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  • Accepted Manuscript: Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source

Title: Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source

Single particle diffractive imaging data from Rice Dwarf Virus (RDV) were recorded using the Coherent X-ray Imaging (CXI) instrument at the Linac Coherent Light Source (LCLS). RDV was chosen as it is a well-characterized model system, useful for proof-of-principle experiments, system optimization and algorithm development. RDV, an icosahedral virus of about 70 nm in diameter, was aerosolized and injected into the approximately 0.1 μm diameter focused hard X-ray beam at the CXI instrument of LCLS. Diffraction patterns from RDV with signal to 5.9 Ångström were recorded. Here, the diffraction data are available through the Coherent X-ray Imaging Data Bank (CXIDB) as a resource for algorithm development, the contents of which are described here.
Authors:
ORCiD logo [1] ;  [2] ;  [3] ;  [4] ;  [4] ;  [4] ;  [5] ;  [6] ;  [1] ;  [3] ; ORCiD logo [7] ;  [8] ; ORCiD logo [1] ; ORCiD logo [9] ;  [10] ;  [11] ;  [1] ;  [1] ;  [12] ;  [11] more »;  [13] ;  [14] ;  [11] ;  [1] ;  [10] ;  [1] ; ORCiD logo [15] ;  [16] ; ORCiD logo [1] ;  [5] ;  [1] ; ORCiD logo [12] ;  [17] ;  [18] ;  [1] ;  [1] ; ORCiD logo [13] ;  [4] ;  [1] ;  [13] ;  [1] ; ORCiD logo [19] ;  [9] ;  [17] ;  [1] ; ORCiD logo [1] ;  [20] ;  [1] ;  [8] ;  [21] ;  [22] ;  [3] ;  [11] « less
+ Show Author Affiliations
  1. Uppsala Univ., Uppsala (Sweden)
  2. Uppsala Univ., Uppsala (Sweden); Institute of Physics ASCR, Prague (Czech Republic)
  3. SLAC National Accelerator Lab., Menlo Park, CA (United States)
  4. Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany)
  5. European XFEL GmbH, Schenefeld (Germany)
  6. La Trobe Univ., Melbourne (Australia)
  7. SLAC National Accelerator Lab., Menlo Park, CA (United States); Argonne National Lab. (ANL), Argonne, IL (United States); Technische Univ. Berlin, Berlin (Germany)
  8. Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany); Univ. of Hamburg, Hamburg (Germany)
  9. SLAC National Accelerator Lab., Menlo Park, CA (United States); Stanford PULSE Institute, Menlo Park, CA (United States)
  10. Cornell Univ., Ithaca, NY (United States)
  11. Arizona State Univ., Tempe, AZ (United States); Biodesign Institute at Arizona State Univ., Tempe, AZ (United States)
  12. Osaka Univ., Osaka (Japan)
  13. Univ. of Wisconsin, Milwaukee, WI (United States)
  14. Gwangju Institute of Science and Technology, Gwangju (Korea)
  15. Beijing Computational Science Research Center, Beijing (China)
  16. National Univ. of Singapore (Singapore)
  17. Pohang Univ. of Science and Technology, Pohang (Korea)
  18. Arizona State Univ., Tempe, AZ (United States)
  19. Uppsala Univ., Uppsala (Sweden); AlbaNova Univ. Center, Stockholm (Sweden)
  20. Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany); National Research Nuclear Univ. MEPhI (Moscow Engineering Physics Institute), Moscow (Russia)
  21. Brookhaven National Lab. (BNL), Upton, NY (United States)
  22. Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany); Univ. of Hamburg, Hamburg (Germany); Max-Planck Institute for the Structure and Dynamics of Matter, Hamburg (Germany)
Publication Date:
Report Number(s):
SLAC-PUB-16912
Journal ID: ISSN 2052-4463
Grant/Contract Number:
AC02-76SF00515
Type:
Accepted Manuscript
Journal Name:
Scientific Data
Additional Journal Information:
Journal Volume: 3; Journal ID: ISSN 2052-4463
Publisher:
