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EMBL Imaging Centre

Open access to cutting-edge electron and light microscopy

We provide researchers from Europe and beyond with a synergistic portfolio of imaging services including cryo-EM, super-resolution and intravital microscopy to enable new ground-breaking research that crosses the scales of biology.

User Stories & Publications

The user stories and publications listed are mostly based on the succesful interim service operation in cryo-electron microscopy by EMBL’s cryo-EM platform.

However in September 2021 we welcomed our first onsite user Pia Lavriha who came to use our correlative microscopy services. Read more.

Pia Lavriha

ETH Zurich and Paul Scherrer Institute, Switzerland

In October 2021 we welcomed our first onsite pilot user for light microscopy services – Danny Ionescu: “For me, it was a fantastic experience, both from a technological and scientific aspect but also due to the engagement of the imaging center team who made all efforts to address my research needs and provide methods specifically tailored for my unique samples.”

Danny Ionescu

Leibniz Institute of Freshwater Ecology and Inland Fisheries, Germany

User Stories

Ron Diskin

Weizmann Institute of Science, Israel

“If there’s a possibility to get scope time in Heidelberg, that would be a better choice than any other microscope in the world today, just because of the little tweaks they made. We were able for the first time to determine the structure of FAS-1 multi-enzyme complex to high enough resolution to now try the approach to locate the drug bound to the complex.” Read more

Volodymyr Korkhov

Institute of Biochemistry, ETH Zurich, Switzerland

“Using the data collected at EMBL, we were able to reconstruct the 3D structure of the membrane adenylyl cyclase AC9 bound to a G protein alpha subunit at 3.4 Å resolution and publish it in Science in April 2019.Read more

Giulia Zanetti

Department of Biological Sciences, Birkbeck College, United Kingdom

“At EMBL we collected a dataset that we used to obtain a 4.9 Å structure of the assembled COPII coat, now published in Nature Communications. This is the highest-resolution structure of a membrane-assembled coat, and one of the highest-resolution subtomogram averages obtained so far.” Read more

Albert Weixlbaumer

Institute of Genetics and Molecular and Cellular Biology, France

“The resolution of data we collected at EMBL was high enough to visualise the bound substrate in the active site, and a single dataset allowed us to directly visualise two mutually exclusive states – the reactivated, substrate-bound state of RNA polymerase and the Gre factor-bound state.” Read more

Matthias Schmidt

Institute of Protein Biochemistry, Ulm University, Germany

“The samples I’m working with are often unevenly distributed on a grid and in the holes. Wim Hagen from EMBL Cryo-EM platform helped find a solution to manually pick the sample in an efficient way with SerialEM and get good results for two Nature Communications papers.” Read more

Publications

2022

Saridakis E, Vishwakarma R, Lai-Kee-Him J, Martin K, Simon I, Cohen-Gonsaud M, Coste F, Bron P, Margeat E, Boudvillain M. (2022)
Cryo-EM structure of transcription termination factor Rho from Mycobacterium tuberculosis reveals bicyclomycin resistance mechanism. 
Commun Biol. 2022 Feb 9;5(1):120. https://doi.org/10.1038/s42003-022-03069-6.

Hochheiser IV, Pilsl M, Hagelueken G, Moecking J, Marleaux M, Brinkschulte R, Latz E, Engel C, Geyer M. (2022)
Structure of the NLRP3 decamer bound to the cytokine release inhibitor CRID3.
Nature. 2022 Feb 3. https://doi.org/10.1038/s41586-022-04467-w.

Heerde T, Rennegarbe M, Biedermann A, Savran D, Pfeiffer PB, Hitzenberger M, Baur J, Puscalau-Girtu I, Zacharias M, Schwierz N, Haupt C, Schmidt M, Fändrich M. (2022)
Cryo-EM demonstrates the in vitro proliferation of an ex vivo amyloid fibril morphology by seeding.
Nat Commun 13, 85. https://www.nature.com/articles/s41467-021-27688-5.

Kišonaitė M, Wild K, Lapouge K, Ruppert T, Sinning I. (2022)
High-resolution structures of a thermophilic eukaryotic 80S ribosome reveal atomistic details of translocation.
Nat Commun 13, 476. https://doi.org/10.1038/s41467-022-27967-9.


