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4 protocols using 37 c heating stage

1

UV-A Laser-Induced DNA Damage Imaging

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U2OS cells stably expressing RFP-53BP1 in 35 mm glass-bottom dishes (WillCo-dish) were transfected with 1 μg of expression plasmids coding each GFP-DUB with FuGENE 6 and further cultured for 48 hours in the presence of 10 μM 5-Bromo-2′-deoxyuridine (BrdU). On the day of analysis, the media was replaced with phenol red-free DMEM (Sigma-Aldrich) supplemented with 10% FBS, penicillin, streptomycin and 25 mM HEPES buffer (pH 7.0-7.6, Sigma-Aldrich). DNA damage was induced by irradiating cells through a UPlanSApo 60 × /1.35 oil objective lens with UV-A laser (405 nm) using a IX81 confocal microscope (Olympus) equipped with a 37°C heating stage (Ibidi). The laser output was set at 400 μW with 50 scans of 10 msec/pixel. Up to 1 hour after damage induction, images were taken and analyzed by using FluoView 1000 software (Olympus).
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2

Laser-Induced DNA Damage Assay

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Camptothecin (Sigma-Aldrich) was added to cells for 1 hour at a final concentration of 1 µM. For IR treatments a Faxitron-CellRad (Faxitron Bioptics, LLC) was used. Localised lines of DNA-damage were induced by laser micro-irradiation, essentially as described previously53 (link),54 (link). Briefly, U2OS cells were plated on glass-bottom dishes (Willco-Wells), treated with the indicated siRNAs or drugs, and pre-sensitised with 10 µM BrdU (Sigma-Aldrich) in phenol red-free medium (Invitrogen) for ~48 hours at 37°C. Subsequent exposure to a laser beam was performed using a FluoView 1000 confocal microscope (Olympus) equipped with a 37°C heating stage (Ibidi) and a 405 nm laser diode (6 mW) focused through a 60× UPlanSApo/1.35 oil objective and resulting in a spot size of 0.5-1 µm. 250 ms laser beam exposure times (fast scanning mode) were used at a setting of 0.4 mW output (50 scans) to yield pre-sensitisation-dependent DNA-damage, restricted to laser tracks without detectable cytotoxicity. For experiments involving CtIP, a laser power of 0.20-0.25 mW output was used, which resulted specifically in its recruitment to laser tracks in Cyclin A (CycA)-positive S/G2 but not in CycA-negative G1 cells. Cells were laser micro-irradiated for ~20 minutes and left to recover under standard cell culture conditions for 1-2 hours before fixing and staining.
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3

Laser-Induced DNA Damage Protocol

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For ionising radiation treatments, a Faxitron-CellRad (Faxitron Bioptics, LLC) fitted with an aluminium filter for soft X-rays was used. Localised DNA damage was generated by exposure of cells to a UV-A laser beam in laser micro-irradiation experiments performed essentially as described in ref. 53 (link). In brief, cells were plated on glass-bottomed dishes (Willco-Wells) and pre-treated with 10 µM 5-bromo-2′-deoxyuridine (BrdU, Sigma-Aldrich) for 24−36 h. Laser micro-irradiation was performed using a FluoView 1000 confocal microscope (Olympus) equipped with a 37 °C heating stage (Ibidi) and a 405-nm laser diode (6 mW) focused through a 360 UPlanSApo/1.35 numerical aperture lens. The time of cell exposure to the laser beam was around 250 ms (fast scanning mode). To induce S-phase-specific DSBs, cells were treated with 1 μM camptothecin (Sigma-Aldrich) for 1 h.
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4

UV-A Laser-Induced DNA Damage Imaging

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U2OS cells stably expressing RFP-53BP1 in 35 mm glass-bottom dishes (WillCo-dish) were transfected with 1 μg of expression plasmids coding each GFP-DUB with FuGENE 6 and further cultured for 48 hours in the presence of 10 μM 5-Bromo-2′-deoxyuridine (BrdU). On the day of analysis, the media was replaced with phenol red-free DMEM (Sigma-Aldrich) supplemented with 10% FBS, penicillin, streptomycin and 25 mM HEPES buffer (pH 7.0-7.6, Sigma-Aldrich). DNA damage was induced by irradiating cells through a UPlanSApo 60 × /1.35 oil objective lens with UV-A laser (405 nm) using a IX81 confocal microscope (Olympus) equipped with a 37°C heating stage (Ibidi). The laser output was set at 400 μW with 50 scans of 10 msec/pixel. Up to 1 hour after damage induction, images were taken and analyzed by using FluoView 1000 software (Olympus).
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