Imaging single cells in a beam of live cyanobacteria with an X-ray laser

Schot, Gijs van der; Svenda, Martin; Maia, Filipe R. N. C.; Hantke, Max F.; DePonte, Daniel P.; Seibert, M.; Aquila, Andrew; Schulz, Joachim; Kirian, Richard A.; Liang, Mao; Stellato, Francesco; Iwan, Bianca; Andreasson, Jakob; Tı̂mneanu, Nicuşor; Westphal, Daniel; Almeida, Francisca Nunes de; Odić, Duško; Hasse, Dirk; Carlsson, Gunilla; Larsson, Daniel; Barty, Anton; Martin, Andrew V.; Schorb, Sebastian; Bostedt, Christoph; Bozek, John D.; Rolles, Daniel; Rudenko, Artem; Epp, Sascha W.; Foucar, L.; Rudek, Benedikt; Hartmann, R.; Kimmel, Nils; Holl, P.; Englert, Lars; Loh, N. Duane; Chapman, Henry N.; Andersson, Inger; Hajdu, János; Ekeberg, Tomas

doi:10.1038/ncomms6704

Cited by 176 publications

(97 citation statements)

References 52 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Одной из таких задач является исследование методами рентгеновской дифракции изолированных биологических частиц (Single Particles) [8][9][10][11][12][13][14][15][16]. Возможность исследования изолированных частиц позволяет снять основное экспериментальное ограничение рентгеновской кристаллографии -необходимость приготовления исследуемого образца в виде монокристалла.…”

Section: решение фазовой проблемы для изолированных частиц сканированunclassified

The Use of Connected Masks for Reconstructing the Single Particle Image from X-Ray Diffraction Data. III. Maximum-Likelihood Based Strategies to Select Solution of the Phase Problem

Lunina¹,

Petrova²,

Urzhumtsev³

et al. 2017

Math.Biol.Bioinf.

View full text Add to dashboard Cite

The main experimental limitation of biological crystallography is associated with the need to prepare the object under study in the form of a single crystal. New powerful X-ray sources, namely free-electron X-ray lasers, makes it possible to raise the question of the determination of the structure of isolated biological macromolecules and their complexes in practice. An additional advantage of working with isolated particles is the possibility to obtain information about scattering in all directions, and not only in those limited by the Laue-Bragg diffraction conditions. This significantly facilitates the solution of the phase problem of X-ray diffraction analysis. This paper is devoted to two lines of development of the method for solving the phase problem, proposed earlier by the authors, which is based on the random scanning of the configuration space of potential solutions of the phase problem. The paper suggests a new criterion for the selection of "candidates" for solving the phase problem in the process of scanning. It involves the maximization of statistical likelihood, and its effectiveness is shown in test calculations. The second line concerns the choice of the optimal scanning strategy. It is shown that the gradual expansion of the set of experimental data used in the work allows obtaining solutions of a higher quality than those obtained with all available data included into the work simultaneously from the beginning.

show abstract

Section: решение фазовой проблемы для изолированных частиц сканированunclassified

The Use of Connected Masks for Reconstructing the Single Particle Image from X-Ray Diffraction Data. III. Maximum-Likelihood Based Strategies to Select Solution of the Phase Problem

Lunina¹,

Petrova²,

Urzhumtsev³

et al. 2017

Math.Biol.Bioinf.

View full text Add to dashboard Cite

show abstract

“…This combined experiment illustrates the differences between facilities. Figure 3d [141] shows the successful demonstration of living cell imaging of cyanobacteria. Living cyanobacteria were injected into the X-ray beam using an aerosol injector.…”

Section: Coherent Diffraction Imaging With X-ray Lasersmentioning

confidence: 99%

“…Many of these were used to test the validity of XFEL-CDI and included measurements of the morphology of complex structures, functional imaging method development, and dynamic changes under a stimulus (pump-probe). On the biological side, viruses, bacteria, organelles and associated biological components have been imaged at various resolution levels [133][134][135][136][137][138][139][140][141][142] and have helped further develop high throughput imaging methods. Figure 2 shows typical results from non-biological particles using XFEL-CDI.…”

