Single cell resolution in vivo imaging of DNA damage following PARP inhibition. Supplementary Data
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1 Single cell resolution in vivo imaging of DNA damage following PARP inhibition Katherine S. Yang, Rainer H. Kohler, Matthieu Landon, Randy Giedt, and Ralph Weissleder Supplementary Data Supplementary Figures Figure S1. 53BP1trunc-Apple reporter colocalizes with a canonical marker of DNA double-strand breaks, phospho-s139 ƔH2A.X. HCC1937 cells were treated with 0.1% DMSO (control), 100 µm olaparib or 1 µm etoposide for 24 hrs, or 10 µm cisplatin for 1 hr, followed by a 24 hr recovery. Following treatment, cells expressing 53BP1trunc-Apple (red) were fixed and stained with an antibody against S139 phosphorylated ƔH2A.X (green, abcam, ab26350) to observe colocalization (merge) of sites of double-strand breaks. Scale bar = 20 µm.
2 Table S1. Panel of breast, ovarian, and Ewing s sarcoma cell lines used to examine relationship between BRCA status and PARP inhibitor efficacy. The wildtype or mutant BRCA1 and BRCA2 status is shown for each cell line (compiled from the COSMIC database and literature, ND = not determined). Relative PARP expression is compared from the Western blot in Supplementary Fig. S2. The EC50 value from viability assays in cell culture is also shown (Supplementary Fig. S3). The PD50 value (halfmaximal pharmacodynamic response) was determined from imaging the increase in foci formation following olaparib treatment. The in vivo maximum fold change is the increase in the number of foci from daily olaparib IP injection (NG = no growth, NB = reporter not bright enough in these cell lines for in vivo use). Type Model BRCA1 BRCA2 PARP EC50 (µm) in vitro PD50 (µm) in vitro max fold change in vivo UWB /- WT Med NG Ovary A2780 WT WT Hi NB OVCAR429 WT WT Low NG MDA-MB-436 -/- WT Hi Breast HCC1937 -/- WT Low MDA-MB-231 WT WT Med NG TC-252 ND ND Hi NB Ewing s MHH-ES1 WT WT Hi SK-PN-DW WT WT Low NB
3 Figure S2. PARP1 protein expression in a panel of breast, ovarian, and Ewing s sarcoma cell lines. Cells were grown to confluence, lysed, and equal total protein was loaded and run on SDS-PAGE. PARP1 expression is shown for ovarian (left three lanes), breast (middle three lanes) or Ewing s sarcoma cell lines (right three lanes). PARP1 expression was quantified by densitometry using ImageJ (NIH) and normalized to a total protein membrane stain (bottom left, using the ~80kDa band outlined). Normalized PARP1 expression was plotted as a fold increase from the lowest expressing cell line (right). Error bars represent standard error of the mean from two independent experiments.
4 Figure S3. Measurement of cell viability in ovarian (top row), breast (middle row) and Ewing s sarcoma cells (bottom row). Cells were plated at low density 24 hrs prior to addition of increasing concentrations of olaparib (0 to 100 µm). After six days of treatment with olaparib, cell viability was measured using the PrestoBlue cell viability reagent (Life Technologies). The percentage of viable cells versus the concentration of olaparib was fit to a sigmoidal dose response curve using GraphPad (Prism). Error bars represent the standard error of the mean from at least two independent experiments.
5 Figure S4. Validation of the 53BP1trunc-Apple reporter in vivo. HT1080 cells expressing the 53BP1trunc-Apple reporter were implanted in the window chamber of nu/nu mice and grown for approximately two weeks before imaging. Mice were either in the vehicle (red, n = 3) or cisplatin treatment (blue, n = 3) group and were imaged before treatment and 24 and 48 hrs after a single bolus dose of drug (9 mg cisplatin/kg or 10% solutol in saline). The mean number of foci per nucleus at each time point and for each group is shown. At least 100 nuclei were analyzed for each mouse on each day of imaging. For the vehicle mice, no significant difference between each time point was observed (p-value > 0.05, two-tailed t-test). For the cisplatin treated mice, a significant difference between pre-treatment and 24 and 48 hrs after dosing was observed (p-value < , two-tailed t-test). Error bars represent the standard error of the mean.
6 Figure S5. p21 and p53 protein expression in a panel of ovarian (left three lanes), breast (middle three lanes), and Ewing s sarcoma (right three lanes) cell lines. Cells were grown to confluence, lysed, and equal total protein was loaded and run on SDS-PAGE. Total protein membrane stain (Pierce) was used as a loading control. Blots are representative of at least two independent experiments.
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a b FlagRac FlagRac V2 V2 N7 C4 V2 V2 N7 C4 p (T38) p (S99, S24) p Flag (Rac) NIH 3T3 COS c +Serum p (T38) MycDN (NSP) Mycp27 3 6 2 3 6 2 3 6 2 min p Myc ( or p27) Figure S (a) Effects of Rac mutants on
Supplementary Figure 1. Adipogenic protein expression in WT and KO MEFs after 7 days of adipogenic differentiation.
Merkestein et al. Supplementary Figure 1 A PLIN WT FTO KO 72 kda FABP4 17 kda HSC70 72 kda B Supplementary Figure 1. Adipogenic protein expression in WT and KO MEFs after 7 days of adipogenic differentiation.
Supplemental Figure 1: CIP2A and SET levels are increased in some. primary human pancreatic cancer samples. (A) CIP2A mrna levels were
Supplemental Figure Legends and Figures: Supplemental Figure 1: CIP2A and SET levels are increased in some primary human pancreatic cancer samples. (A) CIP2A mrna levels were measured in 3 benign (non-cancer)
Supplementary Figure 1 Structural modeling and purification of V. cholerae ABH. (a) The migration of the purified rabh and catalytically inactive
Supplementary Figure 1 Structural modeling and purification of V. cholerae ABH. (a) The migration of the purified rabh and catalytically inactive variants rabhs, rabhd, and rabhh are shown on 12% SDS-PAGE
Supplementary Fig. 1. Schematic structure of TRAIP and RAP80. The prey line below TRAIP indicates bait and the two lines above RAP80 highlight the
Supplementary Fig. 1. Schematic structure of TRAIP and RAP80. The prey line below TRAIP indicates bait and the two lines above RAP80 highlight the prey clones identified in the yeast two hybrid screen.