Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser

Tomas Ekeberg; Martin Svenda; M. Marvin Seibert; Chantal Abergel; Filipe R.N.C. Maia; Virginie Seltzer; Daniel P. DePonte; Andrew Aquila; Jakob Andreasson; Bianca Iwan; Olof Jonsson; Daniel Westphal; Dusko Odic; Inger Andersson; Anton Barty; Meng Liang; Andrew V. Martin; Lars Gumprecht; Holger Fleckenstein; Saša Bajt; Miriam Barthelmess; Nicola Coppola; Jean Michel Claverie; N. Duane Loh; Christoph Bostedt; John D. Bozek; Jacek Krzywinski; Marc Messerschmidt; Michael J. Bogan; Christina Y. Hampton; Raymond G. Sierra; Matthias Frank; Robert L. Shoeman; Lukas Lomb; Lutz Foucar; Sascha W. Epp; Daniel Rolles; Artem Rudenko; Robert Hartmann; Andreas Hartmann; Nils Kimmel; Peter Holl; Georg Weidenspointner; Benedikt Rudek; Benjamin Erk; Stephan Kassemeyer; Ilme Schlichting; Lothar Struder; Joachim Ullrich; Carlo Schmidt; Faton Krasniqi; Gunter Hauser; Christian Reich; Heike Soltau; Sebastian Schorb; Helmut Hirsemann; Cornelia Wunderer; Heinz Graafsma; Henry Chapman; Janos Hajdu

doi:10.1038/sdata.2016.60

Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser

Tomas Ekeberg, Martin Svenda, M. Marvin Seibert, Chantal Abergel, Filipe R.N.C. Maia, Virginie Seltzer, Daniel P. DePonte, Andrew Aquila, Jakob Andreasson, Bianca Iwan, Olof Jonsson, Daniel Westphal, Dusko Odic, Inger Andersson, Anton Barty, Meng Liang, Andrew V. Martin, Lars Gumprecht, Holger Fleckenstein, Saša BajtMiriam Barthelmess, Nicola Coppola, Jean Michel Claverie, N. Duane Loh, Christoph Bostedt, John D. Bozek, Jacek Krzywinski, Marc Messerschmidt, Michael J. Bogan, Christina Y. Hampton, Raymond G. Sierra, Matthias Frank, Robert L. Shoeman, Lukas Lomb, Lutz Foucar, Sascha W. Epp, Daniel Rolles, Artem Rudenko, Robert Hartmann, Andreas Hartmann, Nils Kimmel, Peter Holl, Georg Weidenspointner, Benedikt Rudek, Benjamin Erk, Stephan Kassemeyer, Ilme Schlichting, Lothar Struder, Joachim Ullrich, Carlo Schmidt, Faton Krasniqi, Gunter Hauser, Christian Reich, Heike Soltau, Sebastian Schorb, Helmut Hirsemann, Cornelia Wunderer, Heinz Graafsma, Henry Chapman, Janos Hajdu

Research output: Contribution to journal › Article › peer-review

18 Scopus citations

Abstract

Free-electron lasers (FEL) hold the potential to revolutionize structural biology by producing X-ray pules short enough to outrun radiation damage, thus allowing imaging of biological samples without the limitation from radiation damage. Thus, a major part of the scientific case for the first FELs was three-dimensional (3D) reconstruction of non-crystalline biological objects. In a recent publication we demonstrated the first 3D reconstruction of a biological object from an X-ray FEL using this technique. The sample was the giant Mimivirus, which is one of the largest known viruses with a diameter of 450 nm. Here we present the dataset used for this successful reconstruction. Data-analysis methods for single-particle imaging at FELs are undergoing heavy development but data collection relies on very limited time available through a highly competitive proposal process. This dataset provides experimental data to the entire community and could boost algorithm development and provide a benchmark dataset for new algorithms.

Original language	English (US)
Article number	160060
Journal	Scientific Data
Volume	3
DOIs	https://doi.org/10.1038/sdata.2016.60
State	Published - Aug 1 2016
Externally published	Yes

ASJC Scopus subject areas

Statistics and Probability
Information Systems
Education
Computer Science Applications
Statistics, Probability and Uncertainty
Library and Information Sciences

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10.1038/sdata.2016.60

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Ekeberg, T., Svenda, M., Seibert, M. M., Abergel, C., Maia, F. R. N. C., Seltzer, V., DePonte, D. P., Aquila, A., Andreasson, J., Iwan, B., Jonsson, O., Westphal, D., Odic, D., Andersson, I., Barty, A., Liang, M., Martin, A. V., Gumprecht, L., Fleckenstein, H., ... Hajdu, J. (2016). Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser. Scientific Data, 3, Article 160060. https://doi.org/10.1038/sdata.2016.60