2021

Andriko von Kügelgen, Vikram Alva, Tanmay A.M. Bharat (2021)
Complete atomic structure of a native archaeal cell surface
Cell Reports https://doi.org/10.1016/j.celrep.2021.110052

Ru Ta Gerasimaitė, Jonas Bucevičius, Kamila A Kiszka, Sebastian Schnorrenberg, Georgij Kostiuk, Tanja Koenen, Gražvydas Lukinavičius (2021)
Blinking Fluorescent Probes for Tubulin Nanoscopy in Living and Fixed Cells
ACS Chem Biol https://pubs.acs.org/doi/10.1021/acschembio.1c00538

Qin Yu, Alba Herrero del Valle, Rahul Singh, Yorgo Modis (2021)
MDA5 disease variant M854K prevents ATP-dependent structural discrimination of viral and cellular RNA
Nat Communications https://doi.org/10.1038/s41467-021-27062-5

Irma Querques, Michael Schmitz, Seraina Oberli, Christelle Chanez, Martin Jinek (2021)
Target site selection and remodelling by type V CRISPR-transposon systems
Nature https://doi.org/10.1038/s41586-021-04030-z

Juan C Canul-Tec, Anand Kumar, Jonathan Dhenin, Reda Assal, Pierre Legrand, Martial Rey, Julia Chamot-Rooke, Nicolas Reyes (2021)
The ion-coupling mechanism of human excitatory amino acid transporters
EMBO J https://doi.org/10.15252/embj.2021108341

Lynn Radamaker, Sara Karimi-Farsijani, Giada Andreotti, Julian Baur, Matthias Neumann, Sarah Schreiner, Natalie Berghaus, Raoul Motika, Christian Haupt, Paul Walther, Volker Schmidt, Stefanie Huhn, Ute Hegenbart, Stefan O. Schönland, Sebastian Wiese, Clarissa Read, Matthias Schmidt & Marcus Fändrich (2021)
Role of mutations and post-translational modifications in systemic AL amyloidosis studied by cryo-EM
Nat Communications https://doi.org/10.1038/s41467-021-26553-9

Ido Caspy, Ehud Neumann, Maria Fadeeva, Varda Liveanu, Anton Savitsky, Anna Frank, Yael Levi Kalisman, Yoel Shkolnisky, Omer Murik, Haim Treves, Volker Hartmann, Marc M. Nowaczyk, Wolfgang Schuhmann, Matthias Rögner, Itamar Willner, Aaron Kaplan, Gadi Schuster, Nathan Nelson, Wolfgang Lubitz, Rachel Nechushtai (2021)
Cryo-EM photosystem I structure reveals adaptation mechanisms to extreme high light in Chlorella ohadii
Nat Plants https://doi.org/10.1038/s41477-021-00983-1

Charlotte Guyomar, Gaetano D’Urso, Sophie Chat, Emmanuel Giudice, Reynald Gillet (2021)
Structures of tmRNA and SmpB as they transit through the ribosome
Nat Commun 124909 https://doi.org/10.1038/s41467-021-24881-4

Stephan Hirschi, David Kalbermatter, Zöhre Ucurum, Thomas Lemmin, Dimitrios Fotiadis (2021)
Cryo-EM structure and dynamics of the green-light absorbing proteorhodopsin
Nat Commun 124107 https://doi.org/10.1038/s41467-021-24429-6

Julien Bous, Hélène Orcel, Nicolas Floquet, Cédric Leyrat, Joséphine Lai-Kee-Him, Gérald Gaibelet, Aurélie Ancelin, Julie Saint-Paul, Stefano Trapani, Maxime Louet, Rémy Sounier, Hélène Déméné, Sébastien Granier, Patrick Bron, Bernard Mouillac (2021)
Cryo-electron microscopy structure of the antidiuretic hormone arginine-vasopressin V2 receptor signaling complex
Sci Adv. 7(21):eabg5628. doi: 10.1126/sciadv.abg5628

Martin Obr, Clifton L Ricana, Nadia Nikulin, Jon-Philip R Feathers, Marco Klanschnig, Andreas Thader, Marc C Johnson, Volker M Vogt, Florian K M Schur, Robert A Dick (2021)
Structure of the mature Rous sarcoma virus lattice reveals a role for IP6 in the formation of the capsid hexamer
Nat Commun 12 (1)3226. doi: 10.1038/s41467-021-23506-0

Joshua Hutchings, Viktoriya G. Stancheva, Nick R. Brown, Alan C. M. Cheung, Elizabeth A. Miller, Giulia Zanetti (2021)
Structure of the complete, membrane-assembled COPII coat reveals a complex interaction network
Nat Commun 122034. https://doi.org/10.1038/s41467-021-22110-6

Laura Plassart, Ramtin Shayan, Christian Montellese, Dana Rinaldi, Natacha Larburu, Carole Pichereaux, Carine Froment, Simon Lebaron, Marie-Françoise O’Donohue, Ulrike Kutay, Julien Marcoux, Pierre-Emmanuel Gleizes, Celia Plisson-Chastang (2021)
The final step of 40S ribosomal subunit maturation is controlled by a dual key lock
eLife 2021;10:e61254 doi: 10.7554/eLife.61254

