Electron microscopy facility

Electron microscopy facility

Electron microscopy visualizes the ultrastructure of cells and tissue at nanometer scale. Cell types and organelles can be identified by their characteristic morphology and are pictured in their most innate location. Localisation and distribution of certain marker molecules are assessed more precisely with immunogold labelling. Results obtained by electron microscopy are not only illustrative but can also be statistically evaluated; as a result Electron microscopy analysis became essential to strengthen the results achieved with other methods.


We offer full service for the researchers in house, which includes sample fixation and further preparation completed by elucidation at the electron microscope. Throughout the route we keep the dialogue with the scientist and assist also with interpretation and picture lay-out until the final presentation/publication image.

We offer TEM-analyses of:

  1. Conventional chemical fixed material embedded in epon-resin, ultra-thin sectioned
  2. Cryo-immuno labelled material according to the Tokuyasu-method
  3. Rotary shadowing
  4. Negative stain

We are experienced in more EM-related techniques like high pressure-freezing, electron tomography and scanning EM.

Equipment (selection)

  • 120 kV TEM
  • Two ultramicrotomes, one equipped for cryo-sectioning
  • High Pressure Freezer
  • Freeze substitution
  • Metal evaporation for C and Pt/C
  • Critical Point Dryer

Publications (selection)

Bansaccal N, Vieugue P, Sarate R, Song Y, Minguijon E, Miroshnikova YA, Zeuschner D, Collin A, Allard J, Engelman D, Delaunois AL, Liagre M, de Groote L, Timmerman E, Van Haver D, Impens F, Salmon I, Wickström SA, Sifrim A, Blanpain C. The extracellular matrix dictates regional competence for tumour initiation. Nature. 2023 Nov;623(7988):828-835. doi: 10.1038/s41586-023-06740-y. Epub 2023 Nov 15. PMID: 37968399

Mavrommatis L, Jeong HW, Kindler U, Gomez-Giro G, Kienitz MC, Stehling M, Psathaki OE, Zeuschner D, Bixel MG, Han D, Morosan-Puopolo G, Gerovska D, Yang JH, Kim JB, Arauzo-Bravo MJ, Schwamborn JC, Hahn SA, Adams RH, Schöler HR, Vorgerd M, Brand-Saberi B, Zaehres H. Human skeletal muscle organoids model fetal myogenesis and sustain uncommitted PAX7 myogenic progenitors. Elife. 2023 Nov 14;12:RP87081. doi: 10.7554/eLife.87081. PMID: 37963071 Free PMC article.

Westerich KJ, Tarbashevich K, Schick J, Gupta A, Zhu M, Hull K, Romo D, Zeuschner D, Goudarzi M, Gross-Thebing T, Raz E. Spatial organization and function of RNA molecules within phase-separated condensates in zebrafish are controlled by Dnd1. Dev Cell. 2023 Sep 11;58(17):1578-1592.e5. doi: 10.1016/j.devcel.2023.06.009. Epub 2023 Jul 17. PMID: 37463577

Rey S, Ohm H, Moschref F, Zeuschner D, Praetz M, Klämbt C. Glial-dependent clustering of voltage-gated ion channels in Drosophila precedes myelin formation. Elife. 2023 Jun 6;12:e85752. doi: 10.7554/eLife.85752.PMID: 37278291

Ozguldez HO, Govindasamy N, Fan R, Long H, Mildner K, Zeuschner D, Trappmann B, Ranga A, Bedzhov I. Polarity inversion reorganizes the stem cell compartment of the trophoblast lineage. Cell Rep. 2023 Mar 28;42(4):112313. doi: 10.1016/j.celrep.2023.112313. Online ahead of print. PMID: 36989113

Raj N, Greune L, Kahms M, Mildner K, Franzkoch R, Psathaki OE, Zobel T, Zeuschner D, Klingauf J, Gerke V. Early Endosomes Act as Local Exocytosis Hubs to Repair Endothelial Membrane Damage. Adv Sci (Weinh). 2023 May;10(13):e2300244. doi: 10.1002/advs.202300244. Epub 2023 Mar 20. PMID: 36938863

Mildner K, Breitsprecher L, Currie SM, Stegmeyer RI, Stasch M, Volkery S, Psathaki OE, Vestweber D, Zeuschner D. Landmark-based retrieval of inflamed skin vessels enabled by 3D correlative intravital light and volume electron microscopy. Histochem Cell Biol. 2022 Aug;158(2):127-136. doi: 10.1007/s00418-022-02119-8. Epub 2022 Jun 29. PMID: 35764846

Currie SM, Stegmeyer RI, Mildner K, Breitsprecher L, Zeuschner D, Psathaki OE, Schäfer K, Wilkens M, Volkery S, Nieswandt B, Vestweber D. Confocal Real-Time Analysis of Cutaneous Platelet Recruitment during Immune Complex‒Mediated Inflammation. J Invest Dermatol. 2022 Oct;142(10):2724-2732.e3. doi: 10.1016/j.jid.2022.03.011. Epub 2022 Mar 31. PMID: 35367475

Duethorn B, Groll F, Rieger B, Drexler H C A, Brinkmann H, Kremer L, Stehling M, Borowski M-T, Mildner K, Zeuschner D, Zernicka-Goetz M, Stemmler M P, Busch K B, Vaquerizas J M and Bedzhov I. Lima1 mediates the pluripotency control of membrane dynamics and cellular metabolism. Nat Commun. 2022 Feb 1;13(1):610.

