Nucleic Acid Aptamers: Selection, Characterization, and Application

ISBN-13: 9781493931965 / Angielski / Twarda / 2015 / 242 str.

Gunter Mayer

Opis

This volume provides protocol references covering recent developments in the aptamer field. Within the last decade, aptamers have become more and more popular, and their sophisticated biophysical properties together with their ability to be easily modified and, thus, adapted to various regimens makes them a very promising class of compounds. Divided into three sections, the book covers selection, a series of analytical methods to assess biophysical properties of aptamer-target interactions, as well as various applications of aptamers. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.Practical and easy to follow, Nucleic Acid Aptamers: Selection, Characterization, and Application provides a state-of-the-art summary of recent developments in the aptamer field and will be a helpful resource for scientists in the life sciences working with aptamers as tools to elucidate biological systems.

Spis treści

Part I: Selection

 

1. Selection of Aptamers for Metabolite Sensing and Construction of Optical Nanosensors

            Yi Long, Franziska Pfeiffer, Günter Mayer, Tine Daa Schrøder, Veli Cengiz Özalp, and Lars Folke Olsen

 

2. SELEX of Cell-Specific RNA Aptamers

            Katharina Berg, Eileen Magbanua, and Ulrich Hahn

 

3. Developing Aptamers by Cell-Based SELEX

            Silvia Catuogno, Carla Lucia Esposito, and Vittorio de Franciscis

 

4. DNA Aptamer Generation by Genetic Alphabet Expansion SELEX (ExSELEX) Using an Unnatural Base Pair System

            Michiko Kimoto, Ken-Ichiro Matsunaga, and Ichiro Hirao

 

5. Capillary Electrophoresis for the Selection of DNA Aptamers Recognizing Activated Protein C

            Nasim Shahidi Hamedani and Jens Müller

 

6. Preparation of SELEX Samples for Next-Generation Sequencing

            Fabian Tolle and Günter Mayer

 

7. Next Generation Analysis of Deep Sequencing Data: Bringing Light into the Black Box of SELEX Experiments

            Michael Blank

 

Part II: Characterization

 

8. Aptamer Binding Studies Using MicroScale Thermophoresis

            Dennis Breitsprecher, Nina Schlinck, David Witte, Stefan Duhr, Philipp Baaske, and Thomas Schubert

 

9. Label-Free Determination of the Dissociation Constant of Small Molecule-Aptamer Interaction by Isothermal Titration Calorimetry

            Marc Vogel and Beatrix Suess

 

10. Applications of Aptamers in Flow and Imaging Cytometry

            Isis C. Nascimento, Arthur A. Nery, Vinicius Bassaneze, José E. Krieger, and Henning Ulrich

 

11. In Vitro and In Vivo Imaging of Fluorescent Aptamers

            Ioanna Théodorou, Nam Nguyen Quang, Karine Gombert, Benoit Thézé, Benoit Lelandais, and Frédéric Ducongé

 

12. Crystallographic Pursuit of a Protein-RNA Aptamer Complex

            John J.G. Tesmer

 

Part III: Application

 

13. Voltammetric Aptasensor Based on Magnetic Beads Assay for Detection of Human Activated Protein C

            Arzum Erdem, Gulsah Congur, and Ece Eksin

 

14. Apta-PCR

            Alessandro Pinto, Pedro Nadal Polo, Marketa Svobodova, Teresa Mairal Lerga, and Ciara K. O’Sullivan

 

15. Aptamer-Based Enzyme-Capture-Assay for Measurement of Plasma Thrombin Levels

            Jens Müller, Tobias Becher, Günter Mayer, and Bernd Pötzsch

 

16. Application of Aptamers in Histopathology

            Sarah Shigdar, Li Lv, Lifen Wang, and Wei Duan

 

17. Aptamer Stainings for Super-Resolution Microscopy

            Maria Angela Gomes de Castro, Burkhard Rammner, and Felipe Opazo

 

18. Synthesis and Characterization of Aptamer Targeted SNALPs for the Delivery of siRNA

            Samantha E. Wilner and Matthew Levy

 

19. Screening of Genetic Switches Based on the Twister Ribozyme Motif

            Michele Felletti, Benedikt Klauser, and Jörg S. Hartig