg Institute of Pathology of the University of Frankfurt. Cytogenetic suspensions of the 4 cHL cell lines quoted above and of 10 cHL used for fluorescence in situ hybridization (FISH) to determine ID2 gene copy numbers were retrieved from the Institute of Human Genetics, University Hospital Schleswig-Holstein Campus Kiel. All biopsies were originally submitted for diagnostic purposes and studied in accordance with national ethical principles.
Quantitative Real-Time PCR Analysis
RNA from the cell lines was isolated with an RNA isolation kit (Qiagen, Hilden, Germany) and quantified. cDNA was synthesized with the first strand cDNA synthesis kit (Roche, Mannheim, Germany) with 20 ng/µl RNA and random hexamer primers. One-microliter aliquots of the cDNAs were used as templates in real-time polymerase chain reactions (PCRs) using Assays-on-Demand (Hs00747379_m1 for ID2; Hs00413032_m1 for E2A; Hs00277134_m1 for PAX5; Hs00174333_m1 for CD19; Hs00233566_m1 for CD79A; and Hs00179459_m1 for BLNK; Applied Biosystems, Darmstadt, Germany) and the ABI7900HT Sequence Detection device. As a reference, the ß-2-microglobulin (B2M; Applied Biosystems 4333766F) gene was used. For each gene-specific Assay-on-Demand experiment, a PCR product from one experiment was cloned into TOPO TA Cloning vector (Invitrogen, Karlsruhe, Germany) and sequenced, thus confirming specificities of the PCRs. Because of interference of the B2M assay with various other assays, PCRs were run as single and not as duplex PCRs. All PCRs were run as duplicates, and mean values were used for further calculations. Cycle threshold (Ct) values ranged from 15.9 to 20.8 for B2M, 19.1 to 28.8 for ID2, 16.4 to 36.8 for PAX5, 18.5 to 23.1 for E2A, 16.5 to 37.1 for CD79A, 19.3 to 40 for CD19, and 20.9 to 40 for BLNK.
Ct values relative to B2M were calculated for all target genes and transformed into fold expression relative to B2M. For Figure 1
, the reciprocal values of the fold expression values were used.
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Cell lines or 10-µm sections of frozen tissues were lysed in Laemmli buffer by 10-minute incubation in boiling water. Lysates of approximately 1 x 105 cells per lane were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (7.5 and 15%), blotted onto polyvinylidene difluoride (PVDF) membranes (Biorad, Munich, Germany), incubated overnight at 4°C with 1:1000 dilutions of anti-ID2 (ZMD.325, polyclonal rabbit; Zytomed, Berlin, Germany), anti-E2A (E12, polyclonal rabbit; Santa Cruz Biotechnology, Mannheim, Germany), anti-PAX5 (N19, polyclonal goat; Santa Cruz Biotechnology), or anti-actin (C11, polyclonal goat; Santa Cruz Biotechnology) antibodies and visualized using the ECL plus system (Amersham Biosciences, Freiburg, Germany).
Co-Immunoprecipitation of ID2 and E2A
Growing cells (1 x 107) were twice washed in PBS and then subjected to the ProFound Mamillian Co-Immunoprecipitation kit (Pierce, Rockford, IL) following the manufacturers instructions. A polyclonal rabbit anti-ID2 antibody (C20; Santa Cruz Biotechnology) was used for capturing the bait complexes. As a control, nonspecific rabbit serum IgG (Santa Cruz Biotechnology) was used. Precipitates were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (7.5 and 15%) and blotted onto PVDF membranes (Biorad). Precipitated proteins were detected by incubation of the membranes with 1:1000 dilutions of anti-E2A and anti-ID2 polyclonal antibodies (E12 and C20; Santa Cruz Biotechnology) overnight at 4°C and visualized with the ECL plus system (Amersham Biosciences).
IHC and IF
IHC and IF were performed on 5-µm sections of formalin-fixed, paraffin-embedded tissues. Antigen retrieval for both IHC and IF was performed by boiling the sections at 900 W for 15 minutes in a microwave oven in 20 mmol/L EDTA, pH 8. For ID2-IHC, sections were blocked by 15-minute incubation with a 1:100 dilution of normal goat serum IgG (Santa Cruz Biotechnology) in Tris-buffered saline (TBS) and then incubated with 1:100 dilution of anti-ID2 antibody (ZMD.325, polyclonal rabbit; Zytomed) in TBS overnight at room temperature. This antibody detected specifically a band of 15 kd in Western blots (in line with the molecular weight of ID2) (Figure 1
; supplemental material at http://ajp.amjpathol.org) and is suitable for IHC with formalin-fixed tissues as shown in the supplemental Figure 1 (http://ajp.amjpathol.org) and by Russell et al.34
Bound primary antibody was visualized with the Envision system (Dako, Hamburg, Germany) with horseradish peroxidase and 3.3-diaminobenzidine as substrate. Negative controls without primary antibody were always performed in parallel.
