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Fluorescent Energy Transfer Nucleic Acid Probes

Designs and Protocols

  • Book
  • © 2006

Overview

Editors:
  1. Vladimir V. Didenko

    1. Baylor College of Medicine, Houston

    View editor publications

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Part of the book series: Methods in Molecular Biology (MIMB, volume 335)

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Table of contents (22 protocols)

  1. Front Matter

    Pages i-xiv
    Download chapter PDF

  3. Energy Transfer Probes for DNA and RNA Hybridization Detection and Monitoring

    1. Front Matter

      Pages 31-31
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    2. Detection of DNA Hybridization Using Induced Fluorescence Resonance Energy Transfer

      • W. Mathias Howell
      Pages 33-41

    3. Detecting RNA/DNA Hybridization Using Double-Labeled Donor Probes With Enhanced Fluorescence Resonance Energy Transfer Signals

      • Yukio Okamura, Yuichiro Watanabe
      Pages 43-56

  4. Energy Transfer Probes for DNA Breaks Detection and DNA Cleavage Monitoring

    1. Front Matter

      Pages 57-57
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    2. Oscillating Probe for Dual Detection of 5'PO4 and 5'OH DNA Breaks in Tissue Sections

      • Vladimir V. Didenko
      Pages 59-69

    3. Using Molecular Beacons for Sensitive Fluorescence Assays of the Enzymatic Cleavage of Nucleic Acids

      • Chaoyong James Yang, Jeff Jianwei Li, Weihong Tan
      Pages 71-81

    4. A Continuous Assay for DNA Cleavage Using Molecular Break Lights

      • John B. Biggins, James R. Prudent, David J. Marshall, Jon S. Thorson
      Pages 83-92

  5. Monitoring of DNA Synthesis and Amplification Using Energy Transfer Probes

    1. Front Matter

      Pages 93-93
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    2. Homogenous Detection of Nucleic Acids Using Self-Quenched Polymerase Chain Reaction Primers Labeled With a Single Fluorophore (LUX™ Primers)

      • Irina Nazarenko
      Pages 95-114

    3. Use of Self-Quenched, Fluorogenic LUX™ Primers for Gene Expression Profiling

      • Wolfgang Kusser
      Pages 115-133

    4. TaqMan® Reverse Transcriptase-Polymerase Chain Reaction Coupled With Capillary Electrophoresis for Quantification and Identification of bcr-abl Transcript Type

      • Rajyalakshmi Luthra, L. Jeffrey Medeiros
      Pages 135-145

    5. Quantitative TaqMan® Assay for the Detection and Monitoring of Cytomegalovirus Infection in Organ Transplant Patients

      • Heli Piiparinen, Irmeli Lautenschlager
      Pages 147-156

    6. Real-Time Detection and Quantification of Telomerase Activity Utilizing Energy Transfer Primers

      • Hiroshi Uehara
      Pages 157-169

  6. DNA Sequence Analysis and Mutation Detection Using Fluorescence Energy Transfer

    1. Front Matter

      Pages 171-171
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    2. Invader® Assay for Single-Nucleotide Polymorphism Genotyping and Gene Copy Number Evaluation

      • Andrea Mast, Monika de Arruda
      Pages 173-186

    3. Real-Time Quantitative Polymerase Chain Reaction Analysis of Mitochondrial DNA Point Mutation

      • Lee-Jun C. Wong, Ren-Kui Bai
      Pages 187-200
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Keywords

About this book

Fluorescent nucleic acid probes, which use energy transfer, include such constructs as molecular beacons, molecular break lights, Scorpion primers, TaqMan probes, and others. These probes signal detection of their targets by changing either the intensity or the color of their fluorescence. Not surpr- ingly, these luminous, multicolored probes carry more flashy names than their counterparts in the other fields of molecular biology. In recent years, fluor- cent probes and assays, which make use of energy transfer, have multiplied at a high rate and have found numerous applications. However, in spite of this explosive growth in the field, there are no manuals summarizing different p- tocols and fluorescent probe designs. In view of this, the main objective of Fluorescent Energy Transfer Nucleic Acid Probes: Designs and Protocols is to provide such a collection. Oligonucleotides with one or several chromophore tags can form fluor- cent probes capable of energy transfer. Energy transport within the probe can occur via the resonance energy transfer mechanism, also called Förster tra- fer, or by non-Förster transfer mechanisms. Although the probes using Förster transfer were developed and used first, the later non-Förster-based probes, such as molecular beacons, now represent an attractive and widely used option. The term “fluorescent energy transfer probes” in the title of this book covers both Förster-based fluorescence resonance energy transfer (FRET) probes and probes using non-FRET mechanisms. Energy transfer probes serve as molecule-size sensors, changing their fluorescence upon detection of various DNA reactions.

Reviews

From the reviews:

"The content of the book provides a complete source of information in the DNA/RNA area and related fields. … In brief, the book is a useful, practical source of information. … The group of scientists and researchers … that forms the potential market for this book can be extended with an important category: undergraduate and graduate students and postdoctoral researchers. Some materials can be adapted for interdisciplinary courses in molecular life sciences." (Dr. Ton Visser, Molecular Biotechnology, Vol. 34, September, 2006)

"Fluorescence Energy Transfer Nucleic Acid Probes, Design and Protocols is a timely book. It is the first concise collection of fluorescence methods and assays used in exploring biomolecular structure, dynamic and interaction. … a rich compendium of information for the beginner in the field, as well as a source of ideas and inspiration for the advanced researcher. It is a book that should be on the shelf in all laboratories using fluorescent-probe techniques in biochemistry and molecular biology." (Sabine Müller, ChemBioChem, Vol. 8, 2007)

Editors and Affiliations

  • Baylor College of Medicine, Houston

    Vladimir V. Didenko

Bibliographic Information

  • Book Title: Fluorescent Energy Transfer Nucleic Acid Probes

  • Book Subtitle: Designs and Protocols

  • Editors: Vladimir V. Didenko

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1385/1597450693

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Humana Press 2006

  • Hardcover ISBN: 978-1-58829-380-0Published: 01 April 2006

  • Softcover ISBN: 978-1-61737-531-6Published: 09 December 2010

  • eBook ISBN: 978-1-59745-069-0Published: 04 February 2008

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XVI, 372

  • Number of Illustrations: 101 b/w illustrations, 3 illustrations in colour

  • Topics: Biochemistry, general, Cell Biology

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