Cell cycle staging of individual cells by fluorescence microscopy (original) (raw)
Malumbres, M. & Barbacid, M. Cell cycle, CDKs and cancer: a changing paradigm. Nat. Rev. Cancer9, 153–166 (2009). ArticleCAS Google Scholar
Nurse, P. A long twentieth century of the cell cycle and beyond. Cell100, 71–78 (2000). ArticleCAS Google Scholar
Hanahan, D. & Weinberg, R.A. Hallmarks of cancer: the next generation. Cell144, 646–674 (2011). ArticleCAS Google Scholar
Darzynkiewicz, Z. & Huang, X. Analysis of cellular DNA content by flow cytometry. Curr. Protoc. Immunol.60, 5.7.1–5.7.18 (2004). Google Scholar
Jackson, D. & Cook, P.R. Analyzing DNA replication I: labeling animals, tissues, and cells with bromodeoxyuridine (BrdU). CSH Protoc.2008 doi:10.1101/pdb.prot5031 (2008).
Rodgers, L. Measurement of DNA content using propidium iodide (PI) staining of fixed whole cells. CSH Protoc.2006 doi:10.1101/pdb.prot4436 (2006).
Salic, A. & Mitchison, T.J. A chemical method for fast and sensitive detection of DNA synthesis in vivo. Proc. Natl. Acad. Sci. USA105, 2415–2420 (2008). ArticleCAS Google Scholar
Cappella, P., Gasparri, F., Pulici, M. & Moll, J. A novel method based on click chemistry, which overcomes limitations of cell cycle analysis by classical determination of BrdU incorporation, allowing multiplex antibody staining. Cytometry A73, 626–636 (2008). Article Google Scholar
Azuara, V. Profiling of DNA replication timing in unsynchronized cell populations. Nat. Protoc.1, 2171–2177 (2006). ArticleCAS Google Scholar
Sterzel, W., Bedford, P. & Eisenbrand, G. Automated determination of DNA using the fluorochrome Hoechst 33258. Anal. Biochem.147, 462–467 (1985). ArticleCAS Google Scholar
Dolezel, J., Greilhuber, J. & Suda, J. Estimation of nuclear DNA content in plants using flow cytometry. Nat. Protoc.2, 2233–2244 (2007). ArticleCAS Google Scholar
Gratzner, H.G. Monoclonal antibody to 5-bromo- and 5-iododeoxyuridine: A new reagent for detection of DNA replication. Science218, 474–475 (1982). ArticleCAS Google Scholar
Diermeier-Daucher, S. et al. Cell type specific applicability of 5-ethynyl-2′-deoxyuridine (EdU) for dynamic proliferation assessment in flow cytometry. Cytometry A75, 535–546 (2009). Article Google Scholar
Nishitani, H. et al. Two E3 ubiquitin ligases, SCF-Skp2 and DDB1-Cul4, target human Cdt1 for proteolysis. EMBO J.25, 1126–1136 (2006). ArticleCAS Google Scholar
Roukos, V. et al. Dynamic recruitment of licensing factor Cdt1 to sites of DNA damage. J. Cell Sci.124, 422–434 (2011). ArticleCAS Google Scholar
Leonhardt, H. et al. Dynamics of DNA replication factories in living cells. J. Cell Biol.149, 271–280 (2000). ArticleCAS Google Scholar
Essers, J. et al. Nuclear dynamics of PCNA in DNA replication and repair. Mol. Cell Biol.25, 9350–9359 (2005). ArticleCAS Google Scholar
Easwaran, H.P., Leonhardt, H. & Cardoso, M.C. Cell cycle markers for live cell analyses. Cell Cycle4, 453–455 (2005). ArticleCAS Google Scholar
Sakaue-Sawano, A. et al. Visualizing spatiotemporal dynamics of multicellular cell-cycle progression. Cell132, 487–498 (2008). ArticleCAS Google Scholar
Hesse, M. et al. Direct visualization of cell division using high-resolution imaging of M-phase of the cell cycle. Nat. Commun.3, 1076 (2012). Article Google Scholar
Clute, P. & Pines, J. Temporal and spatial control of cyclin B1 destruction in metaphase. Nat. Cell Biol.1, 82–87 (1999). ArticleCAS Google Scholar
Campisi, J. & d′Adda di Fagagna, F. Cellular senescence: when bad things happen to good cells. Nat. Rev. Mol. Cell Biol.8, 729–740 (2007). ArticleCAS Google Scholar
Evan, G.I. & Vousden, K.H. Proliferation, cell cycle and apoptosis in cancer. Nature411, 342–348 (2001). ArticleCAS Google Scholar
Trotta, E. & Paci, M. Solution structure of DAPI selectively bound in the minor groove of a DNA T.T mismatch-containing site: NMR and molecular dynamics studies. Nucleic Acids Res.26, 4706–4713 (1998). ArticleCAS Google Scholar
Roukos, V. et al. Spatial dynamics of chromosome translocations in living cells. Science341, 660–664 (2013). ArticleCAS Google Scholar
