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Single nano crystal analysis using automated electron diffraction tomography

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Abstract

Most of hitherto unknown natural phases and many new synthetic compounds can grow only in the form of nanocrystals. X-ray powder diffraction is the most widespread technique for the structural characterization of nanomaterials, but its use is limited by two main restrictions: structural information is projected in one dimension and data come from the whole sample and not from a specific single crystallite. On the other hand, crystallographic methods based on the scattering of accelerated electrons are able to obtain 3-D structural data from single volumes of few tens of nanometers. Automated diffraction tomography is a recently developed method able to record more kinematical and complete electron diffraction data. This method consists in the acquisition of a series of electron diffraction patterns while the sample is rotated around an arbitrary tilt axis by sequential mechanical steps, within the full tilt range of the microscope goniometer. Data collection can be performed on highly beam sensitive materials, as no time is required for orienting the crystal along specific crystallographic orientations and mild illumination conditions are used. In the last years many nanocrystalline materials belonging to different material classes have been characterized by automated diffraction tomography. This review describes the different experimental and analytical approaches used for the determination of inorganic and organic phases and points out the advantages offered by automated diffraction tomography for the characterization of minor phases available only in polyphasic nanomixtures and for the description of domain arrangement in polycrystalline nanocomposites.

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References

  • Birkel CS, Mugnaioli E, Gorelik T, Kolb U, Panthöfer M, Tremel W (2010) Solution synthesis of a new thermoelectric Zn1+x Sb nanophase and its structure determination using automated electron diffraction tomography. J Am Chem Soc 132:9881–9889

    Article  CAS  Google Scholar 

  • Burla MC, Caliandro R, Camalli M, Carrozzini B, Cascarano GL, De Caro L, Giacovazzo C, Polidori G, Siliqi D, Spagna R (2007) IL MILIONE: a suite of computer programs for crystal structure solution of proteins. J Appl Crystallogr 40:609–613

    Article  CAS  Google Scholar 

  • Burla MC, Caliandro R, Camalli M, Carrozzini B, Cascarano GL, Giacovazzo C, Mallamo M, Mazzone A, Polidori G, Spagna R (2012) SIR2011: a new package for crystal structure determination and refinement. J Appl Crystallogr 45:357–361

    Article  CAS  Google Scholar 

  • Burla MC, Caliandro R, Carrozzini B, Cascarano GL, Giacovazzo C, Mallamo M, Mazzone A, Polidori G (2014) Sir2014 v1.0 beta. http://www.ba.ic.cnr.it/content/sir2011-v10. Accessed 11 Feb 2014

  • Capitani GC, Mugnaioli E, Rius J, Gentile P, Catelani T, Lucotti A, Kolb U (2014a) The bi sulfates from the Alfenza Mine, Crodo, Italy: an automatic electron diffraction tomography (ADT) study. Am Miner 99:500–510

    Article  Google Scholar 

  • Capitani GC, Catelani T, Gentile P, Lucotti A, Zema M (2014b) Cannonite [Bi2O(SO4)(OH)2] from Alfenza (Crodo, Italy): crystal structure and morphology. Miner Mag 77:3067–3079

    Article  Google Scholar 

  • Cora I, Dódony I, Pekker P (2014) Electron crystallographic study of a kaolinite single crystal. Appl Clay Sci 90:6–10

    Article  CAS  Google Scholar 

  • Denysenko D, Grzywa M, Tonigold M, Streppel B, Krkljus I, Hirscher M, Mugnaioli E, Kolb U, Hanss J, Volkmer D (2011) elucidating gating effects for hydrogen sorption in MFU-4-type triazolate-based metal-organic frameworks featuring different pore sizes. Chem Eur J 17:1837–1848

    Article  CAS  Google Scholar 

  • Dorset DL (2007) Electron crystallography of organic materials. Ultramicroscopy 107:453–461

    Article  CAS  Google Scholar 

  • Dorset DL, Hauptman HA (1976) Direct phase determination for quasi-kinematical electron diffraction intensity data from organic microcrystals. Ultramicroscopy 1:195–201

