Literature DB >> 26607475

The Toolbox for Modified Aptamers.

Sergey A Lapa1, Alexander V Chudinov2, Edward N Timofeev2.   

Abstract

Aptamers are nucleic acid-based scaffolds that can bind with high affinity to a variety of biological targets. Aptamers are identified from large DNA or RNA libraries through a process of directed molecular evolution (SELEX). Chemical modification of nucleic acids considerably increases the functional and structural diversity of aptamer libraries and substantially increases the affinity of the aptamers. Additionally, modified aptamers exhibit much greater resistance to biodegradation. The evolutionary selection of modified aptamers is conditioned by the possibility of the enzymatic synthesis and replication of non-natural nucleic acids. Wild-type or mutant polymerases and their non-natural nucleotide substrates that can support SELEX are highlighted in the present review. A focus is made on the efforts to find the most suitable type of nucleotide modifications and the engineering of new polymerases. Post-SELEX modification as a complementary method will be briefly considered as well.

Entities:  

Keywords:  Aptamer; Modification; Molecular evolution; Non-natural nucleoside triphosphates; Nucleic acids; Nucleotides; PCR; Polymerases; Primer extension; SELEX

Mesh:

Substances:

Year:  2016        PMID: 26607475     DOI: 10.1007/s12033-015-9907-9

Source DB:  PubMed          Journal:  Mol Biotechnol        ISSN: 1073-6085            Impact factor:   2.695


  116 in total

1.  Quantitative analysis of receptors for adenosine nucleotides obtained via in vitro selection from a library incorporating a cationic nucleotide analog.

Authors:  T R Battersby; D N Ang; P Burgstaller; S C Jurczyk; M T Bowser; D D Buchanan; R T Kennedy; S A Benner
Journal:  J Am Chem Soc       Date:  1999       Impact factor: 15.419

2.  Probing minor groove recognition contacts by DNA polymerases and reverse transcriptases using 3-deaza-2'-deoxyadenosine.

Authors:  Cynthia L Hendrickson; Kevin G Devine; Steven A Benner
Journal:  Nucleic Acids Res       Date:  2004-04-23       Impact factor: 16.971

3.  High-density polymerase-mediated incorporation of fluorochrome-labeled nucleotides.

Authors:  Arvind Ramanathan; Louise Pape; David C Schwartz
Journal:  Anal Biochem       Date:  2005-02-01       Impact factor: 3.365

4.  GFP-like fluorophores as DNA labels for studying DNA-protein interactions.

Authors:  Jan Riedl; Petra Ménová; Radek Pohl; Petr Orság; Miroslav Fojta; Michal Hocek
Journal:  J Org Chem       Date:  2012-09-11       Impact factor: 4.354

Review 5.  Thrombin binding aptamer, more than a simple aptamer: chemically modified derivatives and biomedical applications.

Authors:  Anna Avino; Carme Fabrega; Maria Tintore; Ramon Eritja
Journal:  Curr Pharm Des       Date:  2012       Impact factor: 3.116

6.  Anomeric DNA quadruplexes.

Authors:  Natalia A Kolganova; Anna M Varizhuk; Roman A Novikov; Vladimir L Florentiev; Galina E Pozmogova; Olga F Borisova; Anna K Shchyolkina; Igor P Smirnov; Dmitry N Kaluzhny; Edward N Timofeev
Journal:  Artif DNA PNA XNA       Date:  2014

7.  Incorporation of reporter molecule-labeled nucleotides by DNA polymerases. I. Chemical synthesis of various reporter group-labeled 2'-deoxyribonucleoside-5'-triphosphates.

Authors:  Gerald Giller; Taurai Tasara; Bernhard Angerer; Klaus Mühlegger; Mario Amacker; Holger Winter
Journal:  Nucleic Acids Res       Date:  2003-05-15       Impact factor: 16.971

8.  Directed evolution of DNA polymerase, RNA polymerase and reverse transcriptase activity in a single polypeptide.

Authors:  Jennifer L Ong; David Loakes; Szymon Jaroslawski; Kathleen Too; Philipp Holliger
Journal:  J Mol Biol       Date:  2006-07-05       Impact factor: 5.469

9.  Systematic characterization of 2'-deoxynucleoside- 5'-triphosphate analogs as substrates for DNA polymerases by polymerase chain reaction and kinetic studies on enzymatic production of modified DNA.

