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RNA Detection and Visualization

Methods and Protocols

  • Book
  • © 2011

Overview

Editors:
  1. Jeffrey E. Gerst

    1. , Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel

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  • Features methods and protocols relevant for both fixed and live cells from everything from bacteria to mammalian models
  • Provides detailed techniques from established and up-and-coming experts in the field
  • Includes vital notes on troubleshooting and avoiding known pitfalls for easier implementation of the methods

Part of the book series: Methods in Molecular Biology (MIMB, volume 714)

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Table of contents (28 protocols)

  1. Front Matter

    Pages i-xiv
    Download chapter PDF

  2. Visualizing mRNAs In Situ

    1. Front Matter

      Pages 1-1
      Download chapter PDF

    2. Single Molecule Imaging of RNA In Situ

      • Mona Batish, Arjun Raj, Sanjay Tyagi
      Pages 3-13

    3. FISH and Immunofluorescence Staining in Chlamydomonas

      • James Uniacke, Daniel Colón-Ramos, William Zerges
      Pages 15-29

    4. High Resolution Fluorescent In Situ Hybridization in Drosophila

      • Eric Lécuyer
      Pages 31-47

    5. Localization and Anchorage of Maternal mRNAs to Cortical Structures of Ascidian Eggs and Embryos Using High Resolution In Situ Hybridization

      • Alexandre Paix, Janet Chenevert, Christian Sardet
      Pages 49-70

    6. Visualization of mRNA Localization in Xenopus Oocytes

      • James A. Gagnon, Kimberly L. Mowry
      Pages 71-82

    7. Visualization of mRNA Expression in the Zebrafish Embryo

      • Yossy Machluf, Gil Levkowitz
      Pages 83-102

    8. High-Resolution Fluorescence In Situ Hybridization to Detect mRNAs in Neuronal Compartments In Vitro and In Vivo

      • Sharon A. Swanger, Gary J. Bassell, Christina Gross
      Pages 103-123

    9. Localization of mRNA in Vertebrate Axonal Compartments by In Situ Hybridization

      • José Roberto Sotelo-Silveira, Aldo Calliari, Alejandra Kun, Victoria Elizondo, Lucía Canclini, José Roberto Sotelo
      Pages 125-138

  3. Visualizing mRNAs In Vivo Using Molecular Probes or Reconstituted Fluorescent Proteins

    1. Front Matter

      Pages 139-139
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    2. Tiny Molecular Beacons for in vivo mRNA Detection

      • Diana P. Bratu, Irina E. Catrina, Salvatore A. E. Marras
      Pages 141-157

    3. Delivery of Molecular Beacons for Live-Cell Imaging and Analysis of RNA

      • Antony K. Chen, Won Jong Rhee, Gang Bao, Andrew Tsourkas
      Pages 159-174

    4. Genetically-Encoded Fluorescent Probes for Imaging Endogenous mRNA in Living Cells

      • Takeaki Ozawa, Yoshio Umezawa
      Pages 175-188

    5. Visualization of Induced RNA in Single Bacterial Cells

      • Azra Borogovac, Natalia E. Broude
      Pages 189-199

  4. Visualizing mRNAs In Vivo Using Aptamers and Intact Fluorescent Proteins

    1. Front Matter

      Pages 201-201
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    2. Visualizing mRNAs in Fixed and Living Yeast Cells

      • Franck Gallardo, Pascal Chartrand
      Pages 203-219

    3. In Vivo Visualization of RNA Using the U1A-Based Tagged RNA System

      • Sunglan Chung, Peter A. Takizawa
      Pages 221-235

    4. Visualizing Endogenous mRNAs in Living Yeast Using m-TAG, a PCR-Based RNA Aptamer Integration Method, and Fluorescence Microscopy

      • Liora Haim-Vilmovsky, Jeffrey E. Gerst
      Pages 237-247

    5. Imaging mRNAs in Living Mammalian Cells

      • Sharon Yunger, Yaron Shav-Tal
      Pages 249-263
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Keywords

About this book

With its complex and extensively regulated metabolism, the study of the RNA lifecycle demands tools that allow for the localization of RNAs to be observed either in an in situ setting or, preferably, under in vivo conditions.  In RNA Detection and Visualization: Methods and Protocols, the best and brightest investigators provide an up-to-date and in-depth description of basic methods and protocols used for detecting and visualizing mRNAs in both fixed and live cells, from bacteria to mammals.  For novices and experts alike, this mix of classic in situ hybridization and advanced live imaging techniques, cell fractionation and affinity purification procedures, and bioinformatics tools gives researchers the most complete and extensive array of research aids possible. As a volume written in the highly successful Methods in Molecular Biology™ series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and expert tips on troubleshooting and avoiding known pitfalls.

 

Authoritative and cutting-edge, RNA Detection and Visualization: Methods and Protocols offers well-honed techniques in order to inspire researchers around the world to further our knowledge of the vital biological significance of RNA.

Editors and Affiliations

  • , Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel

    Jeffrey E. Gerst

Bibliographic Information

  • Book Title: RNA Detection and Visualization

  • Book Subtitle: Methods and Protocols

  • Editors: Jeffrey E. Gerst

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-61779-005-8

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC 2011

  • Hardcover ISBN: 978-1-61779-004-1Published: 06 April 2011

  • Softcover ISBN: 978-1-4939-5836-8Published: 23 August 2016

  • eBook ISBN: 978-1-61779-005-8Published: 23 March 2011

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XIV, 497

  • Topics: Cell Biology, Nucleic Acid Chemistry

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