Establishing imaging method for solution structure of complex biomolecular systems utilizing femtosecond coherent X-rays

• Project/Area Number: 23651126
• Research Category: Grant-in-Aid for Challenging Exploratory Research
• Allocation Type: Multi-year Fund
• Research Field: Nanomaterials/Nanobioscience
• Research Institution: Hokkaido University
• Principal Investigator: NISHINO Yoshinori 北海道大学, 電子科学研究所, 教授 (40392063)
• Co-Investigator(Kenkyū-buntansha): JOTI Yasumasa (財)高輝度光科学研究センター, XFEL研究推進室, 研究員 (30360415) ; BESSHO Yoshitaka 独立行政法人理化学研究所, 機能解析第2研究チーム, チームリーダー (70242815)
• Co-Investigator(Renkei-kenkyūsha): TAKEUCHI Shoji 東京大学, 生産技術研究所, 准教授 (90343110)
• Project Period (FY): 2011 – 2012
• Project Status: Completed (Fiscal Year 2012)
• Budget Amount: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000); Fiscal Year 2012: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000); Fiscal Year 2011: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
• Keywords: コヒーレントX線 / フェムト秒 / 生体分子 / 放射線・X線・粒子線 / X線自由電子レーザー / コヒーレントＸ線 / 放射線、Ｘ 線、粒子線 / Ｘ線自由電子レーザー

Research Abstract

We published a review paper describing the basic concept of pulsed coherent x-ray solution scattering (PCXSS) that we are proposing. We developed environmental cells to be used for sample holders which enable measurement in a controlled environment. By numerical simulation, we designed experimental configurations and developed algorithms for data analysis. We performed PCXSS measurement by using an x-ray free-electron laser facility SACLA, and succeeded in recording single-shot coherent x-ray diffraction patterns.

Research Products

• [Journal Article] Time-resolved Bragg coherent X-ray diffraction revealing ultrafast lattice dynamics in nano-thickness crystal layer using X-ray free electron laser (2013)
  • Author(s): Yoshihito Tanaka、Kiminori Ito、Takashi Nakatani、Rena Onitsuka、Marcus C. Newton、Takahiro Sato、Tadashi Togashi、Makina Yabashi、Tomoya Kawaguchi、Koki Shimada、Kazuya Tokuda、Isao Takahashi、Tetsu Ichitsubo、Eiichiro Matsubara、Yoshinori Nishino
  • Journal Title: Journal of the Ceramic Society of Japan Volume: 121巻 Pages: 283-286
  • NAID: 130004950827
  • Peer Reviewed
• [Journal Article] zoom condenser lens for diffractive and scanning microscopy (2013)
  • Author(s): Takashi Kimura、Satoshi Matsuyama、Kazuto Yamauchi、Yoshinori Nishino、Coherent x-ray
  • Journal Title: Optics Express Volume: 21巻 Issue: 8 Pages: 9267-9267
  • DOI: 10.1364/oe.21.009267
  • Peer Reviewed / Open Access
• [Journal Article] Quantifying covalency and metallicity in correlated compounds undergoing metal-insulator transitions (2013)
  • Author(s): A. Chainani
  • Journal Title: Physical Review B Volume: 87 Issue: 4 Pages: 45108-45108
  • DOI: 10.1103/physrevb.87.045108
  • Peer Reviewed
• [Journal Article] Time-resolved Bragg coherent X-ray diffraction revealing ultrafast lattice dynamics in nano-thickness crystal layer using X-ray free electron laser (2013)
  • Author(s): Y. Tanaka
  • Journal Title: Journal of the Ceramic Society of Japan Volume: 121 Issue: 1411 Pages: 283-286
  • DOI: 10.2109/jcersj2.121.283
  • NAID: 130004950827
  • ISSN: 1348-6535, 1882-0743
  • Peer Reviewed
• [Journal Article] Structure of the hypothetical DUF1811-family protein GK0453 from Geobacillus kaustophilus HTA426. (2013)
  • Author(s): B. Padmanabhan
  • Journal Title: Acta Crystallographica Section F Volume: 69 Issue: 4 Pages: 342-345
  • DOI: 10.1107/s1744309113003369
  • Peer Reviewed
• [Journal Article] Conservation of two distinct types of 100S ribosome in bacteria. (2013)
  • Author(s): Ueta, M., et al