Authors:  Masayasu Kuwahara; Jun-ichi Nagashima; Masatoshi Hasegawa; Takehiro Tamura; Rina Kitagata; Kazuo Hanawa; Shin-ichi Hososhima; Toshiyuki Kasamatsu; Hiroaki Ozaki; Hiroaki Sawai
Journal:  Nucleic Acids Res       Date:  2006-09-29       Impact factor: 16.971

10.  Structures of an apo and a binary complex of an evolved archeal B family DNA polymerase capable of synthesising highly cy-dye labelled DNA.

Authors:  Samantha A Wynne; Vitor B Pinheiro; Philipp Holliger; Andrew G W Leslie
Journal:  PLoS One       Date:  2013-08-05       Impact factor: 3.240

View more
  18 in total

1.  DNA display of folded RNA libraries enabling RNA-SELEX without reverse transcription.

Authors:  I S MacPherson; J S Temme; I J Krauss
Journal:  Chem Commun (Camb)       Date:  2017-03-02       Impact factor: 6.222

2.  Factors Affecting the Tailing of Blunt End DNA with Fluorescent Pyrimidine dNTPs.

Authors:  Natalia A Kolganova; Vadim A Vasiliskov; Viktoriya E Kuznetsova; Valeriy E Shershov; Sergey A Lapa; Timur O Guseinov; Maksim A Spitsyn; Edward N Timofeev; Alexander V Chudinov
Journal:  Mol Biotechnol       Date:  2018-12       Impact factor: 2.695

Review 3.  In vitro evolution of chemically-modified nucleic acid aptamers: Pros and cons, and comprehensive selection strategies.

Authors:  Farhana Lipi; Suxiang Chen; Madhuri Chakravarthy; Shilpa Rakesh; Rakesh N Veedu
Journal:  RNA Biol       Date:  2016-10-07       Impact factor: 4.652

4.  Mass-spectrometry analysis of modifications at DNA termini induced by DNA polymerases.

Authors:  Igor P Smirnov; Natalia A Kolganova; Vadim A Vasiliskov; Alexander V Chudinov; Edward N Timofeev
Journal:  Sci Rep       Date:  2017-07-27       Impact factor: 4.379

Review 5.  Key Aspects of Nucleic Acid Library Design for in Vitro Selection.

Authors:  Maria A Vorobyeva; Anna S Davydova; Pavel E Vorobjev; Alya G Venyaminova
Journal:  Int J Mol Sci       Date:  2018-02-05       Impact factor: 5.923

Review 6.  Chemical Modification of Aptamers for Increased Binding Affinity in Diagnostic Applications: Current Status and Future Prospects.

Authors:  Jan P Elskens; Joke M Elskens; Annemieke Madder
Journal:  Int J Mol Sci       Date:  2020-06-25       Impact factor: 5.923

7.  Development of Optimized Inhibitor RNAs Allowing Multisite-Targeting of the HCV Genome.

Authors:  Cristina Romero-López; Thomas Lahlali; Beatriz Berzal-Herranz; Alfredo Berzal-Herranz
Journal:  Molecules       Date:  2017-05-22       Impact factor: 4.411

8.  N4-acyl-2'-deoxycytidine-5'-triphosphates for the enzymatic synthesis of modified DNA.

Authors:  Jevgenija Jakubovska; Daiva Tauraite; Lukas Birštonas; Rolandas Meškys
Journal:  Nucleic Acids Res       Date:  2018-07-06       Impact factor: 16.971

Review 9.  Modified Nucleoside Triphosphates for In-vitro Selection Techniques.

Authors:  María A Dellafiore; Javier M Montserrat; Adolfo M Iribarren
Journal:  Front Chem       Date:  2016-05-04       Impact factor: 5.221

10.  Post-ExSELEX stabilization of an unnatural-base DNA aptamer targeting VEGF165 toward pharmaceutical applications.

Authors:  Michiko Kimoto; Mana Nakamura; Ichiro Hirao
Journal:  Nucleic Acids Res       Date:  2016-07-07       Impact factor: 16.971

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.