Imaging gene expression in single living cells

Technical advances in the field of live-cell imaging have introduced the cell biologist to a new, dynamic, subcellular world. The static world of molecules in fixed cells has now been extended to the time dimension. This allows the visualization and quantification of gene expression and intracellular trafficking events of the studied molecules and the associated enzymatic processes in individual cells, in real time.

[1]  Roger Y. Tsien,et al.  Creating new fluorescent probes for cell biology , 2003, Nature Reviews Molecular Cell Biology.

[2]  T. Misteli,et al.  High mobility of proteins in the mammalian cell nucleus , 2000, Nature.

[3]  Tom Misteli,et al.  Measurement of dynamic protein binding to chromatin in vivo, using photobleaching microscopy. , 2004, Methods in enzymology.

[4]  Wendy A Bickmore,et al.  Chromatin Motion Is Constrained by Association with Nuclear Compartments in Human Cells , 2002, Current Biology.

[5]  J. Diffley,et al.  Activation of dormant origins of DNA replication in budding yeast. , 1999, Genes & development.

[6]  Stefan Wiemann,et al.  Illuminating the human genome , 2001, Histochemistry and Cell Biology.

[7]  C. Fox,et al.  Differential DNA affinity specifies roles for the origin recognition complex in budding yeast heterochromatin. , 2003, Genes & development.

[8]  Yi Liu,et al.  Single-Cell Gene Expression Profiling , 2022 .

[9]  M. Botchan,et al.  Role for a Drosophila Myb-containing protein complex in site-specific DNA replication , 2002, Nature.

[10]  J. Lippincott-Schwartz,et al.  Diffusional Mobility of Golgi Proteins in Membranes of Living Cells , 1996, Science.

[11]  J. Lippincott-Schwartz,et al.  Studying protein dynamics in living cells , 2001, Nature Reviews Molecular Cell Biology.

[12]  A S Belmont,et al.  In vivo localization of DNA sequences and visualization of large-scale chromatin organization using lac operator/repressor recognition , 1996, The Journal of cell biology.

[13]  Hiroshi Kimura,et al.  Kinetics of Core Histones in Living Human Cells , 2001, The Journal of cell biology.

[14]  Gustavo Carrero,et al.  Using FRAP and mathematical modeling to determine the in vivo kinetics of nuclear proteins. , 2003, Methods.

[15]  J. Ellenberg,et al.  4D imaging to assay complex dynamics in live specimens. , 2003, Nature cell biology.

[16]  Marcus Dyba,et al.  Immunofluorescence stimulated emission depletion microscopy , 2003, Nature Biotechnology.

[17]  James G McNally,et al.  Dynamic behavior of transcription factors on a natural promoter in living cells , 2002, EMBO reports.

[18]  Diana P Bratu,et al.  Visualizing the distribution and transport of mRNAs in living cells , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[19]  T. Misteli,et al.  A Kinetic Framework for a Mammalian RNA Polymerase in Vivo , 2002, Science.

[20]  T. Hazelrigg,et al.  In vivo analyses of cytoplasmic transport and cytoskeletal organization during Drosophila oogenesis: characterization of a multi-step anterior localization pathway. , 1998, Development.

[21]  Philippe Rostaing,et al.  Diffusion Dynamics of Glycine Receptors Revealed by Single-Quantum Dot Tracking , 2003, Science.

[22]  Marija Vujcic,et al.  Activation of Silent Replication Origins at Autonomously Replicating Sequence Elements near the HML Locus in Budding Yeast , 1999, Molecular and Cellular Biology.

[23]  K. Kosik,et al.  CaMKIIα 3′ Untranslated Region-Directed mRNA Translocation in Living Neurons: Visualization by GFP Linkage , 2000, The Journal of Neuroscience.

[24]  Thomas Cremer,et al.  Chromosome order in HeLa cells changes during mitosis and early G1, but is stably maintained during subsequent interphase stages , 2003, The Journal of cell biology.

[25]  J. Segall,et al.  Intravital imaging of cell movement in tumours , 2003, Nature Reviews Cancer.

[26]  Richard N. Day,et al.  Fluorescent protein spectra. , 2001, Journal of cell science.

[27]  F S Fay,et al.  Visualization of single RNA transcripts in situ. , 1998, Science.

[28]  Anne E Carpenter,et al.  Ligand-Mediated Assembly and Real-Time Cellular Dynamics of Estrogen Receptor α-Coactivator Complexes in Living Cells , 2001, Molecular and Cellular Biology.

[29]  J. Raser,et al.  Control of Stochasticity in Eukaryotic Gene Expression , 2004, Science.

[30]  D. E. Wolf,et al.  Intranuclear diffusion and hybridization state of oligonucleotides measured by fluorescence correlation spectroscopy in living cells. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[31]  F S Fay,et al.  Superresolution three-dimensional images of fluorescence in cells with minimal light exposure. , 1995, Science.

[32]  R. Pepperkok,et al.  Spectral imaging and its applications in live cell microscopy , 2003, FEBS letters.

[33]  Robert H Singer,et al.  Gene expression and the myth of the average cell. , 2003, Trends in cell biology.

[34]  Michael D. Cahalan,et al.  Two-photon tissue imaging: seeing the immune system in a fresh light , 2002, Nature Reviews Immunology.

[35]  J. Walter,et al.  Regulation of Replicon Size in Xenopus Egg Extracts , 1997, Science.

[36]  J. Strouboulis,et al.  Stochastic patterns in globin gene expression are established prior to transcriptional activation and are clonally inherited. , 2002, Molecular cell.