Bansal A, Schmidt M, Rennegarbe M, Haupt C, Liberta F, Stecher S, Puscalau-Girtu I, Biedermann A, Fändrich M. (2021)
AA amyloid fibrils from diseased tissue are structurally different from in vitro formed SAA fibrils
Nat Commun. 12(1):1013. doi: 10.1038/s41467-021-21129-z

Radamaker L, Baur J, Huhn S, Haupt C, Hegenbart U, Schönland S, Bansal A, Schmidt M, Fändrich M. (2021)
Cryo-EM reveals structural breaks in a patient-derived amyloid fibril from systemic AL amyloidosis
Nat Commun. 12(1):875. doi: 10.1038/s41467-021-21126-2

Yu Q, Herrero del Valle A, Singh R, Modis Y. (2021)
MDA5 autoimmune disease variant M854K prevents ATP-dependent structural discrimination of viral and cellular RNA
bioRxiv. doi.org/10.1101/2021.02.01.429133

Kraushar ML, Krupp F, Harnett D, Turko P, Ambrozkiewicz MC, Sprink T, Imami K, Günnigmann M, Zinnall U, Vieira-Vieira CH, Schaub T, Münster-Wandowski A, Bürger J, Borisova E, Yamamoto H, Rasin MR, Ohler U, Beule D, Mielke T, Tarabykin V, Landthaler M, Kramer G, Vida I, Selbach M, Spahn CMT. (2021)
Protein Synthesis in the Developing Neocortex at Near-Atomic Resolution Reveals Ebp1-Mediated Neuronal Proteostasis at the 60S Tunnel Exit
Mol Cell. 2021 Jan 21;81(2):304-322.e16. doi.org/10.1016/j.molcel.2020.11.037


2020

McDowell MA, Heimes M, Fiorentino F, Mehmood S, Farkas Á, Coy-Vergara J, Wu D, Bolla JR, Schmid V, Heinze R, Wild K, Flemming D, Pfeffer S, Schwappach B, Robinson CV, Sinning I. (2020)
Structural Basis of Tail-Anchored Membrane Protein Biogenesis by the GET Insertase Complex
Mol Cell. 2020 Oct 1;80(1):72-86.e7. doi: 10.1016/j.molcel.2020.08.012.

Kumar A, Planchais C, Fronzes R, Mouquet H, Reyes N (2020)
Binding mechanisms of therapeutic antibodies to human CD20
Science, Vol. 369, Issue 6505, pp. 793-799. doi.org/10.1126/science.abb8008

Ahel J, Lehner A, Vogel A, Schleiffer A, Meinhart A, Haselbach D, Clausen T. (2020)
Moyamoya disease factor RNF213 is a giant E3 ligase with a dynein-like core and a distinct ubiquitin-transfer mechanism
eLife. doi.org/10.7554/eLife.56185

Moser von Filseck J, Barberi L, Talledge  N, Johnson IE, Frost A,  Lenz M,  Roux A. (2020)
Anisotropic ESCRT-III architecture governs helical membrane tube formation
Nat Commun 11, 1516. doi.org/10.1038/s41467-020-15327-4

Bertin A, de Franceschi N, de la Mora E, Maiti S, Alqabandi M, Miguet N, di Cicco  A, Roos W, Mangenot S, Weissenhorn W, Bassereau P. (2020)
Human ESCRT-III polymers assemble on positively curved membranes and induce helical membrane tube formation
Nat Commun 11, 2663. doi.org/10.1038/s41467-020-16368-5

Flaugnatti N, Rapisarda C , Rey M, Beauvois SG, Nguyen VA, Canaan S, Durand E, Chamot‐Rooke J, Cascales E, Fronzes R, Journet L. (2020)
Structural basis for loading and inhibition of a bacterial T6SS phospholipase effector by the VgrG spike
The EMBO Journal 39: 39: e104129, doi.org/10.15252/embj.2019104129

Cannac F, Qi C, Falschlunger J,  Hausmann G, Basler K, Korkhov VM. (2020)
Cryo-EM structure of the Hedgehog release protein Dispatched
Science Advances, Vol 6:16, doi.org/10.1126/sciadv.aay7928

Von Kügelgen A, Tang H, Hardy GG, Kureisaite-Ciziene D, Brun YV, Stansfeld PJ, Robinson CV, Bharat TAM (2020)
In Situ Structure of an Intact Lipopolysaccharide-Bound Bacterial Surface Layer
Cell. 180 (2): 348-358, doi: https://doi.org/10.1016/j.cell.2019.12.006

Webster MW, Takacs M, Zhu C, Vidmar V, Eduljee A, Abdelkareem M, Weixlbaumer A. (2020)
Structural basis of transcription-translation coupling and collision in bacteria
Science, Vol. 369, Issue 6509, pp. 1355-1359. doi: 10.1126/science.abb5036