    Article  CAS  Google Scholar 

  • Dorset DL, Roth WJ, Gilmore CJ (2005) Electron crystallography of zeolites—the MWW family as a test of direct 3D structure determination. Acta Crystallogr A 61:516–527

    Article  Google Scholar 

  • Doyle PA, Turner PS (1968) Relativistic Hartree-Fock X-ray and electron scattering factors. Acta Crystallogr A 24:390–397

    Article  CAS  Google Scholar 

  • Fan J, Carrillo-Cabrera W, Akselrud L, Antonyshyn I, Chen L, Grin Y (2013) New monoclinic phase at the composition Cu2SnSe3 and its thermoelectric properties. Inorg Chem 52:11067–11074

    Article  CAS  Google Scholar 

  • Faruqi AR, Henderson R, Tlustos L (2005) Noiseless direct detection of electrons in Medipix2 for electron microscopy. Nucl Instrum Meth A 546:160–163

    Article  CAS  Google Scholar 

  • Feyand M, Mugnaioli E, Vermoortele F, Bueken B, Dieterich JM, Reimer T, Kolb U, de Vos D, Stock N (2012) Automated diffraction tomography for the structure elucidation of twinned, sub-micrometer crystals of a highly porous, catalytically active bismuth metal-organic framework. Angew Chem Int Ed 51:10373–10376

    Article  CAS  Google Scholar 

  • Gemmi M, Fischer J, Merlini M, Poli S, Fumagalli P, Mugnaioli E, Kolb U (2011) A new hydrous Al-bearing pyroxene as a water carrier in subduction zones. Earth Planet Sci Lett 310:422–428

    Article  CAS  Google Scholar 

  • Gemmi M, Campostrini I, Demartin F, Gorelik TE, Gramaccioli CM (2012) Structure of the new mineral sarrabusite, Pb5CuCl4(SeO3)4, solved by manual electron-diffraction tomography. Acta Crystallogr B 68:15–23

    Article  CAS  Google Scholar 

  • Gorelik TE, van de Streek J, Kilbinger AFM, Brunklaus G, Kolb U (2012) Ab-initio crystal structure analysis and refinement approaches of oligo p-benzamides based on electron diffraction data. Acta Crystallogr B 68:171–181

    Article  CAS  Google Scholar 

  • Grosse-Kunstleve RW, McCusker LB, Baerlocher C (1997) Powder diffraction data and crystal chemical Information combined in an automated structure determination procedure for zeolites. J Appl Crystallogr 30:985–995

    Article  CAS  Google Scholar 

  • Hoshyargar F, Mugnaioli E, Branscheid R, Kolb U, Panthöfer M, Tremel W (2014) Structure analysis on the nanoscale: closed WS2 nanoboxes through a cascade of topo- and epitactic processes. Cryst Eng Comm 16:5087–5092

    Article  CAS  Google Scholar 

  • Jiang J, Jorda JL, Yu J, Baumes LA, Mugnaioli E, Diaz-Cabanas MJ, Kolb U, Corma A (2011) Synthesis and structure determination of the hierarchical meso-microporous zeolite ITQ-43. Science 333:1131–1134

    Article  CAS  Google Scholar 

  • Kirkpatrick S, Gelatt CD Jr, Vecchi MP (1983) Optimization by simulated annealing. Science 220:671–680

    Article  CAS  Google Scholar 

  • Kolb U, Gorelik T, Kübel C, Otten MT, Hubert D (2007) Towards automated diffraction tomography: Part I—data acquisition. Ultramicroscopy 107:507–513

    Article  CAS  Google Scholar 

  • Kolb U, Gorelik T, Otten MT (2008) Towards automated diffraction tomography. Part II—cell parameter determination. Ultramicroscopy 108:763–772

    Article  CAS  Google Scholar 

  • Kolb U, Gorelik T, Mugnaioli E (2009) Automated diffraction tomography combined with electron precession: a new tool for ab initio nanostructure analysis. In: Moeck P, Hovmöller S, Nicolopoulos S, Rouvimov S, Petkov V, Gateshki M, Fraundorf P (eds) Electron crystallography for materials research and quantitative characterization of nanostructured materials, MRS symposium proceedings, vol 1184. Cambridge University Press, Cambridge, pp 11–23

