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The AFM Probe
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Removing the parachuting artifact using two-way scanning data in high-speed atomic force microscopy.

Shintaroh Kubo1, Kenichi Umeda2, Noriyuki Kodera2

  • 1Department of Biophysics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan.

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|May 26, 2023
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Summary

A new computational method effectively removes parachuting artifacts from high-speed atomic force microscopy (HS-AFM) images. This technique utilizes two-way scanning data to improve the clarity of biomolecular structural dynamics observed with HS-AFM.

Keywords:
HS-AFMcomputational methodpiezo hysteresis

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Area of Science:

  • Biophysics
  • Microscopy techniques
  • Computational imaging

Background:

  • High-speed atomic force microscopy (HS-AFM) enables observation of biomolecular dynamics at the single-molecule level under near-physiological conditions.
  • High scanning speeds in HS-AFM can introduce parachuting artifacts, distorting image data and hindering accurate structural analysis.
  • Existing methods may not adequately address artifacts arising from the rapid scanning essential for high temporal resolution.

Purpose of the Study:

  • To develop a computational method for detecting and removing parachuting artifacts in HS-AFM images.
  • To enhance the quality of HS-AFM videos by correcting distortions caused by high-speed scanning.
  • To provide a generalizable and efficient tool for processing HS-AFM data.

Main Methods:

  • Developed a computational approach utilizing two-way scanning data from HS-AFM.
  • Implemented image alignment by inferring and correcting for piezo hysteresis effects between forward and backward scans.
  • Validated the method on HS-AFM videos of actin filaments, molecular chaperones, and duplex DNA.

Main Results:

  • The developed method successfully detects and removes parachuting artifacts from HS-AFM images.
  • Processed videos exhibit significantly reduced or eliminated parachuting artifacts, improving image fidelity.
  • The computational approach effectively merges forward and backward scanning data for artifact correction.

Conclusions:

  • The novel computational method provides effective artifact removal for HS-AFM videos with two-way scanning data.
  • This technique enhances the reliability of structural dynamics observations in biomolecular studies using HS-AFM.
  • The method is general, fast, and applicable to a wide range of HS-AFM datasets.