  • Journal Title: Genes to Cells Volume: 18 Issue: 7 Pages: 554-574
  • DOI: 10.1111/gtc.12057
  • Peer Reviewed
• [Journal Article] ヒトゲノムDNAの不規則で柔軟な収納原理 (2013)
  • Author(s): 前島一博
  • Journal Title: 日本生物物理学会誌 Volume: 53 Pages: 4-10
  • Peer Reviewed
• [Journal Article] Advances in X-ray scattering: from solution SAXS to achievements with coherent beams (2012)
  • Author(s): Javier Perez、Yoshinori Nishino
  • Journal Title: Current Opinion in Structural Biology Volume: 22巻 Issue: 5 Pages: 670-678
  • DOI: 10.1016/j.sbi.2012.07.014
  • Peer Reviewed
• [Journal Article] Chromosomes without a 30-nm chromatin fiber (2012)
  • Author(s): Yasumasa Joti、Takaaki Hikima、Yoshinori Nishino、Fukumi Kamada、Saera Hihara、Hideaki Takata、Tetsuya Ishikawa、Kazuhiro Maeshima
  • Journal Title: Nucleus Volume: 3巻 Issue: 5 Pages: 404-410
  • DOI: 10.4161/nucl.21222
  • Peer Reviewed
• [Journal Article] Human mitotic chromosomes consist predominantly of irregularly folded nucleosome fibres without a 30-nm chromatin structure (2012)
  • Author(s): Yoshinori Nishino、Mikhail Eltsov、Yasumasa Joti、Kazuki Ito、Hideaki Takata、Yukio Takahashi、Saera Hihara、Achilleas S Frangakis、Naoko Imamoto、Tetsuya Ishikawa、Kazuhiro Maeshima
  • Journal Title: The EMBO Journal Volume: 31巻 Issue: 7 Pages: 1644-1653
  • DOI: 10.1038/emboj.2012.35
  • Peer Reviewed
• [Journal Article] Photoemission Evidence for Valence Fluctuations and Kondo Resonance in YbAl2 (2012)
  • Author(s): M. Matsunami
  • Journal Title: Journal of the Physical Society of Japan Volume: 81 Issue: 7 Pages: 73702-73702
  • DOI: 10.1143/jpsj.81.073702
  • Peer Reviewed
• [Journal Article] Bonsu: the interactive phase retrieval suite (2012)
  • Author(s): M.C. Newton
  • Journal Title: Journal of Applied Crystallography Volume: 45 Issue: 4 Pages: 73702-73702
  • DOI: 10.1107/s0021889812026751
  • Peer Reviewed
• [Journal Article] Fast microtomography using bright monochromatic x-rays (2012)
  • Author(s): J. W. Jung
  • Journal Title: Review of Scientific Instruments Volume: 83 Issue: 9 Pages: 93704-93704
  • DOI: 10.1063/1.4751853
  • Peer Reviewed
• [Journal Article] A compact X-ray free-electron laser emitting in the sub- a^^。ngstrom region (2012)
  • Author(s): T. Ishikawa, H. Aoyagi, T. Asaka, Y. Asano, N. Azumi, T. Bizen, H. Ego, K. Fukami, T. Fukui, Y. Furukawa, S. Goto, H. Hanaki, T. Hara, T. Hasegawa, T. Hatsui, A. Higashiya, T. Hirono, N. Hosoda, M. Ishii, T. Inagaki, Y. Inubushi, T. Itoga, Y. Joti, M. Kago, T. Kameshima, H. Kimura, Y. Kirihara, A. Kiyomichi, T. Kobayashi, C. Kondo, T. Kudo, H. Maesaka, X. M. Marechal, T. Masuda, S. Matsubara, T. Matsumoto, T. Matsushita, S. Matsui, M. Nagasono, N. Nariyama, H. Ohashi, T. Ohata, T. Ohshima, S. Ono, Y. Otake, C. Saji, T. Sakurai, T. Sato, K. Sawada, T. Seike, K. Shirasawa, T. Sugimoto, S. Suzuki, S. Takahashi, H. Takebe, K. keshita, K. Tamasaku, H. Tanaka, R. Tanaka, T. Tanaka, T. Togashi, K. Togawa, A. Tokuhisa, H. Tomizawa, K. Tono, S. Wu, M. Yabashi, M. Yamaga, A. Yamashita, K. Yanagida, C. Zhang, T. Shintake, H. Kitamura and N. Kumagai
  • Journal Title: Nature Photonics Volume: 6 Issue: 8 Pages: 540-544
  • DOI: 10.1038/nphoton.2012.141
  • Peer Reviewed
• [Journal Article] X 線自由電子レーザー施設SACLAと次世代スパコン京の連携による生命科学研究と微小結晶構造解析 (2012)
  • Author(s): 矢橋牧名
  • Journal Title: 内分泌・糖尿病・代謝内科 Volume: 35 Pages: 565-571
• [Journal Article] X 線自由電子レーザー、SACLA のコミッショニングと実現された光源性能 (2012)
  • Author(s): 田中均
  • Journal Title: 日本加速器学会誌「加速器」 Volume: 9 Pages: 60-71
• [Journal Article] Single-nanometer focusing of hard x-rays by Kirkpatrick-Baez mirrors (2011)
  • Author(s): K.Yamauchi, et al.