    Google Scholar 

  • Kolb U, Gorelik TE, Mugnaioli E, Stewart A (2010) Structural characterization of organics using manual and automated electron diffraction. Polym Rev 50:385–409

    Article  CAS  Google Scholar 

  • Kolb U, Mugnaioli E, Gorelik TE (2011) Automated electron diffraction tomography—a new tool for nano crystal structure analysis. Cryst Res Technol 46:542–554

    Article  CAS  Google Scholar 

  • Mugnaioli E, Kolb U (2013) Applications of automated diffraction tomography (ADT) on nanocrystalline porous materials. Micropor Mesopor Mat 166:93–101

    Article  CAS  Google Scholar 

  • Mugnaioli E, Kolb U (2014) Structure solution of zeolites by automated electron diffraction tomography—impact and treatment of preferential orientation. Micropor Mesopor Mat 189:107–114

    Article  CAS  Google Scholar 

  • Mugnaioli E, Gorelik T, Kolb U (2009a) ‘‘Ab initio’’ structure solution from electron diffraction data obtained by a combination of automated diffraction tomography and precession technique. Ultramicroscopy 109:758–765

    Article  CAS  Google Scholar 

  • Mugnaioli E, Natalio F, Schloßmacher U, Wang X, Müller WEG, Kolb U (2009b) Crystalline nanorods as possible templates for the synthesis of amorphous biosilica during spicule formation in demospongiae. Chembiochem 10:683–689

    Article  CAS  Google Scholar 

  • Mugnaioli E, Andrusenko I, Schüler T, Loges N, Dinnebier RE, Panthöfer M, Tremel W, Kolb U (2012) Ab initio structure determination of vaterite by automated electron diffraction. Angew Chem Int Ed 51:7041–7045

    Article  CAS  Google Scholar 

  • Mugnaioli E, Reyes-Gasga J, Kolb U, Hemmerlé J, Brès ÉF (2014) Evidence of noncentrosymmetry of human tooth hydroxyapatite crystals. Chem Eur J 20:6849–6852

    Article  CAS  Google Scholar 

  • Nannenga BL, Shi D, Leslie AGW, Gonen T (2014) High-resolution structure determination by continuos-rotation data collection in MicroED. Nat Methods 11:927–930

    Article  CAS  Google Scholar 

  • Nederlof I, van Genderen E, Li Y-W, Abrahams JP (2013) A medipix quantum area detector allows rotation electron diffraction data collection from submicrometre three-dimensional protein crystals. Acta Crystallogr D 69:1223–1230

    Article  CAS  Google Scholar 

  • Nicolopoulos S, González-Calbet JM, Vallet-Regí M, Corma A, Corell C, Guil JM, Pérez-Pariente J (1995) Direct phasing in electron crystallography: Ab initio determination of a new MCM-22 zeolite structure. J Am Chem Soc 117:8947–8956

    Article  CAS  Google Scholar 

  • Own CS, Marks LD, Sinkler W (2006) Precession electron diffraction 1: multislice simulation. Acta Crystallogr A 62:434–443

    Article  CAS  Google Scholar 

  • Palatinus L, Klementová M, Dřínek V, Jarošová M, Petříček V (2011) An incommensurately modulated structure of η′-phase of Cu3+xSi determined by quantitative electron diffraction tomography. Inorg Chem 50:3743–3751

    Article  CAS  Google Scholar 

  • Putz H, Schön JC, Jansen M (1999) Combined method for ab initio structure solution from powder diffraction data. J Appl Cryst 32:864–870

    Article  CAS  Google Scholar 

  • Rius J (2014) Application of Patterson-function direct methods to materials characterization. IUCrJ 1:291–304

    Article  CAS  Google Scholar 

  • Rius J, Mugnaioli E, Vallcorba O, Kolb U (2013) Application of δ recycling to electron automated diffraction tomography data from inorganic crystalline nanovolumes. Acta Crystallogr A 69:396–407