2019

Kollmer M, Close W, Funk L, Rasmussen J, Bsoul A, Schierhorn A, Schmidt M, Sigurdson CJ, Jucker M, Fändrich M. (2019)
Cryo-EM structure and polymorphism of Aβamyloid fibrils purified from Alzheimer’s brain tissue
Nat Commun. 10(1):4760. doi: 10.1038/s41467-019-12683-8

Schmidt M, Wiese S, Adak V, Engler J, Agarwal S, Fritz G, Westermark P, Zacharias M, Fändrich M. (2019)
Cryo-EM structure of a transthyretin-derived amyloid fibril from a patient with hereditary ATTR amyloidosis
Nat Commun. 10(1): 5008. doi: 10.1038/s41467-019-13038-z

Abdelkareem M, Saint-André C, Takacs M, Papai G, Crucifix C, Guo X, Ortiz J, Weixlbaumer A. (2019)
Structural Basis of Transcription: RNA Polymerase Backtracking and Its Reactivation
Mol Cell. S1097-2765(19)30321-1 doi: 10.1016/j.molcel.2019.04.029

Qi C, Sorrentino S, Medalia O, Korkhov VM. (2019)
The structure of a membrane adenylyl cyclase bound to an activated stimulatory G protein
Science 364(6438): 389-394 doi: 10.1126/science.aav0778

Radamaker L, Lin YH, Annamalai K, Huhn S, Hegenbart U, Schönland SO, Fritz G, Schmidt M, Fändrich M. (2019)
Cryo-EM structure of a light chain-derived amyloid fibril from a patient with systemic AL amyloidosis.
Nat Commun. 10 (1):1103 doi: 10.1038/s41467-019-09032-0

Liberta F, Loerch S, Rennegarbe M, Schierhorn A, Westermark P, Westermark GT, Hazenberg BPC, Grigorieff N, Fändrich M, Schmidt M. (2019)
Cryo-EM fibril structures from systemic AA amyloidosis reveal the species complementarity of pathological amyloids
Nat Commun. 10 (1):1104. doi:10.1038/s41467-019-09033-z

Cuervo A, Fàbrega-Ferrer M, Machón C, Conesa JJ, Fernández FJ, Pérez-Luque R, Pérez-Ruiz M, Pous J, Vega CM, Carrascosa JL, Coll M. (2019)
Structures of T7 bacteriophage portal and tail suggest a viral DNA retention and ejection mechanism
Nat Commun. 10: 3746. doi: 10.1038/s41467-019-11705-9

Qi C, Di Minin G, Vercellino I, Wutz A, Korkhov VM (2019)
Structural basis of sterol recognition by human hedgehog receptor PTCH1
Sci Adv. 2019 Sep; 5(9): eaaw6490. doi: 10.1126/sciadv.aaw6490

Desfosses A, Venugopal H, Joshi T, Felix J, Jessop M, Jeong H, Hyun J, Heymann JB, Hurst MRH, Gutsche I, Mitra AK (2019)
Atomic structures of an entire contractile injection system in both the extended and contracted states
Nature Microbiology. doi 10.1038/s41564-019-0530-6

Krupp F, Said N, Huang YH, Loll B, Bürger J, Mielke T, Spahn CMT, Wahl MC. (2019)
Structural Basis for the Action of an All-Purpose Transcription Anti-termination Factor
Molecular Cell, 74:1, 143-157. doi: 10.1016/j.molcel.2019.01.016


2018

Oosterheert W, van Bezouwen LS, Rodenburg RNP, Granneman J, Förster F, Mattevi A, Gros P. (2018)
Cryo-EM structures of human STEAP4 reveal mechanism of iron(III) reduction.
Nat Commun. 9(1):4337. doi: 10.1038/s41467-018-06817-7

Hutchings J, Stancheva V, Miller EA, Zanetti G. (2018)
Subtomogram averaging of COPII assemblies reveals how coat organization dictates membrane shape.
Nat Commun. 9(1):4154. doi: 10.1038/s41467-018-06577-4

Abascal-Palacios G, Ramsay EP, Beuron F, Morris E, Vannini A. (2018)
Structural basis of RNA polymerase III transcription initiation.
Nature 553(7688):301-306. doi: 10.1038/nature25441

Elad, N, Baron S, Peleg Y, Albeck S, Grunwald J, Raviv G, Shakked Z, Zimhony O, Diskin R (2018)
Structure of Type-I Mycobacterium tuberculosis fatty acid synthase at 3.3 Å resolution
Molecular Cell, 74:1. doi: 10.1016/j.molcel.2019.01.016

Böttcher B, Nassal M. (2018)
Structure of Mutant Hepatitis B Core Protein Capsids with Premature Secretion Phenotype
JMB, 430:24. doi: 10.1016/j.jmb.2018.10.018

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