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Cy3 anti rat antibody

Manufactured by Jackson ImmunoResearch

Cy3 anti-rat antibody is a fluorescently-labeled secondary antibody used to detect and visualize rat primary antibodies in various immunochemical applications, such as Western blotting, immunohistochemistry, and flow cytometry. The Cy3 fluorophore is conjugated to the anti-rat antibody, allowing for the specific detection of rat antigens.

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5 protocols using cy3 anti rat antibody

1

DNA Fiber Spreads Replication Analysis

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DNA fiber spreads were prepared as described previously (36 (link)). Cells were labeled with 25 μM IdU (5-iodo-2′-deoxyuridine), washed with warm media and then exposed to 50 μM CldU (5-Chloro-2′-deoxyuridine). Cells were lysed with the spreading buffer (200 mM Tris–HCl pH 7.5, 50 mM EDTA and 0.5% SDS) and DNA fiber were stretched onto glass slides. The DNA fibers were denatured with 2.5 M HCl for 1 h, washed with PBS and blocked with 2% BSA in PBS-Tween 20 for 60 min. IdU replication tracts were revealed with a mouse anti-BrdU/IdU antibody (BD Bioscience) and CldU tracts with a rat anti-BrdU/CldU antibody (Abcam). DNA fibers were uniformly labeled with a mouse anti-human single-stranded DNA antibody (Millipore). The secondary antibodies used for the assay were: alexa fluor 488 anti-mouse antibody (Life technologies), alexa fluor 647 anti-mouse antibody (Life technologies) and Cy3 anti-rat antibody (Jackson Immunoresearch). Replication tracts were analyzed with ImageJ software. The probability that two datasets stem from the same distribution was assayed by a non-parametrical Mann–Whitney test (Prism Software).
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2

DNA Replication Tract Analysis

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DNA fiber labeling was performed as previously described (Lossaint et al, 2013 (link); Ribeyre et al, 2016 (link)). Cells were labeled with 25 μM IdU, washed with warm media, and exposed to 50 μM CldU. Cells were lysed, and DNA fibers were stretched onto glass slides. The DNA fibers were denatured with 2.5 M HCl for 1 h, washed with PBS, and blocked with 2% BSA in PBS/Tween for 60 min. IdU replication tracts were revealed with a mouse anti-BrdU/IdU antibody from BD Biosciences (347580) and CldU tracts with a rat anti-BrdU/CldU antibody from Eurobio (ABC117-7513). The following secondary antibodies were used: Alexa Fluor 488 anti-mouse antibody (A11001; Life) and Cy3 anti-rat antibody (712-166-153; Jackson ImmunoResearch). Replication tract lengths were analyzed using ImageJ software. For statistical analysis, we used a non-parametric Mann–Whitney test with Prism software.
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3

Visualizing Replication Fork Degradation

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DNA fiber labeling scheme to visualize replication fork degradation was performed as previously described65 (link). Briefly, cells were labeled with 25 µM IdU, washed with warm media, exposed to 50 µM CldU, washed again with warm media, and treated with 5 mM hydroxyurea for 4 h. Cells were lysed and DNA fibers were stretched onto glass slides and then dried and fixed in methanol/acetic acid (3:1) for 10 min. The DNA fibers were denatured with 2.5 M HCl for 1 h, washed with PBS, and blocked with 2% BSA in PBS-Tween for 60 min. IdU replication tracts were revealed with a mouse anti-BrdU/IdU antibody from BD Biosciences (347580; 1:100) and CldU tracts with a rat anti-BrdU/CldU antibody from Eurobio (ABC117–7513; 1:100). The following secondary antibodies were used: Alexa fluor 488 anti-mouse antibody (Life A21241; 1:100) and Cy3 anti-rat antibody (Jackson ImmunoResearch 712-166-153; 1:100). Fibers were visualized and imaged by Carl Zeiss Axio Imager Apotome using ×40 Plan Apo 1.4 NA oil immersion objective and acquired using Zeiss Zen 3.1 software. Replication tract lengths were analyzed using ImageJ software.
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4

Tubulin Immunofluorescence Microscopy

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Indirect in situ immunofluorescence microscopy to detect Tub1 was performed as previously described (Kilmartin and Adams, 1984 (link)) using a rat anti-α-tubulin (YOL1/34, Oxford Biotechnology, 1:100 dilution). An anti-rat Cy3 antibody (Jackson Laboratory) was used as a secondary antibody. Cells were scored on a Zeiss Axio Observer Z1 inverted microscope (Zeiss. Thornwood, NY).≥100 cells were counted per time point.
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5

Mammosphere Doublet Analysis Protocol

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For MaSCs doublet analyses, mammospheres were mechanically dissociated and single cells were allowed to divide once for 30 h in stem cell medium additioned with 20% methylcellulose in order to avoid aggregation. Cells were then transferred to a poly-lysine coated glass slide (Corning) and fixed with 4% paraformaldehyde (PFA) for 20 minutes at room temperature. Then, cells were blocked in donkey serum diluted 1:5 (20%) for 15 min, and incubated with anti-CD49f antibody (working dilution 1:250; clone GoH3, cat. no 555734, BD Pharmigen) for 1 h at room temperature. For Supplementary Fig. 6d, cells were further stained with a monoclonal Numb antibody as described in Colaluca et al.51 (link). Cells were washed with PBS, and later incubated with anti-rat cy3 antibody (working dilution 1:400; Jackson ImmunoResearch) for 30 min at room temperature. Following that, cells were washed again with PBS, and fixed with 4% PFA for 10 min at room temperature. After permeabilization with 0,1% Triton-X, cells were counterstained with DAPI (Sigma). Confocal microscopy was performed on a Leica TCS SP2 confocal microscope. A 63 × oil-immersion objective lens (HCX Plan-Apochromat 63× NA 1.4 Lbd Bl; Leica) was used for analysis.
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