[37]  T. Yanagida,et al.  Single-molecule visualization in cell biology. , 2003, Nature reviews. Molecular cell biology.

[38]  Gerald Kada,et al.  Properties of lipid microdomains in a muscle cell membrane visualized by single molecule microscopy , 2000, The EMBO journal.

[39]  E. R. Gavis,et al.  Live Imaging of Endogenous RNA Reveals a Diffusion and Entrapment Mechanism for nanos mRNA Localization in Drosophila , 2003, Current Biology.

[40]  S. Nie,et al.  Luminescent quantum dots for multiplexed biological detection and imaging. , 2002, Current opinion in biotechnology.

[41]  R. Singer,et al.  Localization of ASH1 mRNA particles in living yeast. , 1998, Molecular cell.

[42]  Paul S. Peercy,et al.  The drive to miniaturization , 2000, Nature.

[43]  R. Pepperkok,et al.  In vivo detection of snRNP‐rich organelles in the nuclei of mammalian cells. , 1991, The EMBO journal.

[44]  A. Ephrussi,et al.  Cytoplasmic flows localize injected oskar RNA in Drosophila oocytes , 1997, Current Biology.

[45]  A. Fisher,et al.  Expression of α- and β-globin genes occurs within different nuclear domains in haemopoietic cells , 2001, Nature Cell Biology.

[46]  Roland Eils,et al.  Global Chromosome Positions Are Transmitted through Mitosis in Mammalian Cells , 2003, Cell.

[47]  D. Spector,et al.  Visualization of gene activity in living cells , 2000, Nature Cell Biology.

[48]  T. Yanagida,et al.  Single-Molecule Analysis of Chemotactic Signaling in Dictyostelium Cells , 2001, Science.

[49]  S. Hell Toward fluorescence nanoscopy , 2003, Nature Biotechnology.

[50]  Timothy J Mitchison,et al.  Single-Molecule Speckle Analysis of Actin Filament Turnover in Lamellipodia , 2002, Science.

[51]  George H Patterson,et al.  Selective photolabeling of proteins using photoactivatable GFP. , 2004, Methods.

[52]  Robert H Singer,et al.  Materials and Methods Som Text Figs. S1 to S8 References and Notes Dynamics of Single Mrnps in Nuclei of Living Cells , 2022 .

[53]  Andrew S. Belmont,et al.  Interphase movements of a DNA chromosome region modulated by VP16 transcriptional activator , 2001, Nature Cell Biology.

[54]  Edouard Bertrand,et al.  Retroviral genomic RNAs are transported to the plasma membrane by endosomal vesicles. , 2003, Developmental cell.

[55]  R. Singer,et al.  Movement of nuclear poly(A) RNA throughout the interchromatin space in living cells , 1999, Current Biology.

[56]  Thomas Ried,et al.  From Silencing to Gene Expression Real-Time Analysis in Single Cells , 2004, Cell.

[57]  S. Gasser,et al.  Chromosome Dynamics in the Yeast Interphase Nucleus , 2001, Science.

[58]  Tom Misteli,et al.  Kinetic modelling approaches to in vivo imaging , 2001, Nature Reviews Molecular Cell Biology.

[59]  M. Hendzel,et al.  Rapid exchange of histone H1.1 on chromatin in living human cells , 2000, Nature.

[60]  J. Swedlow,et al.  A workingperson's guide to deconvolution in light microscopy. , 2001, BioTechniques.

[61]  Jeffrey W. Smith,et al.  Stochastic Gene Expression in a Single Cell , 2022 .

[62]  Toshio Yanagida,et al.  Single-molecule imaging of EGFR signalling on the surface of living cells , 2000, Nature Cell Biology.

[63]  RNA localization: visualization in real-time , 2003, Current Biology.

[64]  H. Tanke,et al.  Poly(A)+ RNAs roam the cell nucleus and pass through speckle domains in transcriptionally active and inactive cells , 2004, The Journal of cell biology.

[65]  Jason R. Swedlow,et al.  Cajal Body dynamics and association with chromatin are ATP-dependent , 2002, Nature Cell Biology.

[66]  G. Crabtree,et al.  Cell signaling can direct either binary or graded transcriptional responses , 2001, The EMBO journal.

[67]  J. McNally,et al.  The glucocorticoid receptor: rapid exchange with regulatory sites in living cells. , 2000, Science.

[68]  G. J. Brakenhoff,et al.  Four-dimensional imaging of chromatin dynamics during the assembly of the interphase nucleus , 2004, Chromosome Research.

[69]  M. Botchan,et al.  Separation of Origin Recognition Complex Functions by Cross-Species Complementation , 1995, Science.

[70]  M. Elowitz,et al.  A synthetic oscillatory network of transcriptional regulators , 2000, Nature.

[71]  Robert H. Singer,et al.  Single mRNA Molecules Demonstrate Probabilistic Movement in Living Mammalian Cells , 2003, Current Biology.

[72]  F. S. Fay,et al.  3D Fluorescence imaging of single cells using image restoration , 1990 .

[73]  Elmar Wahle,et al.  The intranuclear mobility of messenger RNA binding proteins is ATP dependent and temperature sensitive , 2002, The Journal of cell biology.

[74]  M. Hallek,et al.  Real-Time Single-Molecule Imaging of the Infection Pathway of an Adeno-Associated Virus , 2001, Science.

[75]  J. Carson,et al.  Transport and localization of exogenous myelin basic protein mRNA microinjected into oligodendrocytes , 1993, The Journal of cell biology.