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Characterization of Growth Suppressive Functions of a Splice Variant of Cyclin D2

Wafa, Karim, MacLean, Jessica, Zhang, Feixiong, Pasumarthi, Kishore B. S.·2013·PLoS ONE

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Figure 1 Characterization of cycD2SV aggregation in immortalized cell lines. HEK293 cells transfected with cycD2SVmyc (A–D), cycD2myc (E–H) and cycB1 (I, J) processed for myc (A, C, E, G) and cycB1 (I) immunostaining and nuclear stain (B, D, F, H, J). HEK293 cells co-transfected with cycD2myc and CDK4 (K–M) and cycD2SVmyc and CDK4 (N–P) processed for cycD2SV (K), cycD2 (N) and CDK4 (L, O). NIH-3T3 (R, U), T47D (S, V) and MCF7 (T, W) cells transfected with cycD2SVmyc and processed for myc (R, S, T) immunostaining and nuclear stain (U, V, W). The percentage of HEK293 cells positive for protein aggregation was determined for cycD2SVmyc, cycD2myc, cycB1, cycD2SV plus CDK4 and cycD2 plus CDK4 transfected cells (Q). Cells positive for protein aggregates were quantified and expressed as a percent of total counted cells (Q). Non-transfected (Non-tf) cells stained with myc antibodies were used as a control for protein aggregation. Values are expressed as mean ± SEM. One way ANOVA, *p<0.05 compared to non-transfected control, approximately 1000 cells were counted for each group from three independent experiments (N = 3). Endogenous cycD2 (Aa, Bb) and cycD2SV (Cc, Dd) expression was analyzed in untransfected HEK283 cells. Cells were processed for cycD2 (Aa) and cycD2SV (Cc) immunostaining and nuclear stain (Bb, Dd, and Ff). Primary antibody was omitted as a control (Ee, Ff). Scale bar is 20 µm (A–J; K–P; R, U; S, V; T, W; Aa–Ff).
Figure 1 Characterization of cycD2SV aggregation in immortalized cell lines. HEK293 cells transfected with cycD2SVmyc (A–D), cycD2myc (E–H) and cycB1 (I, J) processed for myc (A, C, E, G) and cycB1 (I) immunostaining and nuclear stain (B, D, F, H, J). HEK293 cells co-transfected with cycD2myc and CDK4 (K–M) and cycD2SVmyc and CDK4 (N–P) processed for cycD2SV (K), cycD2 (N) and CDK4 (L, O). NIH-3T3 (R, U), T47D (S, V) and MCF7 (T, W) cells transfected with cycD2SVmyc and processed for myc (R, S, T) immunostaining and nuclear stain (U, V, W). The percentage of HEK293 cells positive for protein aggregation was determined for cycD2SVmyc, cycD2myc, cycB1, cycD2SV plus CDK4 and cycD2 plus CDK4 transfected cells (Q). Cells positive for protein aggregates were quantified and expressed as a percent of total counted cells (Q). Non-transfected (Non-tf) cells stained with myc antibodies were used as a control for protein aggregation. Values are expressed as mean ± SEM. One way ANOVA, *p<0.05 compared to non-transfected control, approximately 1000 cells were counted for each group from three independent experiments (N = 3). Endogenous cycD2 (Aa, Bb) and cycD2SV (Cc, Dd) expression was analyzed in untransfected HEK283 cells. Cells were processed for cycD2 (Aa) and cycD2SV (Cc) immunostaining and nuclear stain (Bb, Dd, and Ff). Primary antibody was omitted as a control (Ee, Ff). Scale bar is 20 µm (A–J; K–P; R, U; S, V; T, W; Aa–Ff).CC BY · PubMed Central
Figure 2 CycD2SV expression decreases the number of cells entering S-phase in immortalized cell lines. Photomicrographs depict examples of [3H]-thymidine labelling assay (A–C). Scale bar is 20 µm. HEK293 cells transfected with cycB1 and labeled with [3H]-thymidine were visualized by cycB1 immunostaining (A), nuclear stain (B) and [3H]-thymidine autoradiography (C). Cells positive for [3H]-thymidine contained nuclear silver grains in the nucleus and were visualized under bright field microscopy (C). HEK293 cells transfected with cycB1, cycD2 or cycD2SV were quantified and [3H]-thymidine positive cells were