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J Struct Biol. 2014 Apr;186(1):28-37. doi: 10.1016/j.jsb.2014.03.009. Epub 2014 Mar 14.

Local regularization of tilt projections reduces artifacts in electron tomography.

Author information

1
Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Vic. 3010, Australia; Australian Research Council Centre of Excellence for Coherent X-ray Science, Australia. Electronic address: mauromaiorca@gmail.com.
2
Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Vic. 3010, Australia; Australian Research Council Centre of Excellence for Coherent X-ray Science, Australia.
3
Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Vic. 3010, Australia; Australian Research Council Centre of Excellence for Coherent X-ray Science, Australia; Electron Microscopy Unit, Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Melbourne, Vic. 3010, Australia.
4
Australian Research Council Centre of Excellence for Coherent X-ray Science, Australia; Department of Physics, La Trobe University, Vic. 3071, Australia.
5
Department of Computer Science and Software Engineering, The University of Melbourne, Vic. 3010, Australia.
6
Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Vic. 3010, Australia; Australian Research Council Centre of Excellence for Coherent X-ray Science, Australia. Electronic address: ltilley@unimelb.edu.au.

Abstract

Electron tomography produces very high resolution 3D image volumes useful for investigating the structure and function of cellular components. Unfortunately, unavoidable discontinuities and physical constraints in the acquisition geometry lead to a range of artifacts that can affect the reconstructed image. In particular, highly electron dense regions, such as gold nanoparticles, can hide proximal biological structures and degrade the overall quality of the reconstructed tomograms. In this work we introduce a pre-reconstruction non-conservative non-linear isotropic diffusion (NID) filter that automatically identifies and reduces local irregularities in the tilt projections. We illustrate the improvement in quality obtained using this approach for reconstructed tomograms generated from samples of malaria parasite-infected red blood cells. A quantitative and qualitative evaluation for our approach on both simulated and real data is provided.

KEYWORDS:

Electron tomography; Gold artifact reduction; Image reconstruction; Non-linear diffusion; Plasmodium

PMID:
24632448
DOI:
10.1016/j.jsb.2014.03.009
[Indexed for MEDLINE]

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