Nature Publishing Group
Research Org:
SLAC National Accelerator Lab., Menlo Park, CA (United States)
Sponsoring Org:
USDOE Office of Science (SC)
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; BIO; XFEL
OSTI Identifier:
1340154
Citation Formats
Munke, Anna, Andreasson, Jakob, Aquila, Andrew, Awel, Salah, Ayyer, Kartik, Barty, Anton, Bean, Richard J., Berntsen, Peter, Bielecki, Johan, Boutet, Sebastien, Bucher, Maximilian, Chapman, Henry N., Daurer, Benedikt J., DeMirci, Hasan, Elser, Veit, Fromme, Petra, Hajdu, Janos, Hantke, Max F., Higashiura, Akifumi, Hogue, Brenda G., Hosseinizadeh, Ahmad, Kim, Yoonhee, Kirian, Richard A., Reddy, Hemanth K. N., Lan, Ti -Yen, Larsson, Daniel S. D., Liu, Haiguang, Loh, N. Duane, Maia, Filipe R. N. C., Mancuso, Adrian P., Muhlig, Kerstin, Nakagawa, Atsushi, Nam, Daewoong, Nelson, Garrett, Nettelblad, Carl, Okamoto, Kenta, Ourmazd, Abbas, Rose, Max, van der Schot, Gijs, Schwander, Peter, Seibert, M. Marvin, Sellberg, Jonas A., Sierra, Raymond G., Song, Changyong, Svenda, Martin, Timneanu, Nicusor, Vartanyants, Ivan A., Westphal, Daniel, Wiedorn, Max O., Williams, Garth J., Xavier, Paulraj Lourdu, Yoon, Chun Hong, and Zook, James. Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source. United States: N. p., Web. doi:10.1038/sdata.2016.64.
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Munke, Anna, Andreasson, Jakob, Aquila, Andrew, Awel, Salah, Ayyer, Kartik, Barty, Anton, Bean, Richard J., Berntsen, Peter, Bielecki, Johan, Boutet, Sebastien, Bucher, Maximilian, Chapman, Henry N., Daurer, Benedikt J., DeMirci, Hasan, Elser, Veit, Fromme, Petra, Hajdu, Janos, Hantke, Max F., Higashiura, Akifumi, Hogue, Brenda G., Hosseinizadeh, Ahmad, Kim, Yoonhee, Kirian, Richard A., Reddy, Hemanth K. N., Lan, Ti -Yen, Larsson, Daniel S. D., Liu, Haiguang, Loh, N. Duane, Maia, Filipe R. N. C., Mancuso, Adrian P., Muhlig, Kerstin, Nakagawa, Atsushi, Nam, Daewoong, Nelson, Garrett, Nettelblad, Carl, Okamoto, Kenta, Ourmazd, Abbas, Rose, Max, van der Schot, Gijs, Schwander, Peter, Seibert, M. Marvin, Sellberg, Jonas A., Sierra, Raymond G., Song, Changyong, Svenda, Martin, Timneanu, Nicusor, Vartanyants, Ivan A., Westphal, Daniel, Wiedorn, Max O., Williams, Garth J., Xavier, Paulraj Lourdu, Yoon, Chun Hong, & Zook, James. Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source. United States. doi:10.1038/sdata.2016.64.
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Munke, Anna, Andreasson, Jakob, Aquila, Andrew, Awel, Salah, Ayyer, Kartik, Barty, Anton, Bean, Richard J., Berntsen, Peter, Bielecki, Johan, Boutet, Sebastien, Bucher, Maximilian, Chapman, Henry N., Daurer, Benedikt J., DeMirci, Hasan, Elser, Veit, Fromme, Petra, Hajdu, Janos, Hantke, Max F., Higashiura, Akifumi, Hogue, Brenda G., Hosseinizadeh, Ahmad, Kim, Yoonhee, Kirian, Richard A., Reddy, Hemanth K. N., Lan, Ti -Yen, Larsson, Daniel S. D., Liu, Haiguang, Loh, N. Duane, Maia, Filipe R. N. C., Mancuso, Adrian P., Muhlig, Kerstin, Nakagawa, Atsushi, Nam, Daewoong, Nelson, Garrett, Nettelblad, Carl, Okamoto, Kenta, Ourmazd, Abbas, Rose, Max, van der Schot, Gijs, Schwander, Peter, Seibert, M. Marvin, Sellberg, Jonas A., Sierra, Raymond G., Song, Changyong, Svenda, Martin, Timneanu, Nicusor, Vartanyants, Ivan A., Westphal, Daniel, Wiedorn, Max O., Williams, Garth J., Xavier, Paulraj Lourdu, Yoon, Chun Hong, and Zook, James. 2016. "Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source". United States. doi:10.1038/sdata.2016.64. https://www.osti.gov/servlets/purl/1340154.