expressed as a percent of total counted cells (D). [3H]-thymidine counts for cells transfected with cycD2 and cycD2SV were completed for cells with diffused staining (diff.) and those containing protein aggregates (agg.). [3H]-thymidine labeling index was also completed for 3T3-NIH, T47D and MCF7 cells overexpressing cycD2SV (E). pcDNA 3.1 vector transfected cells were used for control (cont). Additionally, [3H]-thymidine labeling index was completed for cycD2 and cycD2SV cells co-transfected with CDK4. Cells were pulsed with [3H]-thymidine for 6hrs (D) or 24 hrs (E). Values are expressed as mean ± SEM. For panel D, statistical analysis was performed using one-way ANOVA; *p<0.05 compared to the LI of control cells, #p<0.05 compared to the LI of cycD2 co-transfected with CDK4 and &p<0.05 compared to the LI of cycD2SV co-transfected with CDK4. For panel E, analysis was performed using unpaired two-tail t-test, *p<0.05 compared to the LI of control cells, approximately 1000 cells were counted for each group from three independent experiments (N = 3).
Figure 2 CycD2SV expression decreases the number of cells entering S-phase in immortalized cell lines. Photomicrographs depict examples of [3H]-thymidine labelling assay (A–C). Scale bar is 20 µm. HEK293 cells transfected with cycB1 and labeled with [3H]-thymidine were visualized by cycB1 immunostaining (A), nuclear stain (B) and [3H]-thymidine autoradiography (C). Cells positive for [3H]-thymidine contained nuclear silver grains in the nucleus and were visualized under bright field microscopy (C). HEK293 cells transfected with cycB1, cycD2 or cycD2SV were quantified and [3H]-thymidine positive cells were expressed as a percent of total counted cells (D). [3H]-thymidine counts for cells transfected with cycD2 and cycD2SV were completed for cells with diffused staining (diff.) and those containing protein aggregates (agg.). [3H]-thymidine labeling index was also completed for 3T3-NIH, T47D and MCF7 cells overexpressing cycD2SV (E). pcDNA 3.1 vector transfected cells were used for control (cont). Additionally, [3H]-thymidine labeling index was completed for cycD2 and cycD2SV cells co-transfected with CDK4. Cells were pulsed with [3H]-thymidine for 6hrs (D) or 24 hrs (E). Values are expressed as mean ± SEM. For panel D, statistical analysis was performed using one-way ANOVA; *p<0.05 compared to the LI of control cells, #p<0.05 compared to the LI of cycD2 co-transfected with CDK4 and &p<0.05 compared to the LI of cycD2SV co-transfected with CDK4. For panel E, analysis was performed using unpaired two-tail t-test, *p<0.05 compared to the LI of control cells, approximately 1000 cells were counted for each group from three independent experiments (N = 3).CC BY · PubMed Central
Figure 3 Effects of cycD2SV 54–136 and cycD2SVΔCT overexpression on cell cycle regulation. A schematic representation of D2SVΔCT, D2SV 1–53 and D2SV 54–136 deletions in comparison to full length D2SV (A). Shaded box (136–156 amino acids) in cycD2SV represents the unique CT sequence. HEK293 cells transfected with D2SVΔCTmyc (B, C), D2SV 1–53 (D, E) and D2SV 54–136 myc (F, G) were processed for myc (B, D, F) immunostaining and nuclear stain (C, E, G). Scale bar is 20 µm. HEK293 cells transfected with D2SV, D2SVΔCT and D2SV 54–136 were labeled with [3H]-thymidine and processed for immunostaining and [3H]-thymidine autoradiography. The percentage of cells positive for protein aggregation (H) and [3H]-thymidine (I) were quantified and expressed as a percent of total transfected cells. Cells transfected with pcDNA 3.1 vector were used as a control (cont). Values are expressed as mean ± SEM. One way ANOVA, *p<0.05 compared to control, approximately 1000 cells were counted for each group from three independent experiments (N = 3).