Ekeberg, T, Svenda, M, Seibert, MM, Abergel, C, Maia, FRNC, Seltzer, V, DePonte, DP, Aquila, A, Andreasson, J, Iwan, B, Jonsson, O, Westphal, D, Odic, D, Andersson, I, Barty, A, Liang, M, Martin, AV, Gumprecht, L, Fleckenstein, H, Bajt, S, Barthelmess, M, Coppola, N, Claverie, JM, Loh, ND, Bostedt, C, Bozek, JD, Krzywinski, J, Messerschmidt, M, Bogan, MJ, Hampton, CY, Sierra, RG, Frank, M, Shoeman, RL, Lomb, L, Foucar, L, Epp, SW, Rolles, D, Rudenko, A, Hartmann, R, Hartmann, A, Kimmel, N, Holl, P, Weidenspointner, G, Rudek, B, Erk, B, Kassemeyer, S, Schlichting, I, Struder, L, Ullrich, J, Schmidt, C, Krasniqi, F, Hauser, G, Reich, C, Soltau, H, Schorb, S, Hirsemann, H, Wunderer, C, Graafsma, H, Chapman, H & Hajdu, J 2016, 'Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser', Scientific Data, vol. 3, 160060. https://doi.org/10.1038/sdata.2016.60

@article{b40b2a6c07ba453da6fa9a9b7a6f9688,

title = "Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser",

abstract = "Free-electron lasers (FEL) hold the potential to revolutionize structural biology by producing X-ray pules short enough to outrun radiation damage, thus allowing imaging of biological samples without the limitation from radiation damage. Thus, a major part of the scientific case for the first FELs was three-dimensional (3D) reconstruction of non-crystalline biological objects. In a recent publication we demonstrated the first 3D reconstruction of a biological object from an X-ray FEL using this technique. The sample was the giant Mimivirus, which is one of the largest known viruses with a diameter of 450 nm. Here we present the dataset used for this successful reconstruction. Data-analysis methods for single-particle imaging at FELs are undergoing heavy development but data collection relies on very limited time available through a highly competitive proposal process. This dataset provides experimental data to the entire community and could boost algorithm development and provide a benchmark dataset for new algorithms.",

author = "Tomas Ekeberg and Martin Svenda and Seibert, {M. Marvin} and Chantal Abergel and Maia, {Filipe R.N.C.} and Virginie Seltzer and DePonte, {Daniel P.} and Andrew Aquila and Jakob Andreasson and Bianca Iwan and Olof Jonsson and Daniel Westphal and Dusko Odic and Inger Andersson and Anton Barty and Meng Liang and Martin, {Andrew V.} and Lars Gumprecht and Holger Fleckenstein and Sa{\v s}a Bajt and Miriam Barthelmess and Nicola Coppola and Claverie, {Jean Michel} and Loh, {N. Duane} and Christoph Bostedt and Bozek, {John D.} and Jacek Krzywinski and Marc Messerschmidt and Bogan, {Michael J.} and Hampton, {Christina Y.} and Sierra, {Raymond G.} and Matthias Frank and Shoeman, {Robert L.} and Lukas Lomb and Lutz Foucar and Epp, {Sascha W.} and Daniel Rolles and Artem Rudenko and Robert Hartmann and Andreas Hartmann and Nils Kimmel and Peter Holl and Georg Weidenspointner and Benedikt Rudek and Benjamin Erk and Stephan Kassemeyer and Ilme Schlichting and Lothar Struder and Joachim Ullrich and Carlo Schmidt and Faton Krasniqi and Gunter Hauser and Christian Reich and Heike Soltau and Sebastian Schorb and Helmut Hirsemann and Cornelia Wunderer and Heinz Graafsma and Henry Chapman and Janos Hajdu",

note = "Funding Information: This work was supported by the Swedish Research Council, the Knut and Alice Wallenberg Foundation, the Max Planck Society, the European Research Council, the R{\"o}ntgen-{\AA}ngstr{\"o}m Cluster, and Stiftelsen Olle Engkvist Byggm{\"a}stare. Portions of this research were carried out at the Linac Coherent Light Source, a national user facility operated by Stanford University on behalf of the US Department of Energy, Office of Basic Energy Sciences. We are grateful to the scientific and technical staff of the LCLS for support.",

year = "2016",

month = aug,

day = "1",

doi = "10.1038/sdata.2016.60",

language = "English (US)",

volume = "3",

journal = "Scientific Data",

issn = "2052-4463",

publisher = "Nature Publishing Group",

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TY - JOUR

T1 - Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser

AU - Ekeberg, Tomas

AU - Svenda, Martin

AU - Seibert, M. Marvin

AU - Abergel, Chantal

AU - Maia, Filipe R.N.C.

