Literature DB >> 19404252

Imaging intracellular RNA distribution and dynamics in living cells.

Sanjay Tyagi1.   

Abstract

Powerful methods now allow the imaging of specific mRNAs in living cells. These methods enlist fluorescent proteins to illuminate mRNAs, use labeled oligonucleotide probes and exploit aptamers that render organic dyes fluorescent. The intracellular dynamics of mRNA synthesis, transport and localization can be analyzed at higher temporal resolution with these methods than has been possible with traditional fixed-cell or biochemical approaches. These methods have also been adopted to visualize and track single mRNA molecules in real time. This review explores the promises and limitations of these methods.

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Year:  2009        PMID: 19404252     DOI: 10.1038/nmeth.1321

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


  76 in total

1.  Efficiencies of fluorescence resonance energy transfer and contact-mediated quenching in oligonucleotide probes.

Authors:  Salvatore A E Marras; Fred Russell Kramer; Sanjay Tyagi
Journal:  Nucleic Acids Res       Date:  2002-11-01       Impact factor: 16.971

2.  Intramolecular dimers: a new strategy to fluorescence quenching in dual-labeled oligonucleotide probes.

Authors:  Mary Katherine Johansson; Henk Fidder; Daren Dick; Ronald M Cook
Journal:  J Am Chem Soc       Date:  2002-06-19       Impact factor: 15.419

3.  Prioritized selection of oligodeoxyribonucleotide probes for efficient hybridization to RNA transcripts.

Authors:  Kevin J Luebke; Robert P Balog; Harold R Garner
Journal:  Nucleic Acids Res       Date:  2003-01-15       Impact factor: 16.971

4.  Imaging of RNA in bacteria with self-ligating quenched probes.

Authors:  Shinsuke Sando; Eric T Kool
Journal:  J Am Chem Soc       Date:  2002-08-21       Impact factor: 15.419

Review 5.  Advances in fluorescent tracking of nucleic acids in living cells.

Authors:  Roeland W Dirks; Hans J Tanke
Journal:  Biotechniques       Date:  2006-04       Impact factor: 1.993

6.  Molecular beacons: Fluorescent probes for detection of endogenous mRNAs in living cells.

Authors:  Diana P Bratu
Journal:  Methods Mol Biol       Date:  2006

7.  Live-cell characterization and analysis of a clinical isolate of bovine respiratory syncytial virus, using molecular beacons.

Authors:  Philip Santangelo; Nitin Nitin; Leslie LaConte; Amelia Woolums; Gang Bao
Journal:  J Virol       Date:  2006-01       Impact factor: 5.103

8.  Intracellular distribution of microinjected antisense oligonucleotides.

Authors:  J P Leonetti; N Mechti; G Degols; C Gagnor; B Lebleu
Journal:  Proc Natl Acad Sci U S A       Date:  1991-04-01       Impact factor: 11.205

9.  RNA dynamics in live Escherichia coli cells.

Authors:  Ido Golding; Edward C Cox
Journal:  Proc Natl Acad Sci U S A       Date:  2004-07-26       Impact factor: 11.205

10.  Visualization of RNA-protein interactions in living cells: FMRP and IMP1 interact on mRNAs.

Authors:  Oliver Rackham; Chris M Brown
Journal:  EMBO J       Date:  2004-07-29       Impact factor: 11.598

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  125 in total

Review 1.  Transcription goes digital.

Authors:  Timothée Lionnet; Robert H Singer
Journal:  EMBO Rep       Date:  2012-04-02       Impact factor: 8.807

2.  Tiny molecular beacons: LNA/2'-O-methyl RNA chimeric probes for imaging dynamic mRNA processes in living cells.

Authors:  Irina E Catrina; Salvatore A E Marras; Diana P Bratu
Journal:  ACS Chem Biol       Date:  2012-07-06       Impact factor: 5.100

3.  In vitro selection of structure-switching, self-reporting aptamers.

Authors:  Seung Soo Oh; Kory Plakos; Xinhui Lou; Yi Xiao; H Tom Soh
Journal:  Proc Natl Acad Sci U S A       Date:  2010-07-26       Impact factor: 11.205

4.  Balbiani ring mRNPs diffuse through and bind to clusters of large intranuclear molecular structures.

Authors:  Roman Veith; Thomas Sorkalla; Eugen Baumgart; Johannes Anzt; Hanns Häberlein; Sanjay Tyagi; Jan Peter Siebrasse; Ulrich Kubitscheck
Journal:  Biophys J       Date:  2010-10-20       Impact factor: 4.033

5.  Single-mRNA counting using fluorescent in situ hybridization in budding yeast.

Authors:  Tatjana Trcek; Jeffrey A Chao; Daniel R Larson; Hye Yoon Park; Daniel Zenklusen; Shailesh M Shenoy; Robert H Singer
Journal:  Nat Protoc       Date:  2012-02-02       Impact factor: 13.491

6.  Molecular-beacon-based tricomponent probe for SNP analysis in folded nucleic acids.

Authors:  Camha Nguyen; Jeffrey Grimes; Yulia V Gerasimova; Dmitry M Kolpashchikov
Journal:  Chemistry       Date:  2011-09-28       Impact factor: 5.236

Review 7.  Using variability in gene expression as a tool for studying gene regulation.

Authors:  Olivia Padovan-Merhar; Arjun Raj
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2013-08-29

8.  FISH-Flow, a protocol for the concurrent detection of mRNA and protein in single cells using fluorescence in situ hybridization and flow cytometry.

Authors:  Riccardo Arrigucci; Yuri Bushkin; Felix Radford; Karim Lakehal; Pooja Vir; Richard Pine; December Martin; Jeffrey Sugarman; Yanlin Zhao; George S Yap; Alfred A Lardizabal; Sanjay Tyagi; Maria Laura Gennaro
Journal:  Nat Protoc       Date:  2017-05-18       Impact factor: 13.491

9.  Ultraspecific and highly sensitive nucleic acid detection by integrating a DNA catalytic network with a label-free microcavity.

Authors:  Yuqiang Wu; David Yu Zhang; Peng Yin; Frank Vollmer
Journal:  Small       Date:  2014-02-28       Impact factor: 13.281

10.  A single molecule view on Dbp5 and mRNA at the nuclear pore.

Authors:  Tim Kaminski; Jan Peter Siebrasse; Ulrich Kubitscheck
Journal:  Nucleus       Date:  2013-01-01       Impact factor: 4.197

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