Figure 3 Effects of cycD2SV 54–136 and cycD2SVΔCT overexpression on cell cycle regulation. A schematic representation of D2SVΔCT, D2SV 1–53 and D2SV 54–136 deletions in comparison to full length D2SV (A). Shaded box (136–156 amino acids) in cycD2SV represents the unique CT sequence. HEK293 cells transfected with D2SVΔCTmyc (B, C), D2SV 1–53 (D, E) and D2SV 54–136 myc (F, G) were processed for myc (B, D, F) immunostaining and nuclear stain (C, E, G). Scale bar is 20 µm. HEK293 cells transfected with D2SV, D2SVΔCT and D2SV 54–136 were labeled with [3H]-thymidine and processed for immunostaining and [3H]-thymidine autoradiography. The percentage of cells positive for protein aggregation (H) and [3H]-thymidine (I) were quantified and expressed as a percent of total transfected cells. Cells transfected with pcDNA 3.1 vector were used as a control (cont). Values are expressed as mean ± SEM. One way ANOVA, *p<0.05 compared to control, approximately 1000 cells were counted for each group from three independent experiments (N = 3).CC BY · PubMed Central
Figure 4 Interaction of cycD2SV with cyclin D2. Overexpressed cycD2SV co-localizes with endogenous and co-transfected cycD2. HEK293 cells transfected with cycD2SVmyc alone (A–C) or co-transfected with cycD2myc (D–F) were processed for myc (A, E), D2SV (D), cycD2 (B) immunostaining and nuclear stain (C, F). Scale bar is 20 µm. Immunoprecipitation analysis of interactions between cycD2SV and cycD2 (G). Western blot (WB) analysis performed on HEK293 cells transfected with pcDNA, cycD2myc, cycD2SVmyc and cycD2SVΔCTmyc using myc and D2SV antibodies (H) as well as cycD2 and α-tubulin antibodies (I). Results in panels H and I indicate the specificity of cycD2SV and cycD2 antibodies and rule out any cross-reactivity.
Figure 4 Interaction of cycD2SV with cyclin D2. Overexpressed cycD2SV co-localizes with endogenous and co-transfected cycD2. HEK293 cells transfected with cycD2SVmyc alone (A–C) or co-transfected with cycD2myc (D–F) were processed for myc (A, E), D2SV (D), cycD2 (B) immunostaining and nuclear stain (C, F). Scale bar is 20 µm. Immunoprecipitation analysis of interactions between cycD2SV and cycD2 (G). Western blot (WB) analysis performed on HEK293 cells transfected with pcDNA, cycD2myc, cycD2SVmyc and cycD2SVΔCTmyc using myc and D2SV antibodies (H) as well as cycD2 and α-tubulin antibodies (I). Results in panels H and I indicate the specificity of cycD2SV and cycD2 antibodies and rule out any cross-reactivity.CC BY · PubMed Central
Figure 5 Interaction of cycD2SV with CDK4. HEK293 cells transfected with cycD2SVmyc (A–C) processed for myc (A), CDK4 (B) immunostaining and nuclear stain (C). Interaction of transfected cycD2SV with endogenous CDK4 was determined by CDK4 immunoprecipitation (D). Endogenous CDK4 was immunoprecipitated from pcDNA (negative control), cycD2myc (positive control) and D2SVmyc transfected cells using CDK4 antibodies. An additional immunoprecipitation negative control was completed using rabbit non-immune serum (RNIS, control) on cycD2SVmyc transfected HEK293 cells. Immunoprecipitated samples were resolved by western blot and the nitrocellulose blot was probed with myc and CDK4 antibodies. Western blot analysis of HEK293 cells transfected with pcDNA (control), empty vector, and D2SVmyc using cycD2SV antibodies (E). IP, immunoprecipitation; WB, western blot; End., endogenous.