For ID2/PAX5 and ID2/CD79A double IF, sections were incubated with a 1:100 dilution of anti-ID2 (ZMD.325) together with a 1:50 dilution of anti-PAX5 (sc-1974, polyclonal goat; Santa Cruz Biotechnology) or a 1:250 dilution of anti-CD79A (JCB117, monoclonal mouse; Dako) in TBS for 3 hours at room temperature. After washing, sections were incubated with fluorescent-labeled secondary antibodies (Alexa Fluor chicken-anti-rabbit 488 1:100 for ID2, Alexa Fluor chicken-anti-goat 594 1:100 for PAX5 and Alexa Fluor chicken-anti-mouse 594 1:200 for CD79A; Molecular Probes/Invitrogen, Karlsruhe, Germany) for 30 minutes, washed, counterstained with 4',6-Diamidino-2-phenylindole, and evaluated using a Zeiss Axioscop-2 fluorescence microscope (Zeiss, Göttingen, Germany). For ID2/E2A double IF, sections were incubated with a 1:200 dilution of anti-E2A antibody (sc-349, polyclonal rabbit; Santa Cruz Biotechnology) for 3 hours at room temperature, washed, incubated with Alexa Fluor chicken-anti-rabbit 488 diluted 1:100 (Molecular Probes) for 30 minutes at room temperature, washed, and then incubated with directly labeled anti-ID2 diluted 1:100 for 2 hours at room temperature. Anti-ID2 was directly labeled with a fluorescence dye using the Zenon Alexa Fluor 594 Rabbit IgG Labeling kit (Molecular Probes) as recommended. After washing and 4',6-Diamidino-2-phenylindole counterstaining, sections were evaluated as above. In Figure 4
, the ID2/E2A double IF is shown in false colors (the red fluorescence for ID2 is shown in green and the green fluorescence for E2A in red) to maintain a uniform assignment of colors to antibodies throughout the figure.
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FISH analyses for the detection of chromosomal rearrangements of the ID2 locus in 2p25 were performed on cytogenetic suspensions using differentially labeled BAC clones RP11-327F6 (centromeric to ID2) and RP11-434B12 (spanning ID2 and extending in the telomeric direction) as previously described.35 Slides were analyzed using a Zeiss Axioskop-2 fluorescence microscope (Zeiss) equipped with appropriate filter sets (AHF, Tübingen, Germany) and documented using an ISIS imaging system (MetaSystems, Altlussheim, Germany). Nuclei from HRS cells were identified by virtue of their larger size and frequent hyperploid genomic status. The ID2 genomic status was determined using the following criteria: signal numbers below 5 were defined as balanced (considering the characteristic tri- to tetraploidy of HRS cells), signal numbers between 5 and 8 were defined as gained, and signal numbers above 8 were defined as amplified.
| Results |
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Our global gene expression data of HRS-cell lines indicated strong, aberrant ID2 expression in HRS-cell lines compared with normal B cells and also to most other B-cell lymphomas and B-cell lymphoma-derived cell lines.36
To quantitatively analyze ID2 expression in relation to the expression of the B-cell transcription factors E2A and PAX5 and the B-cell markers CD19, CD79A, and BLNK in HRS- and other B-cell (lymphoma) lines, we used real-time PCR (Figure 1)
. Average ID2 expression in the HRS-cell lines was about 1 order of magnitude higher compared with the other B-cell (lymphoma) lines, and the relation of ID2 to E2A and PAX5 transcripts was on average about 1 and 2 orders of magnitude higher in HRS-cell lines compared with the B-cell (lymphoma) lines, respectively. For all three B-cell genes, CD79A, BLNK, and CD19, expression values were on average at least 1 order of magnitude higher in the B-cell (lymphoma) lines compared with the HRS-cell lines. Western blot analysis showed that differences in the expression of ID2, E2A, and PAX5 at the RNA level were (with the exception of E2A in OCI-LY7) also seen at the protein level (Figure 1E)
. These data indicate that the strong ID2 expression in HRS-cell lines relative to the B-cell transcription factors E2A and PAX5 is inversely correlated with low level expression of B-cell genes.
