Literature DB >> 22289464

Probes for intracellular RNA imaging in live cells.

Philip J Santangelo1, Eric Alonas, Jeenah Jung, Aaron W Lifland, Chiara Zurla.   

Abstract

RNA localization, dynamics, and regulation are becoming increasingly important to our basic understanding of gene expression and RNA virus pathogenesis. An improved understanding of these processes will be necessary in order to identify new drug targets, as well as to create models of gene expression networks. Much of this new understanding will likely come from imaging studies of RNA, which can generate the spatiotemporal information necessary to characterize RNA within the cellular milieu. Ideally, this would be performed imaging native, nonengineered RNAs, but the approaches for performing these experiments are still evolving. In order for them to reach their potential, it is critical that they have characteristics that allow for the tracking of RNA throughout their life cycle. This chapter presents an overview of RNA imaging methodologies, and focuses on a single RNA sensitive method, employing exogenous probes, for imaging, native, nonengineered RNA in live cells.
Copyright © 2012 Elsevier Inc. All rights reserved.

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Year:  2012        PMID: 22289464      PMCID: PMC3307217          DOI: 10.1016/B978-0-12-388448-0.00028-0

Source DB:  PubMed          Journal:  Methods Enzymol        ISSN: 0076-6879            Impact factor:   1.600


  62 in total

1.  Dynamics of native β-actin mRNA transport in the cytoplasm.

Authors:  Aaron W Lifland; Chiara Zurla; Joana Yu; Philip J Santangelo
Journal:  Traffic       Date:  2011-05-18       Impact factor: 6.215

Review 2.  RNA granules: post-transcriptional and epigenetic modulators of gene expression.

Authors:  Paul Anderson; Nancy Kedersha
Journal:  Nat Rev Mol Cell Biol       Date:  2009-06       Impact factor: 94.444

3.  Stress granules.

Authors:  Paul Anderson; Nancy Kedersha
Journal:  Curr Biol       Date:  2009-05-26       Impact factor: 10.834

Review 4.  Molecular beacons and related probes for intracellular RNA imaging.

Authors:  Philip J Santangelo
Journal:  Wiley Interdiscip Rev Nanomed Nanobiotechnol       Date:  2010 Jan-Feb

5.  Global quantification of mammalian gene expression control.

Authors:  Björn Schwanhäusser; Dorothea Busse; Na Li; Gunnar Dittmar; Johannes Schuchhardt; Jana Wolf; Wei Chen; Matthias Selbach
Journal:  Nature       Date:  2011-05-19       Impact factor: 49.962

Review 6.  Validating transcripts with probes and imaging technology.

Authors:  Shalev Itzkovitz; Alexander van Oudenaarden
Journal:  Nat Methods       Date:  2011-03-30       Impact factor: 28.547

7.  Respiratory syncytial virus induces host RNA stress granules to facilitate viral replication.

Authors:  Michael E Lindquist; Aaron W Lifland; Thomas J Utley; Philip J Santangelo; James E Crowe
Journal:  J Virol       Date:  2010-09-15       Impact factor: 5.103

8.  Characterizing mRNA interactions with RNA granules during translation initiation inhibition.

Authors:  Chiara Zurla; Aaron W Lifland; Philip J Santangelo
Journal:  PLoS One       Date:  2011-05-05       Impact factor: 3.240

9.  A transgenic mouse for in vivo detection of endogenous labeled mRNA.

Authors:  Timothée Lionnet; Kevin Czaplinski; Xavier Darzacq; Yaron Shav-Tal; Amber L Wells; Jeffrey A Chao; Hye Yoon Park; Valeria de Turris; Melissa Lopez-Jones; Robert H Singer
Journal:  Nat Methods       Date:  2011-01-16       Impact factor: 28.547

10.  Resolving cell population heterogeneity: real-time PCR for simultaneous multiplexed gene detection in multiple single-cell samples.

Authors:  Alan Diercks; Heather Kostner; Adrian Ozinsky
Journal:  PLoS One       Date:  2009-07-27       Impact factor: 3.240

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  11 in total

1.  Dynamic visualization of transcription and RNA subcellular localization in zebrafish.

Authors:  Philip D Campbell; Jeffrey A Chao; Robert H Singer; Florence L Marlow
Journal:  Development       Date:  2015-03-10       Impact factor: 6.868

Review 2.  The dynamic pathway of nuclear RNA in eukaryotes.

Authors:  Jonathan Sheinberger; Yaron Shav-Tal
Journal:  Nucleus       Date:  2013-04-11       Impact factor: 4.197

3.  Split Spinach Aptamer for Highly Selective Recognition of DNA and RNA at Ambient Temperatures.

Authors:  Nanami Kikuchi; Dmitry M Kolpashchikov
Journal:  Chembiochem       Date:  2016-07-15       Impact factor: 3.164

4.  Post-transcriptional regulation of programmed cell death 4 (PDCD4) mRNA by the RNA-binding proteins human antigen R (HuR) and T-cell intracellular antigen 1 (TIA1).

Authors:  Callie P Wigington; Jeenah Jung; Emily A Rye; Sara L Belauret; Akahne M Philpot; Yue Feng; Philip J Santangelo; Anita H Corbett
Journal:  J Biol Chem       Date:  2014-12-17       Impact factor: 5.157

5.  Live-cell imaging of mammalian RNAs with Spinach2.

Authors:  Rita L Strack; Samie R Jaffrey
Journal:  Methods Enzymol       Date:  2015-01-06       Impact factor: 1.600

6.  A Novel Method to Quantify RNA-Protein Interactions In Situ Using FMTRIP and Proximity Ligation.

Authors:  C Zurla; J Jung; E L Blanchard; P J Santangelo
Journal:  Methods Mol Biol       Date:  2017

7.  RNA Imaging with Dimeric Broccoli in Live Bacterial and Mammalian Cells.

Authors:  Grigory S Filonov; Samie R Jaffrey
Journal:  Curr Protoc Chem Biol       Date:  2016-03-16

Review 8.  Nucleic Acid-Based Nanodevices in Biological Imaging.

Authors:  Kasturi Chakraborty; Aneesh T Veetil; Samie R Jaffrey; Yamuna Krishnan
Journal:  Annu Rev Biochem       Date:  2016-06-02       Impact factor: 23.643

Review 9.  Can we observe changes in mRNA "state"? Overview of methods to study mRNA interactions with regulatory proteins relevant in cancer related processes.

Authors:  C Zurla; J Jung; P J Santangelo
Journal:  Analyst       Date:  2016-01-21       Impact factor: 4.616

10.  MiR-21 in the extracellular vesicles (EVs) of cerebrospinal fluid (CSF): a platform for glioblastoma biomarker development.

Authors:  Johnny C Akers; Valya Ramakrishnan; Ryan Kim; Johan Skog; Ichiro Nakano; Sandeep Pingle; Juliya Kalinina; Wei Hua; Santosh Kesari; Ying Mao; Xandra O Breakefield; Fred H Hochberg; Erwin G Van Meir; Bob S Carter; Clark C Chen
Journal:  PLoS One       Date:  2013-10-21       Impact factor: 3.240

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