Literature DB >> 21864771

Optimizing the phase shift and the cut-on periodicity of phase plates for TEM.

Radostin Danev1, Kuniaki Nagayama.   

Abstract

Images acquired with a phase plate often exhibit fringing and/or contrast reversal artifacts. The two basic parameters controlling the performance of the phase plate are phase shift and cut-on periodicity. We investigate theoretically and numerically the effect of these parameters on the image quality. The analysis covers not just the typical negative phase shift phase plates but also positive phase shift ones. The theoretical study derives formulas for calculating the optimal phase plate phase shift and for the maximum achievable contrast with a given specimen. Two figures of merit - fidelity and contrast - were defined and used to quantify the numerical results. Larger cut-on periodicities provide better performance with higher contrast and less artifacts in the images. Both, the theoretical results and the simulations indicate that positive phase shift phase plates generate higher contrast with better linearity and are free from contrast reversal artifacts. However, with such phase plates the amplitude and the phase contrast components are opposed to each other and the simulations show stronger fringing outside of objects. Based on these results it is difficult to predict if and to what extent the positive phase shift phase plates will be advantageous in practice. Two methods for reduction of fringing artifacts were compared-tapered phase plate and low-frequency amplification software filter. Overall the software solution produced better results and is much easier to implement than modifying the hardware of the phase plate to realize the taper.
Copyright © 2011 Elsevier B.V. All rights reserved.

Entities:  

Year:  2011        PMID: 21864771     DOI: 10.1016/j.ultramic.2011.04.004

Source DB:  PubMed          Journal:  Ultramicroscopy        ISSN: 0304-3991            Impact factor:   2.689


  12 in total

1.  Methods for testing Zernike phase plates and a report on silicon-based phase plates with reduced charging and improved ageing characteristics.

Authors:  Michael Marko; Xing Meng; Chyongere Hsieh; James Roussie; Christopher Striemer
Journal:  J Struct Biol       Date:  2013-08-28       Impact factor: 2.867

2.  Volta potential phase plate for in-focus phase contrast transmission electron microscopy.

Authors:  Radostin Danev; Bart Buijsse; Maryam Khoshouei; Jürgen M Plitzko; Wolfgang Baumeister
Journal:  Proc Natl Acad Sci U S A       Date:  2014-10-20       Impact factor: 11.205

3.  Design of a hybrid double-sideband/single-sideband (schlieren) objective aperture suitable for electron microscopy.

Authors:  Bart Buijsse; Frank M H M van Laarhoven; Andreas K Schmid; Rossana Cambie; Stefano Cabrini; Jian Jin; Robert M Glaeser
Journal:  Ultramicroscopy       Date:  2011-10-04       Impact factor: 2.689

Review 4.  Biological Applications at the Cutting Edge of Cryo-Electron Microscopy.

Authors:  Rebecca S Dillard; Cheri M Hampton; Joshua D Strauss; Zunlong Ke; Deanna Altomara; Ricardo C Guerrero-Ferreira; Gabriella Kiss; Elizabeth R Wright
Journal:  Microsc Microanal       Date:  2018-08       Impact factor: 4.127

5.  Zernike phase-contrast electron cryotomography applied to marine cyanobacteria infected with cyanophages.

Authors:  Wei Dai; Caroline Fu; Htet A Khant; Steven J Ludtke; Michael F Schmid; Wah Chiu
Journal:  Nat Protoc       Date:  2014-10-16       Impact factor: 13.491

6.  Effect of fringe-artifact correction on sub-tomogram averaging from Zernike phase-plate cryo-TEM.

Authors:  Gregory P Kishchenko; Radostin Danev; Rebecca Fisher; Jie He; Chyongere Hsieh; Michael Marko; Haixin Sui
Journal:  J Struct Biol       Date:  2015-07-22       Impact factor: 2.867

Review 7.  Structural differences observed in arboviruses of the alphavirus and flavivirus genera.

Authors:  Raquel Hernandez; Dennis T Brown; Angel Paredes
Journal:  Adv Virol       Date:  2014-09-16

Review 8.  Phage-host interplay: examples from tailed phages and Gram-negative bacterial pathogens.

Authors:  Soraya Chaturongakul; Puey Ounjai
Journal:  Front Microbiol       Date:  2014-08-20       Impact factor: 5.640

9.  Cryo-EM single particle analysis with the Volta phase plate.

Authors:  Radostin Danev; Wolfgang Baumeister
Journal:  Elife       Date:  2016-03-07       Impact factor: 8.140

10.  Visualization of ATP synthase dimers in mitochondria by electron cryo-tomography.

Authors:  Karen M Davies; Bertram Daum; Vicki A M Gold; Alexander W Mühleip; Tobias Brandt; Thorsten B Blum; Deryck J Mills; Werner Kühlbrandt
Journal:  J Vis Exp       Date:  2014-09-14       Impact factor: 1.355

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