IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v14y2023i1d10.1038_s41467-023-43634-z.html
   My bibliography  Save this article

Solving complex nanostructures with ptychographic atomic electron tomography

Author

Listed:
  • Philipp M. Pelz

    (Friedrich Alexander-Universität Erlangen-Nürnberg, IZNF
    University of California Berkeley
    Lawrence Berkeley National Laboratory)

  • Sinéad M. Griffin

    (Lawrence Berkeley National Laboratory
    Lawrence Berkeley National Laboratory)

  • Scott Stonemeyer

    (Lawrence Berkeley National Laboratory
    Kavli Energy NanoSciences Institute at the University of California at Berkeley
    University of California at Berkeley
    University of California at Berkeley)

  • Derek Popple

    (Lawrence Berkeley National Laboratory
    Kavli Energy NanoSciences Institute at the University of California at Berkeley
    University of California at Berkeley
    University of California at Berkeley)

  • Hannah DeVyldere

    (University of California Berkeley)

  • Peter Ercius

    (Lawrence Berkeley National Laboratory)

  • Alex Zettl

    (University of California Berkeley
    Lawrence Berkeley National Laboratory
    Kavli Energy NanoSciences Institute at the University of California at Berkeley
    University of California at Berkeley)

  • Mary C. Scott

    (University of California Berkeley
    Lawrence Berkeley National Laboratory
    Lawrence Berkeley National Laboratory)

  • Colin Ophus

    (Lawrence Berkeley National Laboratory)

Abstract

Transmission electron microscopy (TEM) is essential for determining atomic scale structures in structural biology and materials science. In structural biology, three-dimensional structures of proteins are routinely determined from thousands of identical particles using phase-contrast TEM. In materials science, three-dimensional atomic structures of complex nanomaterials have been determined using atomic electron tomography (AET). However, neither of these methods can determine the three-dimensional atomic structure of heterogeneous nanomaterials containing light elements. Here, we perform ptychographic electron tomography from 34.5 million diffraction patterns to reconstruct an atomic resolution tilt series of a double wall-carbon nanotube (DW-CNT) encapsulating a complex ZrTe sandwich structure. Class averaging the resulting tilt series images and subpixel localization of the atomic peaks reveals a Zr11Te50 structure containing a previously unobserved ZrTe2 phase in the core. The experimental realization of atomic resolution ptychographic electron tomography will allow for the structural determination of a wide range of beam-sensitive nanomaterials containing light elements.

Suggested Citation

  • Philipp M. Pelz & Sinéad M. Griffin & Scott Stonemeyer & Derek Popple & Hannah DeVyldere & Peter Ercius & Alex Zettl & Mary C. Scott & Colin Ophus, 2023. "Solving complex nanostructures with ptychographic atomic electron tomography," Nature Communications, Nature, vol. 14(1), pages 1-9, December.
  • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-43634-z
    DOI: 10.1038/s41467-023-43634-z
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-023-43634-z
    File Function: Abstract
    Download Restriction: no

