Biological Imaging by Soft X-ray Diffraction Microscopy

Shapiro, D; Thibault, P; Beetz, T; Elser, V; Howells, M; Jacobsen, C; Kirz, J; Lima, E; Miao, H

doi:10.1073/pnas.0503305102

Title: Biological Imaging by Soft X-ray Diffraction Microscopy

Journal Article · Sat Jan 01 00:00:00 EST 2005 · Proceedings of the National Academy of Sciences of the United States of America

DOI:https://doi.org/10.1073/pnas.0503305102· OSTI ID:913688

Shapiro, D; Thibault, P; Beetz, T; Elser, V; Howells, M; Jacobsen, C; Kirz, J; Lima, E; Miao, H

We have used the method of x-ray diffraction microscopy to image the complex-valued exit wave of an intact and unstained yeast cell. The images of the freeze-dried cell, obtained by using 750-eV x-rays from different angular orientations, portray several of the cell's major internal components to 30-nm resolution. The good agreement among the independently recovered structures demonstrates the accuracy of the imaging technique. To obtain the best possible reconstructions, we have implemented procedures for handling noisy and incomplete diffraction data, and we propose a method for determining the reconstructed resolution. This work represents a previously uncharacterized application of x-ray diffraction microscopy to a specimen of this complexity and provides confidence in the feasibility of the ultimate goal of imaging biological specimens at 10-nm resolution in three dimensions.

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Research Organization:: Brookhaven National Laboratory (BNL), Upton, NY (United States). National Synchrotron Light Source (NSLS)

Sponsoring Organization:: Doe - Office Of Science

DOE Contract Number:: DE-AC02-98CH10886

OSTI ID:: 913688

Report Number(s):: BNL-78256-2007-JA; PNASA6; TRN: US200804%%35

Journal Information:: Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, Issue 43; ISSN 0027-8424

Country of Publication:: United States

Language:: English

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Diffraction apparatus and procedure in tomography X-ray diffraction imaging for biological cells at cryogenic temperature using synchrotron X-ray radiation Kobayashi, Amane; Takayama, Yuki; Okajima, Koji International Union of Crystallography (IUCr) https://doi.org/10.1107/s1600577518012687/co5106sup1.pdf	text	January 2018
Digital In-line Holography with femtosecond VUV radiation provided by the free-electron laser FLASH Rosenhahn, Axel; Staier, Florian; Nisius, Thomas Optics Express, Vol. 17, Issue 10 https://doi.org/10.1364/oe.17.008220	journal	January 2009
Three-dimensional structure determination from a single view Raines, Kevin S.; Salha, Sara; Sandberg, Richard L. arXiv https://doi.org/10.48550/arxiv.0905.0269	text	January 2009
Oversampling smoothness (OSS): an effective algorithm for phase retrieval of noisy diffraction intensities Rodriguez, Jose A.; Xu, Rui; Chen, Chien-Chun arXiv https://doi.org/10.48550/arxiv.1211.4519	text	January 2012
Nanoscale Magnetic Imaging using Circularly Polarized High-Harmonic Radiation Kfir, Ofer; Zayko, Sergey; Nolte, Christina arXiv https://doi.org/10.48550/arxiv.1706.07695	preprint	January 2017
Imaging nanoscale spatial modulation of a relativistic electron beam with a MeV ultrafast electron microscope Lu, Chao; Jiang, Tao; Liu, Shengguang arXiv https://doi.org/10.48550/arxiv.1803.04670	text	January 2018
Three-dimensional double helical DNA structure directly revealed from its X-ray fiber diffraction pattern by iterative phase retrieval Latychevskaia, Tatiana; Fink, Hans-Werner arXiv https://doi.org/10.48550/arxiv.1811.04459	text	January 2018
Macromolecular diffractive imaging using imperfect crystals Ayyer, Kartik; Yefanov, Oleksandr M.; Oberthür, Dominik Nature, Vol. 530, Issue 7589, p. 202-206 https://doi.org/10.1038/nature16949	journal	February 2016
Fluctuation X-ray scattering Doerr, Allison Nature Methods, Vol. 16, Issue 1 https://doi.org/10.1038/s41592-018-0280-z	journal	December 2018
Correlative cellular ptychography with functionalized nanoparticles at the Fe L-edge Gallagher-Jones, Marcus; Dias, Carlos Sato Baraldi; Pryor, Alan Scientific Reports, Vol. 7, Issue 1 https://doi.org/10.1038/s41598-017-04784-5	journal	July 2017
Whole-cell phase contrast imaging at the nanoscale using Fresnel Coherent Diffractive Imaging Tomography Jones, Michael W. M.; van Riessen, Grant A.; Abbey, Brian Scientific Reports, Vol. 3, Issue 1 https://doi.org/10.1038/srep02288	journal	July 2013
Correlative 3D x-ray fluorescence and ptychographic tomography of frozen-hydrated green algae Deng, Junjing; Lo, Yuan Hung; Gallagher-Jones, Marcus Science Advances, Vol. 4, Issue 11 https://doi.org/10.1126/sciadv.aau4548	journal	November 2018
Dynamic Rendering of the Heterogeneous Cell Response to Anticancer Treatments Falcetta, Francesca; Lupi, Monica; Colombo, Valentina PLoS Computational Biology, Vol. 9, Issue 10 https://doi.org/10.1371/journal.pcbi.1003293	journal	October 2013
Molar concentration from sequential 2-D water-window X-ray ptychography and X-ray fluorescence in hydrated cells Jones, Mwm; Elgass, Kd; Junker, Md La Trobe https://doi.org/10.26181/22114559.v1	text	January 2023
Quantitative Distribution of DNA, RNA, Histone and Proteins Other than Histone in Mammalian Cells, Nuclei and a Chromosome at High Resolution Observed by Scanning Transmission Soft X-Ray Microscopy (STXM) Shinohara, Kunio; Toné, Shigenobu; Ejima, Takeo Cells, Vol. 8, Issue 2 https://doi.org/10.3390/cells8020164	journal	February 2019
Free log-likelihood as an unbiased metric for coherent diffraction imaging Favre-Nicolin, Vincent; Leake, Steven; Chushkin, Yuriy arXiv https://doi.org/10.48550/arxiv.1904.07056	text	January 2019

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