E2A Co-Immunoprecipitates with ID2 from HRS-Cell Lines
ID proteins and E2A can form ID2/E2A heterodimers in which E2A is inactivated,23,37
and we wished to analyze whether ID2/E2A heterodimers are detectable in HRS-cell lines. Therefore an anti-ID2 antibody was used for immunoprecipitation with lysates of all four HRS-cell lines. Subsequent analysis of the immunoprecipitates in Western blots revealed co-immunoprecipitation of E2A with ID2 from all four HRS-cell lines analyzed (Figure 2)
. This demonstrates that at least fractions of E2A are inactivated by the aberrantly expressed ID2 in HRS-cell lines.
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Given the above indications for an important role of ID2 in the loss of the B-cell-specific gene expression in HRS-cell lines, we used IHC to analyze the expression of ID2 in primary HL cases, in B-cell non-Hodgkins lymphomas (B-NHL), and also in normal lymphatic tissues (Figure 3)
. In normal lymphatic tissues, ID2 expression was largely restricted to a few GC and interfollicular cells. Based on morphology, the ID2-positive cells were dendritic cells and macrophages, in line with previous RNA-based expression analyses.24,25,27
Among the B-NHLs analyzed, no ID2 expression in the tumor cells of MCL and follicular lymphoma and chronic lymphocytic leukemia was observed (Table 1)
. In line with previous RNA analysis,38
ID2 expression was observed in the three BLs analyzed (Table 1
; Figure 3
). Also in DLBCL and mediastinal large B cell lymphoma (MLBCL), ID2 positivity was observed in the vast majority of cases. Among HL, all cHL showed strong positivity in the HRS cells, and also the vast majority of lpHL showed positivity for ID2 in the L&H cells. Thus, ID2 is aberrantly expressed in the tumor cells of all types of HL and in considerable fractions of large-cell lymphomas and BL.
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On the IHC analysis of ID2 expression, we recognized large variations in staining intensities among the different lymphoma types. To obtain a more quantitative impression of ID2 expression in relation to E2A, PAX5, and CD79A in the various lymphomas, we performed double IF stainings for ID2 together with E2A, PAX5, or CD79A (Figure 4)
. Each double IF staining for a specific antibody combination was performed for all cases analyzed in one experiment, and staining intensities were scored by visual inspection from 0 to 3 (Figures 4 and 5
; Supplemental Figure 3 [available at http://ajp.amjpathol.org]). ID2 expression was strongest in the HRS cells of cHL, followed by MLBCL, lpHL, and DLBCL. In the IHC analysis, ID2 staining in several specimens seemed to be most prominent in nucleoli, and the higher spatial resolution of IF revealed that, especially in HRS and L&H cells, ID2 was predominantly localized to the nucleoli. On the other hand, the B-cell transcription factors E2A and PAX5 were hardly detectable in cHL and also had clearly weaker expression in lpHL compared with both types of large-cell lymphoma (Supplemental Figure 2 [available at http://ajp.amjpathol.org]). CD79A was not detectable in cHL but was clearly present in lpHL and both large-cell lymphomas. In several cases of MLBCL at the single cell level, a striking variation in ID2-to-E2A ratios was observed (Figure 4G)
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Because the balance between ID2 and E2A or ID2 and PAX5 seems to be important for the regulation of B-cell differentiation or expression of B-cell-specific genes,30,39
we calculated the ID2-to-E2A and ID2-to-PAX5 ratios for all lymphomas (Figure 5)
, using the average expression scores (from 0.1 to 2.6; Figure 5A
) for each protein for each lymphoma. These ratios clearly showed the very high ID2 levels in HRS cells relative to the two transcription factors negatively regulated by ID2.