    File URL: https://libkey.io/10.1038/s41467-023-43634-z?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Chien-Chun Chen & Chun Zhu & Edward R. White & Chin-Yi Chiu & M. C. Scott & B. C. Regan & Laurence D. Marks & Yu Huang & Jianwei Miao, 2013. "Three-dimensional imaging of dislocations in a nanoparticle at atomic resolution," Nature, Nature, vol. 496(7443), pages 74-77, April.
    2. Yi Jiang & Zhen Chen & Yimo Han & Pratiti Deb & Hui Gao & Saien Xie & Prafull Purohit & Mark W. Tate & Jiwoong Park & Sol M. Gruner & Veit Elser & David A. Muller, 2018. "Electron ptychography of 2D materials to deep sub-ångström resolution," Nature, Nature, vol. 559(7714), pages 343-349, July.
    3. Michael L. Whittaker & David Ren & Colin Ophus & Yugang Zhang & Laura Waller & Benjamin Gilbert & Jillian F. Banfield, 2022. "Ion complexation waves emerge at the curved interfaces of layered minerals," Nature Communications, Nature, vol. 13(1), pages 1-8, December.
    4. Zhiyuan Ding & Si Gao & Weina Fang & Chen Huang & Liqi Zhou & Xudong Pei & Xiaoguo Liu & Xiaoqing Pan & Chunhai Fan & Angus I. Kirkland & Peng Wang, 2022. "Three-dimensional electron ptychography of organic–inorganic hybrid nanostructures," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    5. Pierre Thibault & Andreas Menzel, 2013. "Reconstructing state mixtures from diffraction measurements," Nature, Nature, vol. 494(7435), pages 68-71, February.
    6. Si Gao & Peng Wang & Fucai Zhang & Gerardo T. Martinez & Peter D. Nellist & Xiaoqing Pan & Angus I. Kirkland, 2017. "Electron ptychographic microscopy for three-dimensional imaging," Nature Communications, Nature, vol. 8(1), pages 1-8, December.
    7. Yongsoo Yang & Chien-Chun Chen & M. C. Scott & Colin Ophus & Rui Xu & Alan Pryor & Li Wu & Fan Sun & Wolfgang Theis & Jihan Zhou & Markus Eisenbach & Paul R. C. Kent & Renat F. Sabirianov & Hao Zeng &, 2017. "Deciphering chemical order/disorder and material properties at the single-atom level," Nature, Nature, vol. 542(7639), pages 75-79, February.
    8. Jihan Zhou & Yongsoo Yang & Yao Yang & Dennis S. Kim & Andrew Yuan & Xuezeng Tian & Colin Ophus & Fan Sun & Andreas K. Schmid & Michael Nathanson & Hendrik Heinz & Qi An & Hao Zeng & Peter Ercius & Ji, 2019. "Observing crystal nucleation in four dimensions using atomic electron tomography," Nature, Nature, vol. 570(7762), pages 500-503, June.
    9. Martin Dierolf & Andreas Menzel & Pierre Thibault & Philipp Schneider & Cameron M. Kewish & Roger Wepf & Oliver Bunk & Franz Pfeiffer, 2010. "Ptychographic X-ray computed tomography at the nanoscale," Nature, Nature, vol. 467(7314), pages 436-439, September.
    10. Liqi Zhou & Jingdong Song & Judy S. Kim & Xudong Pei & Chen Huang & Mark Boyce & Luiza Mendonça & Daniel Clare & Alistair Siebert & Christopher S. Allen & Emanuela Liberti & David Stuart & Xiaoqing Pa, 2020. "Low-dose phase retrieval of biological specimens using cryo-electron ptychography," Nature Communications, Nature, vol. 11(1), pages 1-9, December.
    11. Zhen Chen & Michal Odstrcil & Yi Jiang & Yimo Han & Ming-Hui Chiu & Lain-Jong Li & David A. Muller, 2020. "Mixed-state electron ptychography enables sub-angstrom resolution imaging with picometer precision at low dose," Nature Communications, Nature, vol. 11(1), pages 1-10, December.
    Full references (including those not matched with items on IDEAS)

