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Related Concept Videos

Atomic Force Microscopy01:08

Atomic Force Microscopy

Atomic force microscopy (AFM) is a type of scanning probe microscopy that can analyze topographic details of various specimens like ceramics, glass, polymers, and biological samples. AFM offers over 1000 times more resolution than the optical imaging system. Images generated from AFM are three-dimensional surface profiles, offering an advantage over the flat, two-dimensional images from other imaging techniques.
The AFM Probe
The probe is regarded as the heart of any AFM setup and comprises the...

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Related Experiment Video

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Phthalic Acid Ester-Binding DNA Aptamer Selection, Characterization, and Application to an Electrochemical Aptasensor
09:33

Phthalic Acid Ester-Binding DNA Aptamer Selection, Characterization, and Application to an Electrochemical Aptasensor

Published on: March 21, 2018

Selection of DNA aptamers using atomic force microscopy.

Yusuke Miyachi1, Nobuaki Shimizu, Chiaki Ogino

  • 1Department of Chemical Science and Engineering Faculty of Engineering, Graduate School of Engineering, Kobe University, Rokkoudai-chou 1-1, Nada, Kobe 657-8501, Japan.

Nucleic Acids Research
|December 4, 2009
PubMed
Summary

Atomic force microscopy (AFM) enables high-affinity aptamer selection. This novel AFM-SELEX method rapidly identified DNA aptamers with superior binding to thrombin compared to existing aptamers.

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Area of Science:

  • Biotechnology
  • Biophysics
  • Molecular Biology

Background:

  • Atomic force microscopy (AFM) dynamically measures binding forces between surfaces.
  • High-affinity aptamers are crucial for molecular recognition and diagnostics.
  • Traditional aptamer selection methods can be time-consuming and less efficient.

Purpose of the Study:

  • To develop a novel aptamer selection method using AFM.
  • To obtain high-affinity DNA aptamers against a target molecule, thrombin.
  • To evaluate the efficiency and effectiveness of the proposed AFM-SELEX method.

Main Methods:

  • Systematic Evolution of Ligands by EXponential enrichment (SELEX) integrated with AFM.
  • Utilizing AFM to quantify the binding affinity of aptamer candidates to thrombin.
  • Iterative selection cycles to enrich aptamers with strong target binding.

Main Results:

  • The AFM-SELEX method successfully selected high-affinity DNA aptamers for thrombin in just three rounds.
  • Several selected aptamers exhibited higher affinity to thrombin than the conventional thrombin aptamer.
  • One aptamer demonstrated high affinity for both thrombin and an anti-thrombin antibody.

Conclusions:

  • AFM-SELEX is an effective and efficient method for selecting DNA aptamers with high target affinity.
  • This technique offers a significant advancement in aptamer discovery for molecular targets.
  • The developed aptamers show potential for applications in diagnostics and therapeutics.