Figure 5 Interaction of cycD2SV with CDK4. HEK293 cells transfected with cycD2SVmyc (A–C) processed for myc (A), CDK4 (B) immunostaining and nuclear stain (C). Interaction of transfected cycD2SV with endogenous CDK4 was determined by CDK4 immunoprecipitation (D). Endogenous CDK4 was immunoprecipitated from pcDNA (negative control), cycD2myc (positive control) and D2SVmyc transfected cells using CDK4 antibodies. An additional immunoprecipitation negative control was completed using rabbit non-immune serum (RNIS, control) on cycD2SVmyc transfected HEK293 cells. Immunoprecipitated samples were resolved by western blot and the nitrocellulose blot was probed with myc and CDK4 antibodies. Western blot analysis of HEK293 cells transfected with pcDNA (control), empty vector, and D2SVmyc using cycD2SV antibodies (E). IP, immunoprecipitation; WB, western blot; End., endogenous.CC BY · PubMed Central
Figure 6 Co-localization of transfected cycD2SV with markers of ER stress and autophagy. HEK293 cells co-transfected with cycD2SVmyc and TCRα-GFP (A–C), cycD2SVmyc and ubiquitin (D–F), cycD2SVmyc and YFP-intersectin (J–L) and cycD2SV-EGFP and mcherry-p62 (M–O) were processed for myc (A, D, G), HA (E) immunostaining and nuclear stain (C, F, I, L). Co-localization of singly transected cycD2SV aggregates in γ-tubulin positive MTOC (G–I). HEK293 cells transfected with cycD2SVmyc (G–I) processed for myc (G), γ-tubulin (H) immunostaining and nuclear stain (E). Scale bar is 20 µm.
Figure 6 Co-localization of transfected cycD2SV with markers of ER stress and autophagy. HEK293 cells co-transfected with cycD2SVmyc and TCRα-GFP (A–C), cycD2SVmyc and ubiquitin (D–F), cycD2SVmyc and YFP-intersectin (J–L) and cycD2SV-EGFP and mcherry-p62 (M–O) were processed for myc (A, D, G), HA (E) immunostaining and nuclear stain (C, F, I, L). Co-localization of singly transected cycD2SV aggregates in γ-tubulin positive MTOC (G–I). HEK293 cells transfected with cycD2SVmyc (G–I) processed for myc (G), γ-tubulin (H) immunostaining and nuclear stain (E). Scale bar is 20 µm.CC BY · PubMed Central
Figure 7 Localization of cycD2SV in electron-dense lysosome (arrowhead) and autophagosome structures (arrows; A, B). HEK293 cells transfected with D2SVmyc (A, B) were fixed, embedded in resin and sectioned (approximately 80 nm). Sections were processed for electron microscopy and probed with cycD2SV antibodies (A). As a control primary antibodies were omitted (B). Scale bar is 100 nm.
Figure 7 Localization of cycD2SV in electron-dense lysosome (arrowhead) and autophagosome structures (arrows; A, B). HEK293 cells transfected with D2SVmyc (A, B) were fixed, embedded in resin and sectioned (approximately 80 nm). Sections were processed for electron microscopy and probed with cycD2SV antibodies (A). As a control primary antibodies were omitted (B). Scale bar is 100 nm.CC BY · PubMed Central
Figure 8 Cell cycle array analysis on cells expressing EGFP-D2SV. Gating for sorting of HEK293 cells transfected with EGFP-D2SV cells during FACS analysis (A). Relative mRNA levels of GADD45α and dynamitin 2 in EGFP-D2SV FACS sorted cells compared to control EGFP-C1 sorted cells (B). A profile of the fold changes of 86 cell cycle genes completed for EGFP-D2SV FACS sorted cells relative to EGFP-C1 control cells (C). Values are expressed as mean ± SEM. Unpaired two-tail t-test, *p<0.05 compared to EGFP-C1, three separate arrays from three independent experiments were analysed (N = 3). HEK293 Cells transfected with cycD2SVmyc were processed for immunostaining using myc antibody followed by TUNNEL staining. TUNNEL positive cells were counted and expressed as a fraction of total cells counted (D). Values are expressed as mean ± SEM. Panel B: Unpaired two-tail t-test, *p<0.05 compared to the LI of untransfected cells, approximately 1000 cells were counted for each group from three independent experiments (N = 3). Panel A: No significant difference was found between groups.
