Literature DB >> 24326216

Iterative reconstruction of cryo-electron tomograms using nonuniform fast Fourier transforms.

Yuxiang Chen1, Friedrich Förster2.   

Abstract

Algorithms for three-dimensional (3D) reconstruction of objects based on their projections are essential in various biological and medical imaging modalities. In cryo-electron tomography (CET) a major challenge for reconstruction is the limited range of projection angles, which manifests itself as a "missing wedge" of data in Fourier space making the reconstruction problem ill-posed. Here, we apply an iterative reconstruction method that makes use of nonuniform fast Fourier transform (NUFFT) to the reconstruction of cryo-electron tomograms. According to several measures the reconstructions are superior to those obtained using conventional methods, most notably weighted backprojection. Most importantly, we show that it is possible to fill in partially the unsampled region in Fourier space with meaningful information without making assumptions about the data or applying prior knowledge. As a consequence, particles of known structure can be localized with higher confidence in cryotomograms and subtomogram averaging yields higher resolution densities.
Copyright © 2013 Elsevier Inc. All rights reserved.

Keywords:  Cryoelectron tomography; Image processing; Iterative reconstruction; Three-dimensional reconstruction

Mesh:

Year:  2013        PMID: 24326216     DOI: 10.1016/j.jsb.2013.12.001

Source DB:  PubMed          Journal:  J Struct Biol        ISSN: 1047-8477            Impact factor:   2.867


  10 in total

1.  MBIR: A cryo-ET 3D reconstruction method that effectively minimizes missing wedge artifacts and restores missing information.

Authors:  Rui Yan; Singanallur V Venkatakrishnan; Jun Liu; Charles A Bouman; Wen Jiang
Journal:  J Struct Biol       Date:  2019-03-11       Impact factor: 2.867

2.  Three-dimensional deconvolution processing for STEM cryotomography.

Authors:  Barnali Waugh; Sharon G Wolf; Deborah Fass; Eric Branlund; Zvi Kam; John W Sedat; Michael Elbaum
Journal:  Proc Natl Acad Sci U S A       Date:  2020-10-19       Impact factor: 11.205

3.  A local-optimization refinement algorithm in single particle analysis for macromolecular complex with multiple rigid modules.

Authors:  Hong Shan; Zihao Wang; Fa Zhang; Yong Xiong; Chang-Cheng Yin; Fei Sun
Journal:  Protein Cell       Date:  2015-12-17       Impact factor: 14.870

Review 4.  A Survey of the Use of Iterative Reconstruction Algorithms in Electron Microscopy.

Authors:  C O S Sorzano; J Vargas; J Otón; J M de la Rosa-Trevín; J L Vilas; M Kazemi; R Melero; L Del Caño; J Cuenca; P Conesa; J Gómez-Blanco; R Marabini; J M Carazo
Journal:  Biomed Res Int       Date:  2017-09-17       Impact factor: 3.411

5.  Accelerating electron tomography reconstruction algorithm ICON with GPU.

Authors:  Yu Chen; Zihao Wang; Jingrong Zhang; Lun Li; Xiaohua Wan; Fei Sun; Fa Zhang
Journal:  Biophys Rep       Date:  2017-07-04

6.  The advent of structural biology in situ by single particle cryo-electron tomography.

Authors:  Jesús G Galaz-Montoya; Steven J Ludtke
Journal:  Biophys Rep       Date:  2017-05-29

7.  Efficient 3D-CTF correction for cryo-electron tomography using NovaCTF improves subtomogram averaging resolution to 3.4Å.

Authors:  Beata Turoňová; Florian K M Schur; William Wan; John A G Briggs
Journal:  J Struct Biol       Date:  2017-07-22       Impact factor: 2.867

Review 8.  Coming of Age: Cryo-Electron Tomography as a Versatile Tool to Generate High-Resolution Structures at Cellular/Biological Interfaces.

Authors:  Zuoneng Wang; Qingyang Zhang; Carsten Mim
Journal:  Int J Mol Sci       Date:  2021-06-08       Impact factor: 5.923

9.  Multimodal nanoparticles as alignment and correlation markers in fluorescence/soft X-ray cryo-microscopy/tomography of nucleoplasmic reticulum and apoptosis in mammalian cells.

Authors:  Christoph Hagen; Stephan Werner; Susana Carregal-Romero; Ashraf N Malhas; Barbara G Klupp; Peter Guttmann; Stefan Rehbein; Katja Henzler; Thomas C Mettenleiter; David J Vaux; Wolfgang J Parak; Gerd Schneider; Kay Grünewald
Journal:  Ultramicroscopy       Date:  2014-06-03       Impact factor: 2.689

10.  Compressed sensing for electron cryotomography and high-resolution subtomogram averaging of biological specimens.

Authors:  Jan Böhning; Tanmay A M Bharat; Sean M Collins
Journal:  Structure       Date:  2022-01-19       Impact factor: 5.006

  10 in total

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