Branzei, D. & Foiani, M. Regulation of DNA repair throughout the cell cycle. Nat. Rev. Mol. Cell Biol.9, 297–308 (2008). ArticleCAS Google Scholar
Darzynkiewicz, Z., Crissman, H. & Jacobberger, J.W. Cytometry of the cell cycle: cycling through history. Cytometry A58, 21–32 (2004). Article Google Scholar
Darzynkiewicz, Z. Critical aspects in analysis of cellular DNA content. Curr. Protoc. Cytom.56, 7.2.1–7.2.8 (2011). Article Google Scholar
Pozarowski, P., Holden, E. & Darzynkiewicz, Z. Laser scanning cytometry: principles and applications-an update. Methods Mol. Biol.931, 187–212 (2013). ArticleCAS Google Scholar
Darzynkiewicz, Z., Halicka, H.D. & Zhao, H. Analysis of cellular DNA content by flow and laser-scanning cytometry. Adv. Exp. Med. Biol.676, 137–147 (2010). ArticleCAS Google Scholar
Gorczyca, W., Darzynkiewicz, Z. & Melamed, M.R. Laser scanning cytometry in pathology of solid tumors. A review. Acta Cytol.41, 98–108 (1997). ArticleCAS Google Scholar
Lyman, S.K. et al. High-content, high-throughput analysis of cell cycle perturbations induced by the HSP90 inhibitor XL888. PLoS ONE6, e17692 (2011). ArticleCAS Google Scholar
Floyd, S.R. et al. The bromodomain protein Brd4 insulates chromatin from DNA damage signalling. Nature498, 246–250 (2013). ArticleCAS Google Scholar
Smith, P.J., Wiltshire, M. & Errington, R.J. DRAQ5 labeling of nuclear DNA in live and fixed cells. Curr. Protoc. Cytom.28, 7.25.1–7.25.11 (2004). Google Scholar
Martin, R.M., Leonhardt, H. & Cardoso, M.C. DNA labeling in living cells. Cytometry A67, 45–52 (2005). Article Google Scholar
Mari, P.O. et al. Influence of the live cell DNA marker DRAQ5 on chromatin-associated processes. DNA Repair (Amst)9, 848–855 (2010). ArticleCAS Google Scholar
Zhao, H., Traganos, F., Dobrucki, J., Wlodkowic, D. & Darzynkiewicz, Z. Induction of DNA damage response by the supravital probes of nucleic acids. Cytometry A75, 510–519 (2009). Article Google Scholar
Nandy, K. et al. Automatic segmentation and supervised learning-based selection of nuclei in cancer tissue images. Cytometry A81, 743–754 (2012). Article Google Scholar
Perez-Cadahia, B., Drobic, B. & Davie, J.R. H3 phosphorylation: dual role in mitosis and interphase. Biochem. Cell Biol.87, 695–709 (2009). ArticleCAS Google Scholar
Yokochi, T. & Gilbert, D.M. Replication labeling with halogenated thymidine analogs. Curr. Protoc. Cell Biol.35, 22.10.1–22.10.14 (2007). Article Google Scholar
Brott, D.A., Alvey, J.D., Bleavins, M.R., de la Iglesia, F.A. & Lalwani, N.D. Cell cycle dependent distribution of proliferating cell nuclear antigen/cyclin and cdc2-kinase in mouse T-lymphoma cells. J. Cell Biochem.52, 362–372 (1993). ArticleCAS Google Scholar
Pines, J. & Hunter, T. Human cyclin A is adenovirus E1A-associated protein p60 and behaves differently from cyclin B. Nature346, 760–763 (1990). ArticleCAS Google Scholar
Stathopoulou, A. et al. Cdt1 is differentially targeted for degradation by anticancer chemotherapeutic drugs. PLoS ONE7, e34621 (2012). ArticleCAS Google Scholar
McGarry, T.J. & Kirschner, M.W. Geminin, an inhibitor of DNA replication, is degraded during mitosis. Cell93, 1043–1053 (1998). ArticleCAS Google Scholar
Nishitani, H., Taraviras, S., Lygerou, Z. & Nishimoto, T. The human licensing factor for DNA replication Cdt1 accumulates in G1 and is destabilized after initiation of S-phase. J. Biol. Chem.276, 44905–44911 (2001). ArticleCAS Google Scholar
Ridenour, D.A., McKinney, M.C., Bailey, C.M. & Kulesa, P.M. CycleTrak: a novel system for the semi-automated analysis of cell cycle dynamics. Dev. Biol.365, 189–195 (2012). ArticleCAS Google Scholar
Carpenter, A.E. et al. CellProfiler: image analysis software for identifying and quantifying cell phenotypes. Genome Biol.7, R100 (2006). Article Google Scholar
R Core Team R: A Language and Environment for Statistical Computing. (R Foundation for Statistical Computing, 2014).
Wickham, H. ggplot2: Elegant Graphics for Data Analysis. (Springer, 2009).
Wickham, H. The split-apply-combine strategy for data analysis. J. Stat. Software40, 1–29 (2011). Google Scholar