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Recurrent Genomic Gains of the ID2 Locus in HRS Cells
The ID2 gene is located on the short arm of chromosome 2, and gains of chromosome 2p are the most recurrent genomic alterations in HRS cells.40,41
To analyze whether genomic gains of ID2 could contribute to its aberrant expression in HRS cells, we performed FISH analyses with an assay for the ID2 locus on 4 cHL cell lines and 10 primary cHL cases (Figure 6)
. Copy number changes affecting the ID2 locus were observed in the HRS cells of 5 of the 10 primary cHL (50%), including four cases with genomic gain and one case with amplification. By FISH and array-based comparative genomic hybridization (data not shown), gains of ID2 were also observed in two (L1236 and KMH2) of four cHL cell lines, which is in agreement with findings recently obtained by conventional comparative genomic hybridization.42
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| Discussion |
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The pathogenic changes in the HRS cells causing the loss of B-cell gene expression remained so far unknown because all known transcription factors that regulate B-cell genes in a pleiotropic fashion, ie, E2A, EBF, and PAX5, are still expressed in HRS cells. An explanation for this contradictory situation could be the aberrant expression of negative regulators of these transcription factors. Here, we show that ID2, an inhibitor of E2A and PAX5, is aberrantly expressed in HRS cells. ID2, which was not detectable in normal B cells, was strongly expressed in nearly all HRS cells of all cases analyzed. Such a uniform expression in HL is rarely seen for other markers and may stress the importance of the aberrant ID2 expression for HRS-cell pathogenesis. Furthermore, we demonstrate a direct interaction of ID2 with E2A in HRS-cell lines, showing that at least E2A is inactivated by ID2 in HRS-cell lines. These results are in line with a study performed in parallel,33 where direct interactions of ID2 with E2A in HRS-cell lines and expression of ID2 transcripts in primary HRS cells also were demonstrated. It is, however, likely that other negative regulators of B-cell transcription factors also play important roles in HL.47 This has already been shown for the ABF-1 protein,33 which is aberrantly expressed in HRS cells.36 Another candidate is NOTCH1, which is also aberrantly expressed in HRS cells and can inhibit B-cell transcription factors.48-50
ID proteins are key regulators in several developmental and cellular processes. In general, aberrant ID expression seems to favor proliferation, to inhibit differentiation, and to facilitate tumor neoangiogenesis.23 For ID2, which is aberrantly expressed in several types of tumors,51 the situation is more complicated. Whereas ID2 can bind and inactivate the anti-proliferative effect of retinoblastoma (RB) and is likely an important effector of N-MYC in neuroblastoma,52,53 it can also suppress tumor formation in the intestinal epithelium and is important for maintenance of a differentiated, noninvasive phenotype of breast cancer cells.34,54 In HRS cells, however, our results and those of Mathas et al,33 clearly indicate a role in the dedifferentiation of the tumor cells by suppressing expression of B-cell genes. In addition to suppression of B-cell genes, the strong ID2 expression and interaction with E-box proteins in HRS cells could have also other effects on HRS cells, eg, on the proliferation by regulating RB activity.53,55
Another issue raised by this study is the role of ID2 in lymphomas other than cHL. Of the B-NHL entities in which we observed significant ID2 expression, so far, a partial loss of B-cell-specific gene expression has been described only for MLBCL. Ig is undetectable by IHC, and several components of the BCR signaling cascade are expressed at lower levels than in DLBCLs.56,57 In the present study, we observed a recognizable down-regulation of CD79A in L&H cells of lpHL, which is usually detected by IHC on the L&H cells.58 Thus, although the aberrant ID2 expression might contribute to the reduced expression of some B-cell genes in these two lymphomas, the ID2-to-E2A and ID2-to-PAX5 ratios in the B-NHLs seem to be too low to cause a down-regulation of B-cell genes comparable with HRS cells. Because it is hardly conceivable how a slight reduction in the expression of some B-cell-specific genes should contribute to lymphomagenesis in these entities, it is more likely that other aspects of ID2 function may be relevant for pathogenesis of these lymphomas.
The causes for the aberrant ID2 expression in cHL may be manifold. Our own molecular cytogenetic findings suggest that recurrent genomic gains of the ID2 locus might contribute to the aberrant ID2 expression in the HRS cells through increased gene dosage. Remarkably, 2p gains are also a recurrent aberration in MLBCLs, the vast majority of which also express ID2. ID2 expression, however, can be activated by multiple signaling pathways.23 Among them is transforming growth factor (TGF)-ß signaling,59 and because HRS cells express both TGF-ß and at least TGFß-RII, autocrine TGFß signaling could contribute to the aberrant ID2 expression in HRS cells.60,61
Taken together, ID2 is strongly and uniformly expressed in the HRS cells of cHL and likely represses B-cell-specific gene expression by inactivation of E2A (and perhaps also PAX5). ID2 is also expressed in lpHL, MLBCL, DLBCL, and BL, although at amounts that are too low to cause a global down-regulation of B-cell genes, and likely contributes in other ways to lymphomagenesis.
| Acknowledgements |
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| Footnotes |
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Supported by the Deutsche Krebshilfe Verbundprojekt 102362 (to R.K. and A.B.), by the Deutsche Krebshilfe Network (grant 70-3173-Tr3 to R.S.), and by the Deutsche Forschungsgeinschaft (grants RK 1315/2-1 and BR 1238/6-1).
Supplemental material for this article appears on http://ajp.amjpathol.org.
Accepted for publication April 25, 2006.
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