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Xudong Pei & Liqi Zhou & Chen Huang & Mark Boyce & Judy S. Kim & Emanuela Liberti & Yiming Hu & Takeo Sasaki & Peter D. Nellist & Peijun Zhang & David I. Stuart & Angus I. Kirkland & Peng Wang, 2023. "Cryogenic electron ptychographic single particle analysis with wide bandwidth information transfer," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    2. Zhiyuan Ding & Si Gao & Weina Fang & Chen Huang & Liqi Zhou & Xudong Pei & Xiaoguo Liu & Xiaoqing Pan & Chunhai Fan & Angus I. Kirkland & Peng Wang, 2022. "Three-dimensional electron ptychography of organic–inorganic hybrid nanostructures," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    3. Andreas Leitherer & Angelo Ziletti & Luca M. Ghiringhelli, 2021. "Robust recognition and exploratory analysis of crystal structures via Bayesian deep learning," Nature Communications, Nature, vol. 12(1), pages 1-13, December.
    4. Linze Li & Bin Ouyang & Zhengyan Lun & Haoyan Huo & Dongchang Chen & Yuan Yue & Colin Ophus & Wei Tong & Guoying Chen & Gerbrand Ceder & Chongmin Wang, 2023. "Atomic-scale probing of short-range order and its impact on electrochemical properties in cation-disordered oxide cathodes," Nature Communications, Nature, vol. 14(1), pages 1-9, December.
    5. Zezhou Li & Zhiheng Xie & Yao Zhang & Xilong Mu & Jisheng Xie & Hai-Jing Yin & Ya-Wen Zhang & Colin Ophus & Jihan Zhou, 2023. "Probing the atomically diffuse interfaces in Pd@Pt core-shell nanoparticles in three dimensions," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    6. Benedikt Diederichs & Ziria Herdegen & Achim Strauch & Frank Filbir & Knut Müller-Caspary, 2024. "Exact inversion of partially coherent dynamical electron scattering for picometric structure retrieval," Nature Communications, Nature, vol. 15(1), pages 1-9, December.
    7. Joel Martis & Sandhya Susarla & Archith Rayabharam & Cong Su & Timothy Paule & Philipp Pelz & Cassandra Huff & Xintong Xu & Hao-Kun Li & Marc Jaikissoon & Victoria Chen & Eric Pop & Krishna Saraswat &, 2023. "Imaging the electron charge density in monolayer MoS2 at the Ångstrom scale," Nature Communications, Nature, vol. 14(1), pages 1-8, December.
    8. Hyesung Jo & Dae Han Wi & Taegu Lee & Yongmin Kwon & Chaehwa Jeong & Juhyeok Lee & Hionsuck Baik & Alexander J. Pattison & Wolfgang Theis & Colin Ophus & Peter Ercius & Yea-Lee Lee & Seunghwa Ryu & Sa, 2022. "Direct strain correlations at the single-atom level in three-dimensional core-shell interface structures," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    9. Xinxing Peng & Philipp M. Pelz & Qiubo Zhang & Peican Chen & Lingyun Cao & Yaqian Zhang & Hong-Gang Liao & Haimei Zheng & Cheng Wang & Shi-Gang Sun & Mary C. Scott, 2022. "Observation of formation and local structures of metal-organic layers via complementary electron microscopy techniques," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    10. Shiva Shirani & Ana Cuesta & Alejandro Morales-Cantero & Isabel Santacruz & Ana Diaz & Pavel Trtik & Mirko Holler & Alexander Rack & Bratislav Lukic & Emmanuel Brun & Inés R. Salcedo & Miguel A. G. Ar, 2023. "4D nanoimaging of early age cement hydration," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    11. Zhongqiang Chen & Hongsong Qiu & Xinjuan Cheng & Jizhe Cui & Zuanming Jin & Da Tian & Xu Zhang & Kankan Xu & Ruxin Liu & Wei Niu & Liqi Zhou & Tianyu Qiu & Yequan Chen & Caihong Zhang & Xiaoxiang Xi &, 2024. "Defect-induced helicity dependent terahertz emission in Dirac semimetal PtTe2 thin films," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
    12. Vicky Zampeta & Gregory Chondrokoukis, 2023. "Maritime Transportation Accidents: A Bibliometric Analysis," International Journal of Business and Economic Sciences Applied Research (IJBESAR), International Hellenic University (IHU), Kavala Campus, Greece (formerly Eastern Macedonia and Thrace Institute of Technology - EMaTTech), vol. 16(1), pages 19-26, October.
    13. Peng Li & Nicholas W. Phillips & Steven Leake & Marc Allain & Felix Hofmann & Virginie Chamard, 2021. "Revealing nano-scale lattice distortions in implanted material with 3D Bragg ptychography," Nature Communications, Nature, vol. 12(1), pages 1-13, December.
    14. Binglu Zhang & Qisi Zhu & Chi Xu & Changtai Li & Yuan Ma & Zhaoxiang Ma & Sinuo Liu & Ruiwen Shao & Yuting Xu & Baolong Jiang & Lei Gao & Xiaolu Pang & Yang He & Guang Chen & Lijie Qiao, 2022. "Atomic-scale insights on hydrogen trapping and exclusion at incoherent interfaces of nanoprecipitates in martensitic steels," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    15. Simon Müller & Christina Sauter & Ramesh Shunmugasundaram & Nils Wenzler & Vincent Andrade & Francesco Carlo & Ender Konukoglu & Vanessa Wood, 2021. "Deep learning-based segmentation of lithium-ion battery microstructures enhanced by artificially generated electrodes," Nature Communications, Nature, vol. 12(1), pages 1-12, December.
    16. Tore Niermann & Laura Niermann & Michael Lehmann, 2024. "Three dimensional classification of dislocations from single projections," Nature Communications, Nature, vol. 15(1), pages 1-7, December.
    17. Jonathan Schwartz & Chris Harris & Jacob Pietryga & Huihuo Zheng & Prashant Kumar & Anastasiia Visheratina & Nicholas A. Kotov & Brianna Major & Patrick Avery & Peter Ercius & Utkarsh Ayachit & Berk G, 2022. "Real-time 3D analysis during electron tomography using tomviz," Nature Communications, Nature, vol. 13(1), pages 1-7, December.
    18. Anakha V. Babu & Tao Zhou & Saugat Kandel & Tekin Bicer & Zhengchun Liu & William Judge & Daniel J. Ching & Yi Jiang & Sinisa Veseli & Steven Henke & Ryan Chard & Yudong Yao & Ekaterina Sirazitdinova , 2023. "Deep learning at the edge enables real-time streaming ptychographic imaging," Nature Communications, Nature, vol. 14(1), pages 1-9, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-43634-z. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.