    Article  CAS  Google Scholar 

  • Rozhdestvenskaya IV, Kogure T, Abe E, Drits VA (2009) A structural model for charoite. Miner Mag 73:883–890

    Article  CAS  Google Scholar 

  • Rozhdestvenskaya I, Mugnaioli E, Czank M, Depmeier W, Kolb U, Reinholdt A, Weirich T (2010) The structure of charoite, (K, Sr, Ba, Mn)15–16(Ca, Na)32[(Si70(O, OH)180)](OH, F)4.0∙nH2O, solved by conventional and automated electron diffraction. Miner Mag 74:159–177

    Article  CAS  Google Scholar 

  • Rozhdestvenskaya IV, Mugnaioli E, Czank M, Depmeier W, Kolb U, Merlino S (2011) Essential features of the polytypic charoite-96 structure compared to charoite-90. Miner Mag 75:2833–2846

    Article  CAS  Google Scholar 

  • Samuha S, Mugnaioli E, Grushko B, Kolb U, Meshi L (2014) Atomic structure solution of the complex quasi-crystal approximant Al77Rh15Ru8 from electron diffraction data. Acta Crystallogr B 70:999–1005

    Article  CAS  Google Scholar 

  • Schlitt S, Gorelik TE, Stewart AA, Schömer E, Raasch T, Kolb U (2012) Application of clustering techniques to electron-diffraction data: determination of unit-cell parameters. Acta Crystallogr A 68:536–546

    Article  CAS  Google Scholar 

  • Shi D, Nannenga BL, Iadanza MG, Gonen T (2013) Three-dimensional electron crystallography of protein microcrystals. eLife 2:e01345

  • Smeets S, McCusker LB, Baerlocher C, Mugnaioli E, Kolb U (2013) Using FOCUS to solve zeolite structures from three-dimensional electron diffraction data. J Appl Crystallogr 46:1017–1023

    Article  CAS  Google Scholar 

  • Vainshtein BK (1964) Structure analysis by electron diffraction. Pergamon Press, Oxford

    Google Scholar 

  • Vincent R, Midgley PA (1994) Double conical beam-rocking system for measurement of integrated electron diffraction intensities. Ultramicroscopy 53:271–282

    Article  CAS  Google Scholar 

  • Voigt-Martin IG, Yan DH, Yakimansky A, Schollmeyer D, Gilmore CJ, Bricogne G (1995) Structure determination by electron crystallography using both maximum-entropy and simulation approaches. Acta Crystallogr A 51:849–868

    Article  Google Scholar 

  • Wagner P, Terasaki O, Ritsch S, Nery JG, Zones SI, Davis ME, Hiraga K (1999) Electron diffraction structure solution of a nanocrystalline zeolite at atomic resolution. J Phys Chem B 103:8245–8250

    Article  CAS  Google Scholar 

  • Weirich TE, Ramlau R, Simon A, Hovmöller S, Zou X (1996) A crystal structure determined with 0.02 Å accuracy by electron microscopy. Nature 382:144–146

    Article  CAS  Google Scholar 

  • Zhang D, Oleynikov P, Hovmöller S, Zou X (2010) Collecting 3D electron diffraction data by the rotation method. Z Kristallogr 225:94–102

    Article  CAS  Google Scholar 

  • Zhukhlistov AP, Avilov AS, Ferraris D, Zvyagin BB, Plotnikov VP (1997) Statistical distribution of hydrogen over three positions in the brucite Mg(OH)2 structure from electron diffractometry data. Crystallogr Rep 42:774–777

    Google Scholar 

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Acknowledgments

I thank Ute Kolb, Tatiana E. Gorelik, Andrew A. Stewart and Iryna Andrusenko for collaborating in ADT development and application and Stefano Merlino for inviting me to write this review. This work was supported by the Italian project FIRB2013—exploring the nanoworld.

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Correspondence to Enrico Mugnaioli.

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Mugnaioli, E. Single nano crystal analysis using automated electron diffraction tomography. Rend. Fis. Acc. Lincei 26, 211–223 (2015). https://doi.org/10.1007/s12210-014-0371-4

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