Non-Natural Nucleic Acids: Methods and Protocols

ISBN-13: 9781493992188 / Angielski / Miękka / 2020 / 315 str.

Nathaniel Shank

Opis

This volume provides relevant synthetic strategies, incorporation, and applications of non-natural nucleic acids. Chapters detail monomer synthesis, oligomer synthesis/construction, and applications allowing researchers to explore and determine which methodology or methodologies are relevant to their needs. 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 tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Non-Natural Nucleic Acids: Methods and Protocols aims to serve as a guide for researchers exploring their own inquiries and to provide a springboard for new endeavors.

Spis treści

1. Synthesis and Enzymatic Characterization of Sugar-Modified Nucleoside Triphosphate Analogs

            Stella Diafa, Damien Evéquoz, Christian J. Leumann, and Marcel Hollenstein

 

2. Synthesis of Site-Specific Crown Ether Adducts to DNA Abasic Sites, 8-Oxo-7,8-Dihydro-2’-Deoxyguanosine and 2’-Deoxycytidine

            Na An, Aaron M. Fleming, Nicole C. Rosecrans, Yi Liao, and Cynthia J. Burrows

 

3. Synthesis of a Fluorescent Cytidine TNA Triphosphate Analogue

            Hui Mei and John Chaput

 

4. Synthesis of Base-Modified dNTPs through Cross-Coupling Reactions and Their Polymerase Incorporation to DNA

            Petra Ménová, Hana Cahová, Milan Vrábel, and Michal Hocek

 

5. 2ʹ-C,4ʹ-C-Ethyleneoxy-Bridged 2ʹ-Deoxyribonucleic Acids (EoDNAs) with Thymine Nucleobases: Synthesis, Duplex-Forming Ability, and Enzymatic Stability

            Takashi Osawa, Satoshi Obika, and Yoshiyuki Hari

 

6. Synthesis Protocols for Simple Uncharged Glycol Carbamate Nucleic Acids

            Tanaya Bose and Vaijayanti A. Kumar

 

7. Synthesis of Nucleobase-Functionalized Morpholino Monomers

            Bappaditya Nandi, Sankha Pattanayak, Sibasish Paul, Jayanta Kundu, and Surajit Sinha

 

8. Synthesis and Application of ^LKγT Peptide Nucleic Acids

            Nathaniel Shank, Kara M. George Rosenker, Ethan A. Englund, Andrew V. Dix, Elizabeth E. Rastede, and Daniel H. Appella

 

9. Aminoglycoside Functionalization as a Tool for Targeting Nucleic Acids

            Derrick Watkins, Krishnagopal Maiti, and Dev P. Arya

 

10. Preparation and Purification of Oligodeoxynucleotide Duplexes Containing a Site-Specific, Reduced, Chemically-Stable Covalent Interstrand Cross-Link between a Guanine Residue and an Abasic Site

            Maryam Imani Nejad, Xu Guo, Kurt Housh, Christopher Nel, Zhiyu Yang, Nathan E. Price, Yinsheng Wang, and Kent S. Gates

 

11. Copper-Catalyzed Alkyne-Azide Cycloaddition on the Solid Phase for the Preparation of Fully Click-Modified Nucleic Acids

            Malte Rosenthal, Franziska Pfeiffer, and Günter Mayer

 

12. Labeling Peptide Nucleic Acids with Indium-111

            Igor G. Panyutin

 

13. Site-Specific Labeling of DNA via PCR with an Expanded Genetic Alphabet

            Michael P. Ledbetter, Denis A. Malyshev, and Floyd E. Romesberg

 

14. Flexible Nucleic Acids (FNAs) As Informational Molecules:  Enzymatic Polymerization of fNTPs on DNA Templates and Nonenzymatic Oligomerization of RNA on FNA Templates

            Maryline Chemama and Christopher Switzer

 

15. Artificial Nucleosides as Diagnostic Probes to Measure Translesion DNA Synthesis

            Jung-Suk Choi and Anthony Berdis

 

16. FRET Assay for Ligands Targeting the Bacterial A-Site RNA

            Renatus W. Sinkeldam and Yitzhak Tor

 

17. The Use of Serinol Nucleic Acids as Ultrasensitive Molecular Beacons

            Keiji Murayama, Hiromu Kashida, and Hiroyuki Asanuma

 

18. Oligonucleotide Primers with G^8AE-Clamp Modifications for RT-qPCR Detection of the Low-Copy dsRNA

            Timofei S. Zatsepin, Anna M. Varizhuk, Vladimir G. Dedkov, German A. Shipulin, and Andrey V. Aralov

 

19. Determining Steady-State Kinetics of DNA Polymerase Nucleotide Incorporation

            Hailey L. Gahlon and Shana J. Sturla