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@article{osti_1340154,
title = {Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source},
author = {Munke, Anna and Andreasson, Jakob and Aquila, Andrew and Awel, Salah and Ayyer, Kartik and Barty, Anton and Bean, Richard J. and Berntsen, Peter and Bielecki, Johan and Boutet, Sebastien and Bucher, Maximilian and Chapman, Henry N. and Daurer, Benedikt J. and DeMirci, Hasan and Elser, Veit and Fromme, Petra and Hajdu, Janos and Hantke, Max F. and Higashiura, Akifumi and Hogue, Brenda G. and Hosseinizadeh, Ahmad and Kim, Yoonhee and Kirian, Richard A. and Reddy, Hemanth K. N. and Lan, Ti -Yen and Larsson, Daniel S. D. and Liu, Haiguang and Loh, N. Duane and Maia, Filipe R. N. C. and Mancuso, Adrian P. and Muhlig, Kerstin and Nakagawa, Atsushi and Nam, Daewoong and Nelson, Garrett and Nettelblad, Carl and Okamoto, Kenta and Ourmazd, Abbas and Rose, Max and van der Schot, Gijs and Schwander, Peter and Seibert, M. Marvin and Sellberg, Jonas A. and Sierra, Raymond G. and Song, Changyong and Svenda, Martin and Timneanu, Nicusor and Vartanyants, Ivan A. and Westphal, Daniel and Wiedorn, Max O. and Williams, Garth J. and Xavier, Paulraj Lourdu and Yoon, Chun Hong and Zook, James},
abstractNote = {Single particle diffractive imaging data from Rice Dwarf Virus (RDV) were recorded using the Coherent X-ray Imaging (CXI) instrument at the Linac Coherent Light Source (LCLS). RDV was chosen as it is a well-characterized model system, useful for proof-of-principle experiments, system optimization and algorithm development. RDV, an icosahedral virus of about 70 nm in diameter, was aerosolized and injected into the approximately 0.1 μm diameter focused hard X-ray beam at the CXI instrument of LCLS. Diffraction patterns from RDV with signal to 5.9 Ångström were recorded. Here, the diffraction data are available through the Coherent X-ray Imaging Data Bank (CXIDB) as a resource for algorithm development, the contents of which are described here.},
doi = {10.1038/sdata.2016.64},
journal = {Scientific Data},
number = ,
volume = 3,
place = {United States},
year = {2016},
month = {8}
}
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Works referenced in this record:

Single Particle X-ray Diffractive Imaging
journal, January 2008
  • Bogan, Michael J.; Benner, W. Henry; Boutet, Sébastien
  • Nano Letters, Vol. 8, Issue 1, p. 310-316
  • DOI: 10.1021/nl072728k
Femtosecond X-ray protein nanocrystallography
journal, February 2011
  • Chapman, Henry N.; Fromme, Petra; Barty, Anton
  • Nature, Vol. 470, Issue 7332, p. 73-77
  • DOI: 10.1038/nature09750
Gas dynamic virtual nozzle for generation of microscopic droplet streams
journal, September 2008
  • DePonte, D. P.; Weierstall, U.; Schmidt, K.
  • Journal of Physics D: Applied Physics, Vol. 41, Issue 19, Article No. 195505
  • DOI: 10.1088/0022-3727/41/19/195505

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