  • Journal Title: J.Phys. : Condens.Matter Volume: 23 Issue: 39 Pages: 394206-394206
  • DOI: 10.1088/0953-8984/23/39/394206
  • Peer Reviewed
• [Journal Article] One-dimensional sub-10-nm hard X-ray focusing using laterally graded multilayer (2011)
  • Author(s): H.Mimura, et al.
  • Journal Title: Nucl.Instrum.Methods.A Volume: 635 Issue: 1 Pages: S16-S18
  • DOI: 10.1016/j.nima.2010.11.047
  • Peer Reviewed
• [Journal Article] Development of Coherent X-ray Diffraction Apparatus with Kirkpatrick-Baez Mirror Optics (2011)
  • Author(s): Y.Takahashi, R.Tsutsumi, H.Kubo, Y.Nishino, H.Mimura, S.Matsuyama, T.Ishikawa, K.Yamauchi
  • Journal Title: AIP Conference Proceedings (The 10th International Conference on x-ray microscopy) Volume: 1635 Pages: 231-234
  • DOI: 10.1063/1.3625346
  • Peer Reviewed
• [Journal Article] Element-specific High-resolution Diffraction Microscopy using Focused Hard X-ray Beam (2011)
  • Author(s): Y.Takahashi, Y.Nishino, R.Tsutsumi, H.Kubo, N.Zettsu, K.Yamauchi, T.Ishikawa, E.Matsubara
  • Journal Title: Diamond Light Source Proceedings(SRMS-7 2011) Volume: 1 Issue: SRMS-7
  • DOI: 10.1017/s2044820111000013
  • Peer Reviewed
• [Journal Article] X-ray Diffraction Limit Workshop Series Workshop 1 - Diffraction Microscopy, Holography and Ptychography using Coherent Beams 報告 (2011)
  • Author(s): 西野吉則
  • Journal Title: 放射光 Volume: 24 Pages: 273-274
  • NAID: 10029463208
  • Peer Reviewed
• [Journal Article] コヒーレントX線イメージング (2011)
  • Author(s): 西野吉則
  • Journal Title: 計測と制御 Volume: 50 Pages: 314-319
  • NAID: 10028213403
  • Peer Reviewed
• [Presentation] X線自由電子レーザー施設SACLAがついに指導～Ｘ線イメージングの最前線～ (2013)
  • Author(s): 西野吉則
  • Organizer: 第23回生物試料分析科学会
  • Place of Presentation: 新梅田研修センター（大阪）
  • Invited
• [Presentation] Ｘ線自由電子レーザーによる先端的イメージング (2013)
  • Author(s): 西野吉則
  • Organizer: 物質・デバイス領域共同研究拠点」[B-1]公開シンポジウム
  • Place of Presentation: 北海道大学（札幌市）
• [Presentation] Coherent Imaging with XFEL (2012)
  • Author(s): Yoshinori Nishino
  • Organizer: The 5th International Workshop on FEL Science: Creation of New Science
  • Place of Presentation: Gyeongju Hilton (Korea)
  • Year and Date: 2012-10-29
• [Presentation] Towards Synergistic Use of SACLA and K Computer for Bio-Molecular Imaging (2012)
  • Author(s): Yasumasa Joti
  • Organizer: The 5th International Workshop on FEL Science: Creation of New Science
  • Place of Presentation: Gyeongju Hilton (Korea)
  • Year and Date: 2012-10-29
• [Presentation] Exploring the Nanoworld using Coherent X-rays (2012)
  • Author(s): Yoshinori Nishino
  • Organizer: Korean Physical Society Meeting (KPS2012-Spring)
  • Place of Presentation: Daejeon Convention Center(Korea)
  • Year and Date: 2012-04-26
• [Presentation] Exploring the Nanoworld using Coherent X-rays (2012)
  • Author(s): Y. Nishino
  • Organizer: Korean Physical Society Meeting (KPS2012-Spring)
  • Place of Presentation: Daejeon Convention Center, Korea
  • Invited
• [Presentation] Coherent Imaging with XFEL (2012)
  • Author(s): Y. Nishino
  • Organizer: The 17th Sagamore Conference: IUCr Commission on Charge, Spin and Momentum Densities
  • Place of Presentation: 第二名水亭, 伊達市北湯沢
  • Invited
• [Presentation] Coherent Imaging with XFEL (2012)
