Difference between revisions of "2016Liu FullMechTomo"

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(Created page with "== Citation == Liu, J., Li, H., Zhang, L. et al. Fully Mechanically Controlled Automated Electron Microscopic Tomography. Sci Rep 6, 29231 (2016). == Abstract == Knowledge...")
 
 
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== Citation ==
 
== Citation ==
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Liu, J., Li, H., Zhang, L. et al. Fully Mechanically Controlled Automated Electron Microscopic Tomography. Sci Rep 6, 29231 (2016).
 
Liu, J., Li, H., Zhang, L. et al. Fully Mechanically Controlled Automated Electron Microscopic Tomography. Sci Rep 6, 29231 (2016).
  
 
== Abstract ==
 
== Abstract ==
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A single-molecule three-dimensional (3D) structure is essential for understanding the thermal vibrations and dynamics as well as the conformational changes during the chemical reaction of macromolecules. Individual-particle electron tomography (IPET) is an approach for obtaining a snap-shot 3D structure of an individual macromolecule particle by aligning the tilt series of electron tomographic (ET) images of a targeted particle through a focused iterative 3D reconstruction method. The method can reduce the influence on the 3D reconstruction from large-scale image distortion and deformation. Due to the mechanical tilt limitation, 3D reconstruction often contains missing-wedge artifacts, presented as elongation and an anisotropic resolution. Here, we report a post-processing method to correct the missing-wedge artifact. This low-tilt tomographic reconstruction (LoTToR) method contains a model-free iteration process under a set of constraints in real and reciprocal spaces. A proof of concept is conducted by using the LoTToR on a phantom, i.e., a simulated 3D reconstruction from a low-tilt series of images, including that within a tilt range of ±15°. The method is validated by using both negative-staining (NS) and cryo-electron tomography (cryo-ET) experimental data. A significantly reduced missing-wedge artifact verifies the capability of LoTToR, suggesting a new tool to support the future study of macromolecular dynamics, fluctuation and chemical activity from the viewpoint of single-molecule 3D structure determination.
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Knowledge of three-dimensional (3D) structures of each individual particles of asymmetric and flexible proteins is essential in understanding those proteins’ functions; but their structures are difficult to determine. Electron tomography (ET) provides a tool for imaging a single and unique biological object from a series of tilted angles, but it is challenging to image a single protein for three-dimensional (3D) reconstruction due to the imperfect mechanical control capability of the specimen goniometer under both a medium to high magnification (approximately 50,000–160,000×) and an optimized beam coherence condition. Here, we report a fully mechanical control method for automating ET data acquisition without using beam tilt/shift processes. This method could reduce the accumulation of beam tilt/shift that used to compensate the error from the mechanical control, but downgraded the beam coherence. Our method was developed by minimizing the error of the target object center during the tilting process through a closed-loop proportional-integral (PI) control algorithm. The validations by both negative staining (NS) and cryo-electron microscopy (cryo-EM) suggest that this method has a comparable capability to other ET methods in tracking target proteins while maintaining optimized beam coherence conditions for imaging.
 
  
 
== Keywords ==
 
== Keywords ==
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Electron microscopy, Molecular imaging, Single-molecule biophysics, single-molecule 3D structure
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Tomography; Automated data collection; Transmission electron microscopy; Mechanical backlash; proportional-integral control algorithm
  
 
== Links ==
 
== Links ==
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https://www.nature.com/articles/srep29231
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https://www.nature.com/articles/srep29231#citeas
 
  
 
== Related software ==
 
== Related software ==

Latest revision as of 20:03, 29 June 2020

Citation

Liu, J., Li, H., Zhang, L. et al. Fully Mechanically Controlled Automated Electron Microscopic Tomography. Sci Rep 6, 29231 (2016).

Abstract

A single-molecule three-dimensional (3D) structure is essential for understanding the thermal vibrations and dynamics as well as the conformational changes during the chemical reaction of macromolecules. Individual-particle electron tomography (IPET) is an approach for obtaining a snap-shot 3D structure of an individual macromolecule particle by aligning the tilt series of electron tomographic (ET) images of a targeted particle through a focused iterative 3D reconstruction method. The method can reduce the influence on the 3D reconstruction from large-scale image distortion and deformation. Due to the mechanical tilt limitation, 3D reconstruction often contains missing-wedge artifacts, presented as elongation and an anisotropic resolution. Here, we report a post-processing method to correct the missing-wedge artifact. This low-tilt tomographic reconstruction (LoTToR) method contains a model-free iteration process under a set of constraints in real and reciprocal spaces. A proof of concept is conducted by using the LoTToR on a phantom, i.e., a simulated 3D reconstruction from a low-tilt series of images, including that within a tilt range of ±15°. The method is validated by using both negative-staining (NS) and cryo-electron tomography (cryo-ET) experimental data. A significantly reduced missing-wedge artifact verifies the capability of LoTToR, suggesting a new tool to support the future study of macromolecular dynamics, fluctuation and chemical activity from the viewpoint of single-molecule 3D structure determination.

Keywords

Tomography; Automated data collection; Transmission electron microscopy; Mechanical backlash; proportional-integral control algorithm

Links

https://www.nature.com/articles/srep29231

Related software

Related methods

Comments

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