AU - Seltzer, Virginie

AU - DePonte, Daniel P.

AU - Aquila, Andrew

AU - Andreasson, Jakob

AU - Iwan, Bianca

AU - Jonsson, Olof

AU - Westphal, Daniel

AU - Odic, Dusko

AU - Andersson, Inger

AU - Barty, Anton

AU - Liang, Meng

AU - Martin, Andrew V.

AU - Gumprecht, Lars

AU - Fleckenstein, Holger

AU - Bajt, Saša

AU - Barthelmess, Miriam

AU - Coppola, Nicola

AU - Claverie, Jean Michel

AU - Loh, N. Duane

AU - Bostedt, Christoph

AU - Bozek, John D.

AU - Krzywinski, Jacek

AU - Messerschmidt, Marc

AU - Bogan, Michael J.

AU - Hampton, Christina Y.

AU - Sierra, Raymond G.

AU - Frank, Matthias

AU - Shoeman, Robert L.

AU - Lomb, Lukas

AU - Foucar, Lutz

AU - Epp, Sascha W.

AU - Rolles, Daniel

AU - Rudenko, Artem

AU - Hartmann, Robert

AU - Hartmann, Andreas

AU - Kimmel, Nils

AU - Holl, Peter

AU - Weidenspointner, Georg

AU - Rudek, Benedikt

AU - Erk, Benjamin

AU - Kassemeyer, Stephan

AU - Schlichting, Ilme

AU - Struder, Lothar

AU - Ullrich, Joachim

AU - Schmidt, Carlo

AU - Krasniqi, Faton

AU - Hauser, Gunter

AU - Reich, Christian

AU - Soltau, Heike

AU - Schorb, Sebastian

AU - Hirsemann, Helmut

AU - Wunderer, Cornelia

AU - Graafsma, Heinz

AU - Chapman, Henry

AU - Hajdu, Janos

N1 - Funding Information: This work was supported by the Swedish Research Council, the Knut and Alice Wallenberg Foundation, the Max Planck Society, the European Research Council, the Röntgen-Ångström Cluster, and Stiftelsen Olle Engkvist Byggmästare. Portions of this research were carried out at the Linac Coherent Light Source, a national user facility operated by Stanford University on behalf of the US Department of Energy, Office of Basic Energy Sciences. We are grateful to the scientific and technical staff of the LCLS for support.

PY - 2016/8/1

Y1 - 2016/8/1

N2 - Free-electron lasers (FEL) hold the potential to revolutionize structural biology by producing X-ray pules short enough to outrun radiation damage, thus allowing imaging of biological samples without the limitation from radiation damage. Thus, a major part of the scientific case for the first FELs was three-dimensional (3D) reconstruction of non-crystalline biological objects. In a recent publication we demonstrated the first 3D reconstruction of a biological object from an X-ray FEL using this technique. The sample was the giant Mimivirus, which is one of the largest known viruses with a diameter of 450 nm. Here we present the dataset used for this successful reconstruction. Data-analysis methods for single-particle imaging at FELs are undergoing heavy development but data collection relies on very limited time available through a highly competitive proposal process. This dataset provides experimental data to the entire community and could boost algorithm development and provide a benchmark dataset for new algorithms.

AB - Free-electron lasers (FEL) hold the potential to revolutionize structural biology by producing X-ray pules short enough to outrun radiation damage, thus allowing imaging of biological samples without the limitation from radiation damage. Thus, a major part of the scientific case for the first FELs was three-dimensional (3D) reconstruction of non-crystalline biological objects. In a recent publication we demonstrated the first 3D reconstruction of a biological object from an X-ray FEL using this technique. The sample was the giant Mimivirus, which is one of the largest known viruses with a diameter of 450 nm. Here we present the dataset used for this successful reconstruction. Data-analysis methods for single-particle imaging at FELs are undergoing heavy development but data collection relies on very limited time available through a highly competitive proposal process. This dataset provides experimental data to the entire community and could boost algorithm development and provide a benchmark dataset for new algorithms.

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DO - 10.1038/sdata.2016.60

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SN - 2052-4463

VL - 3

JO - Scientific Data

JF - Scientific Data

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ER -

Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser

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