Literature DB >> 35635696

Atomic Force Microscopy of DNA and DNA-Protein Interactions.

Philip J Haynes1,2,3, Kavit H S Main1,4, Bernice Akpinar1,2, Alice L B Pyne5,6.   

Abstract

Atomic force microscopy (AFM) is a microscopy technique that uses a sharp probe to trace a sample surface at nanometer resolution. For biological applications, one of its key advantages is its ability to visualize the substructure of single molecules and molecular complexes in an aqueous environment. Here, we describe the application of AFM to determine the secondary and tertiary structure of surface-bound DNA, and its interactions with proteins.
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Entities:  

Keywords:  AFM; Atomic force microscopy; DNA; DNA-protein binding; Double helix; Supercoiling

Mesh：

Substances：

Year:  2022        PMID： 35635696     DOI： 10.1007/978-1-0716-2221-6_5

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  20 in total

1.  Atomic force microscopy with nanoscale cantilevers resolves different structural conformations of the DNA double helix.

Authors:  Carl Leung; Aizhan Bestembayeva; Richard Thorogate; Jake Stinson; Alice Pyne; Christian Marcovich; Jinling Yang; Ute Drechsler; Michel Despont; Tilo Jankowski; Martin Tschöpe; Bart W Hoogenboom
Journal:  Nano Lett       Date:  2012-06-29       Impact factor: 11.189

2.  Atomic force microscopy study of DNA conformation in the presence of drugs.

Authors:  Valeria Cassina; Davide Seruggia; Giovanni Luca Beretta; Domenico Salerno; Doriano Brogioli; Stefano Manzini; Franco Zunino; Francesco Mantegazza
Journal:  Eur Biophys J       Date:  2010-09-30       Impact factor: 1.733

3.  Folding DNA to create nanoscale shapes and patterns.

Authors:  Paul W K Rothemund
Journal:  Nature       Date:  2006-03-16       Impact factor: 49.962

4.  Exploring writhe in supercoiled minicircle DNA.

Authors:  Jonathan M Fogg; Natalia Kolmakova; Ian Rees; Sergei Magonov; Helen Hansma; John J Perona; E Lynn Zechiedrich
Journal:  J Phys Condens Matter       Date:  2006-04-12       Impact factor: 2.333

5.  Dynamics of nucleosomes assessed with time-lapse high-speed atomic force microscopy.

Authors:  Atsushi Miyagi; Toshio Ando; Yuri L Lyubchenko
Journal:  Biochemistry       Date:  2011-08-23       Impact factor: 3.162

6.  Beyond the helix pitch: direct visualization of native DNA in aqueous solution.

Authors:  Shinichiro Ido; Kenjiro Kimura; Noriaki Oyabu; Kei Kobayashi; Masaru Tsukada; Kazumi Matsushige; Hirofumi Yamada
Journal:  ACS Nano       Date:  2013-02-04       Impact factor: 15.881

7.  Single-molecule reconstruction of oligonucleotide secondary structure by atomic force microscopy.

Authors:  Alice Pyne; Ruth Thompson; Carl Leung; Debdulal Roy; Bart W Hoogenboom
Journal:  Small       Date:  2014-04-17       Impact factor: 13.281

8.  Analysis of single, cisplatin-induced DNA bends by atomic force microscopy and simulations.

Authors:  Samrat Dutta; Claudio Rivetti; Natalie R Gassman; Carl G Young; Bradley T Jones; Karin Scarpinato; Martin Guthold
Journal:  J Mol Recognit       Date:  2018-06-03       Impact factor: 2.137

9.  Nanoscale Nucleosome Dynamics Assessed with Time-lapse AFM.

Authors:  Yuri L Lyubchenko
Journal:  Biophys Rev       Date:  2014-06-01

10.  Capturing transient antibody conformations with DNA origami epitopes.

Authors:  Ping Zhang; Xiaoguo Liu; Pi Liu; Fei Wang; Hirotaka Ariyama; Toshio Ando; Jianping Lin; Lihua Wang; Jun Hu; Bin Li; Chunhai Fan
Journal:  Nat Commun       Date:  2020-06-19       Impact factor: 14.919
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  1 in total

Review 1.  A Critical Review on the Sensing, Control, and Manipulation of Single Molecules on Optofluidic Devices.

Authors:  Mahmudur Rahman; Kazi Rafiqul Islam; Md Rashedul Islam; Md Jahirul Islam; Md Rejvi Kaysir; Masuma Akter; Md Arifur Rahman; S M Mahfuz Alam
Journal:  Micromachines (Basel)       Date:  2022-06-18       Impact factor: 3.523
  1 in total

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