Section: Coherent Diffraction Imaging With X-ray Lasersmentioning

confidence: 99%

See 1 more Smart Citation

Current Status of Single Particle Imaging with X-ray Lasers

Sun

Fan

et al. 2018

Applied Sciences

View full text Add to dashboard Cite

Abstract:The advent of ultrafast X-ray free-electron lasers (XFELs) opens the tantalizing possibility of the atomic-resolution imaging of reproducible objects such as viruses, nanoparticles, single molecules, clusters, and perhaps biological cells, achieving a resolution for single particle imaging better than a few tens of nanometers. Improving upon this is a significant challenge which has been the focus of a global single particle imaging (SPI) initiative launched in December 2014 at the Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, USA. A roadmap was outlined, and significant multi-disciplinary effort has since been devoted to work on the technical challenges of SPI such as radiation damage, beam characterization, beamline instrumentation and optics, sample preparation and delivery and algorithm development at multiple institutions involved in the SPI initiative. Currently, the SPI initiative has achieved 3D imaging of rice dwarf virus (RDV) and coliphage PR772 viruses at~10 nm resolution by using soft X-ray FEL pulses at the Atomic Molecular and Optical (AMO) instrument of LCLS. Meanwhile, diffraction patterns with signal above noise up to the corner of the detector with a resolution of~6 Ångström (Å) were also recorded with hard X-rays at the Coherent X-ray Imaging (CXI) instrument, also at LCLS. Achieving atomic resolution is truly a grand challenge and there is still a long way to go in light of recent developments in electron microscopy. However, the potential for studying dynamics at physiological conditions and capturing ultrafast biological, chemical and physical processes represents a tremendous potential application, attracting continued interest in pursuing further method development. In this paper, we give a brief introduction of SPI developments and look ahead to further method development.

show abstract

“…This is based on the concept of "diffraction before destruction" whereby the interpretable scattering patterns are generated from individual X-ray pulses (of sufficient intensity and short duration) before X-ray damage effects degrade the achievable resolution [58]. Initial demonstration experiments and applications of single particle imaging methods at LCLS include single-shot coherent diffraction images of viruses [59], bacteriophages [60], organelles [61], and cyanobacteria [62].…”

Section: Coherent X-ray Imaging At the Nanoscale-heterogeneity And Dymentioning

confidence: 99%

The Linac Coherent Light Source: Recent Developments and Future Plans

et al. 2017

View full text Add to dashboard Cite

Abstract:The development of X-ray free-electron lasers (XFELs) has launched a new era in X-ray science by providing ultrafast coherent X-ray pulses with a peak brightness that is approximately one billion times higher than previous X-ray sources. The Linac Coherent Light Source (LCLS) facility at the SLAC National Accelerator Laboratory, the world's first hard X-ray FEL, has already demonstrated a tremendous scientific impact across broad areas of science. Here, a few of the more recent representative highlights from LCLS are presented in the areas of atomic, molecular, and optical science; chemistry; condensed matter physics; matter in extreme conditions; and biology. This paper also outlines the near term upgrade (LCLS-II) and motivating science opportunities for ultrafast X-rays in the 0.25-5 keV range at repetition rates up to 1 MHz. Future plans to extend the X-ray energy reach to beyond 13 keV (<1 Å) at high repetition rate (LCLS-II-HE) are envisioned, motivated by compelling new science of structural dynamics at the atomic scale.

show abstract

Imaging single cells in a beam of live cyanobacteria with an X-ray laser

Cited by 176 publications

References 52 publications

The Use of Connected Masks for Reconstructing the Single Particle Image from X-Ray Diffraction Data. III. Maximum-Likelihood Based Strategies to Select Solution of the Phase Problem

The Use of Connected Masks for Reconstructing the Single Particle Image from X-Ray Diffraction Data. III. Maximum-Likelihood Based Strategies to Select Solution of the Phase Problem

Current Status of Single Particle Imaging with X-ray Lasers

The Linac Coherent Light Source: Recent Developments and Future Plans

Contact Info

Product

Resources

About