  • Author(s): Y. Nishino
  • Organizer: International workshop on 3D atomic imaging at nano-scale active sites in materials (3D-AINAS 2012)
  • Place of Presentation: ISSP, Univ. of Tokyo, Japan
  • Invited
• [Presentation] Coherent Imaging with XFEL (2012)
  • Author(s): Y. Nishino
  • Organizer: The 5th International Workshop on FEL Science: Creation of New Science
  • Place of Presentation: Gyeongju Hilton, Korea
  • Invited
• [Presentation] Towards Synergistic Use of SACLA and K Computer for Bio-Molecular Imaging (2012)
  • Author(s): Y. Joti
  • Organizer: The 5th International Workshop on FEL Science: Creation of New Science
  • Place of Presentation: Gyeongju Hilton, Korea
  • Invited
• [Presentation] コヒーレントＸ線を用いた自然の階層をまたいだイメージング (2012)
  • Author(s): 西野吉則
  • Organizer: 第2回複雑系数理とその応用に関するシンポジウム
  • Place of Presentation: 北海道大学（札幌市）
  • Invited
• [Presentation] コヒーレンＸ線イメージング (2012)
  • Author(s): 西野吉則
  • Organizer: 附置研究所間アライアンスによるナノとマクロをつなぐ物質・デバイス・システム創製戦略プロジェクト 平成２３年度 成果報告会
  • Place of Presentation: 東京工業大学（東京）
• [Presentation] SACLAにおけるコヒーレント回折イメージング手法の開発 (2012)
  • Author(s): 城地 保昌
  • Organizer: 第18回ビジュアライゼーションカンファレンス
  • Place of Presentation: タイム24ビル（東京）
  • Invited
• [Presentation] tRNA修飾酵素が主導する遺伝暗号の進化 (2012)
  • Author(s): 別所義隆
  • Organizer: 日本進化学会第１４回東京大会
  • Place of Presentation: 首都大学東京（東京）
  • Invited
• [Presentation] SPring-8/XFELの新しい光に期待される生体分子イメージング手法の開発 (2012)
  • Author(s): 別所義隆
  • Organizer: 日本宇宙生物科学会第26回大会
  • Place of Presentation: 阿波観光ホテル（徳島県徳島市）
• [Presentation] Research and development of bio-molecular imaging technology at SPring-8/SACLA. 「SPring-8/SACLAのＸ線利用技術: 生体試料イメージング手法の開発」 (2012)
  • Author(s): 別所義隆
  • Organizer: 第2回モデル生物丸ごと一匹学会
  • Place of Presentation: SPring-8（兵庫県佐用郡佐用町）
• [Presentation] SPring-8/XFEL の新しい光に期待する生体試料イメージング手法の開発 (2012)
  • Author(s): 別所義隆
  • Organizer: 第5回アストロバイオロジー・ワークショップ
  • Place of Presentation: 国立天文台（東京都三鷹市）
• [Presentation] SPring-8/SACLAでのXFEL:生体試料イメージング手法の開発 (2012)
  • Author(s): 別所義隆
  • Organizer: 第35回日本分子生物学会年会
  • Place of Presentation: 福岡国際会議場・マリンメッセ福岡（福岡県福岡市）
• [Presentation] コヒーレントイメージング (2012)
  • Author(s): 西野吉則
  • Organizer: 日本学術振興会回折構造生物第169委員会第38回研究会(招待講演)
  • Place of Presentation: ゆうぽうと（東京都品川区）
• [Presentation] コヒーレントＸ線イメージング (2012)
  • Author(s): 西野吉則
  • Organizer: 北海道大学電子科学研究所平成23年度 研究交流会
  • Place of Presentation: 北海道大学（札幌市）
• [Presentation] Toward Coherent Imaging Using XFEL (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: The 4th International Workshop on FEL Science
  • Place of Presentation: Peppers Beach Club andSpa (Australia)
  • Year and Date: 2011-08-31
• [Presentation] Imaging Cellular Organelles (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: X-ray Diffraction Limit Workshop Series Workshop 1 -Diffraction Microscopy, Holography and Ptychography using Coherent Beams-
  • Place of Presentation: Cornell University (USA)
  • Year and Date: 2011-06-06
• [Presentation] コヒーレントＸ線イメージング (2011)
  • Author(s): 西野吉則
  • Organizer: 平成23年度日本顕微鏡学会北海道支部学術講演会(招待講演)
  • Place of Presentation: 北海道大学（札幌市）
• [Presentation] Exploring the Nanoworld using Coherent X-rays (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: The 12th RIES-Hokudai International Symposium(招待講演)