Figure 8 Cell cycle array analysis on cells expressing EGFP-D2SV. Gating for sorting of HEK293 cells transfected with EGFP-D2SV cells during FACS analysis (A). Relative mRNA levels of GADD45α and dynamitin 2 in EGFP-D2SV FACS sorted cells compared to control EGFP-C1 sorted cells (B). A profile of the fold changes of 86 cell cycle genes completed for EGFP-D2SV FACS sorted cells relative to EGFP-C1 control cells (C). Values are expressed as mean ± SEM. Unpaired two-tail t-test, *p<0.05 compared to EGFP-C1, three separate arrays from three independent experiments were analysed (N = 3). HEK293 Cells transfected with cycD2SVmyc were processed for immunostaining using myc antibody followed by TUNNEL staining. TUNNEL positive cells were counted and expressed as a fraction of total cells counted (D). Values are expressed as mean ± SEM. Panel B: Unpaired two-tail t-test, *p<0.05 compared to the LI of untransfected cells, approximately 1000 cells were counted for each group from three independent experiments (N = 3). Panel A: No significant difference was found between groups.CC BY · PubMed Central
Figure 9 Analysis of D2SV-EGFP induced cell death in collaboration with trypsinization. HEK293 cells transfected with D2SV-EGFP or C1-EGFP were trypsinized and reseeded on gridded coverslips. In each experiment, cells were followed for 80 hrs to determine long term cell viability after trypsinization. Surviving cells were quantified and expressed as a percent of total counted cells (A). Values are expressed as mean ± SEM. One-way ANOVA, *p<0.05, seven to twenty cells were followed from three independent experiments (N = 3). Photomicrographs depict examples of D2SV-EGFP (B–E) and C1-EGFP (F–I) cells at 5 hrs (B, C, F, G) and 20 hrs (D, E, H, I). Note all EGFP-D2SV transfected cells disappeared from culture by 68 hrs post trypsinization (A). Examples of cell death in EGFP-D2SV transfected cells as observed in live cultures by fluorescence microscopy (B–E).
Figure 9 Analysis of D2SV-EGFP induced cell death in collaboration with trypsinization. HEK293 cells transfected with D2SV-EGFP or C1-EGFP were trypsinized and reseeded on gridded coverslips. In each experiment, cells were followed for 80 hrs to determine long term cell viability after trypsinization. Surviving cells were quantified and expressed as a percent of total counted cells (A). Values are expressed as mean ± SEM. One-way ANOVA, *p<0.05, seven to twenty cells were followed from three independent experiments (N = 3). Photomicrographs depict examples of D2SV-EGFP (B–E) and C1-EGFP (F–I) cells at 5 hrs (B, C, F, G) and 20 hrs (D, E, H, I). Note all EGFP-D2SV transfected cells disappeared from culture by 68 hrs post trypsinization (A). Examples of cell death in EGFP-D2SV transfected cells as observed in live cultures by fluorescence microscopy (B–E).CC BY · PubMed Central
Figure 10 Three-dimensional (3D) protein structure predictions for cycD2 and cycD2SV. Protein structures were determined by the iterative threading assembly refinement (I-TASSER) server, an internet based 3D protein structure prediction engine. The N-terminus of the presented protein structures is denoted by blue and the C-terminus is denoted by red.
Figure 10 Three-dimensional (3D) protein structure predictions for cycD2 and cycD2SV. Protein structures were determined by the iterative threading assembly refinement (I-TASSER) server, an internet based 3D protein structure prediction engine. The N-terminus of the presented protein structures is denoted by blue and the C-terminus is denoted by red.CC BY · PubMed Central

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Metadata

Authors
Wafa, K., MacLean, J., Zhang, F., & Pasumarthi, K. B. S.
Venue
PLoS ONE
Published
2013-01-10
Volume
8
Issue
1
Pages
e53503
ISSN
1932-6203
Cited by
14
References
4
Language
en

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

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