  • Place of Presentation: Chateraise Gateaux Kingdom Sapporo (Hokkaido)
• [Presentation] コヒーレント光イメージング (2011)
  • Author(s): 西野吉則
  • Organizer: 第11回Ｘ線結像光学シンポジウム(招待講演)
  • Place of Presentation: 東北大学（仙台市）
• [Presentation] Photonics / Optics Research in RIES, Hokkaido University (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: Discussion meetings at ENS de Lyon
  • Place of Presentation: Ecole Normale Superieure de Lyon (France)
• [Presentation] Laboratory of Coherent X-ray Optics (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: The France-Japan workshop "Bio-inspired approaches: Micro- and Nano- Architectures, Materials & Imaging"
  • Place of Presentation: Institut Europeen de Chimie et Biologie (France)
• [Presentation] Toward Coherent X-ray Diffraction using XFEL (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: JSPS-DFG Bilateral Seminar on "Use of X-ray Free- Electron Lasers for Nano- and Life-Sciences"(招待講演)
  • Place of Presentation: Kyoto University (Kyoto City)
• [Presentation] 極端紫外線自由電子レーザーを用いたフェムト秒ホログラフィー (2011)
  • Author(s): 西野吉則
  • Organizer: 日本物理学会2011年秋季大会(招待講演)
  • Place of Presentation: 富山大学（富山市）
• [Presentation] コヒーレントX線を利用したバイオイメージング (2011)
  • Author(s): 西野吉則
  • Organizer: 日本学術振興会マイクロビームアナリシス第141委員会 第145 回研究会(招待講演)
  • Place of Presentation: 名城大学（名古屋市）
• [Presentation] Toward Coherent Imaging Using XFEL (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: The 4th International Workshop on FEL Science(招待講演)
  • Place of Presentation: Peppers Beach Club and Spa (Australia)
• [Presentation] WS1 "Diffraction Microscopy, Holography and Ptychography using Coherent Beams" の報告 (2011)
  • Author(s): 西野吉則
  • Organizer: XDL2011ワークショップ報告会(招待講演)
  • Place of Presentation: 研究交流センター国際会議場 （茨城県）
• [Presentation] コヒーレントX線を活用したナノイメージング (2011)
  • Author(s): 西野吉則
  • Organizer: レーザ顕微鏡研究会第37回講演会(招待講演)
  • Place of Presentation: 理化学研究所（和光市）
• [Presentation] Imaging Cellular Organelles (2011)
  • Author(s): Yoshinori Nishino
  • Organizer: X-ray Diffraction Limit Workshop Series Workshop 1 - Diffraction Microscopy, Holography and Ptychography using Coherent Beams(招待講演)
  • Place of Presentation: Cornell University (USA)
• [Presentation] XFELを用いた超高速現象のコヒーレントイメージングに向けて (2011)
  • Author(s): 西野吉則
  • Organizer: 日本学術振興会 アモルファス・ナノ材料第147委員会 第112回研究会(招待講演)
  • Place of Presentation: 弘済会館（東京都）
• [Book] Synchrotron Radiation and Structural Proteomics (2011)
  • Author(s): Yoshinori Nishino
  • Publisher: Pan Stanford Publishing
• [Book] 放射光が解き明かす驚異のナノ世界-魔法の光が拓く物質世界の可能性- (2011)
  • Author(s): 西野吉則
  • Publisher: 講談社
• [Book] 放射光が解き明かす驚異のナノ世界-魔法の光が拓く物質世界の可能性- (2011)
  • Author(s): 石川哲也、北村英男、矢橋牧名、西野吉則、足立伸一
  • Publisher: 講談社
• [Book] Synchrotron Radiation and Structural Proteomics (Pan Stanford Series on Nanobiotechnology Vol.3) (2011)
  • Author(s): Eugenia Pechkova and Christian Riedel, Eds.
  • Total Pages: 300
  • Publisher: Pan Stanford Publishing,
• [Book] ブルーバックス「放射光が解き明かす驚異のナノ世界 -魔法の光が拓く物質世界の可能性-」 (2011)
  • Author(s): 日本放射光学会編
  • Total Pages: 276
  • Publisher: 講談社
• [Remarks]
  • URL: http://cxo-www.es.hokudai.ac.jp/
• [Remarks] http://cxo-www.es.hokudai.ac.jp/