Sivaraj KK, Majev PG, Jeong HW, Dharmalingam B, Zeuschner D, Schröder S, Bixel MG, Timmen M, Stange R, Adams RH. Mesenchymal stromal cell-derived septoclasts resorb cartilage during developmental ossification and fracture healing. Nat Commun. 2022 Jan 28;13(1):571.

Salewskij K, Gross-Thebing T, Ing-Simmons E, Duethorn B, Rieger B, Fan R, Chen R, Govindasamy N, Brinkmann H, Kremer L, Kuempel-Rink N, Mildner K, Zeuschner D, Stehling M, Dejosez M, Zwaka TP, Schöler HR, Busch KB, Vaquerizas JM and Bedzhov I. Ronin governs the metabolic capacity of the embryonic lineage for post-implantation development. EMBO Rep. 2021 Nov 4;22(11):e53048

Sivaraj KK, Jeong HW, Dharmalingam B, Zeuschner D, Adams S, Potente M,  Adams RH. Regional specialization and fate specification of bone stromal cells in skeletal development. Cell Rep. 2021 Jul 13;36(2):109352.

Kim Y S, Fan R, Kremer L, Kuempel-Rink N, Mildner K, Zeuschner D, Hekking L, Stehling M, and Bedzhov I, Deciphering epiblast lumenogenesis reveals proamniotic cavity control of embryo growth and patterning. Science Advances, 2021 Sci Adv. 2021 Mar 10;7(11):eabe1640. doi: 10.1126/sciadv.abe1640. Print 2021 Mar.

Liu J, Long H, Zeuschner D, Räder AFB, Polacheck WJ, Kessler H, Sorokin L, Trappmann B. Synthetic extracellular matrices with tailored adhesiveness and degradability support lumen formation during angiogenic sprouting. Nat Commun. 2021 Jun 7;12(1):3402. doi: 10.1038/s41467-021-23644-5. PMID: 34099677

Renner H, Grabos M, Becker KJ, Kagermeier TE, Wu J, Otto M, Peischard S, Zeuschner D, TsyTsyura Y, Disse P, Klingauf J, Leidel SA, Seebohm G, Schöler HR, Bruder JM. (2020).A fully automated high-throughput workflow for 3D-based chemical screening in human midbrain organoids. Elife. 2020 Nov 3;9:e52904. doi: 10.7554/eLife.52904.

Fan R, Kim YS, Wu J, Chen R, Zeuschner D, Mildner K, Adachi K, Wu G, Galatidou S, Li J, Schöler HR, Leidel SA, Bedzhov I. (2020) Wnt/Beta-catenin/Esrrb signalling controls the tissue-scale reorganization and maintenance of the pluripotent lineage during murine embryonic diapause. Nat Commun. 2020 Oct 30;11(1):5499. doi: 10.1038/s41467-020-19353-0.

Gomez-Giro G, Arias-Fuenzalida J, Jarazo J, Zeuschner D, Ali M, Possemis N,  Bolognin S, Halder R, Jäger C, Kuper WEF, van Hasselt, Zaehres H, del Sol A, van der Putten H, Schöler HR, Schwamborn JC. (2019) Synapse alterations precede neuronal damage and storage pathology in a human cerebral organoid model of CLN3-juvenile neuronal ceroid lipofuscinosis. Acta Neuropathol Commun. 2019 Dec 30;7(1):222. doi: 10.1186/s40478-019-0871-7.

Duong CN, Nottebaum AF, Butz S, Volkery S, Zeuschner D, Stehling M, Vestweber D. (2019) Interference With ESAM (Endothelial Cell-Selective Adhesion Molecule) Plus Vascular Endothelial-Cadherin Causes Immediate Lethality and Lung-Specific Blood Coagulation. Artherioscler Thromb Vasc Biol. Dec 12:ATVBAHA119313545. doi: 10.1161/ATVBAHA.119.313545

Luxán G, Stewen J, Díaz N, Kato K, Maney SK, Pitulescu ME, Nagelmann N, Drexler HCA, Zeuschner D, Faber C, Schillers H, Hermann S, Wiseman J, Vaquerizas JM, Pitulescu M, and Adams RH. (2019). Endothelial EphB4 maintains vascular integrity and transport function in adult heart. Elife Nov 29;8. pii: e45863. doi: 10.7554/eLife.45863

Bernd U, Hirn S, Mildner K, Coletti R, Massberg S, Reichel C, Rehberg M, Zeuschner D,   Krombach F. (2018) The surface chemistry determines the spatio-temporal interaction dynamics of quantum dots in atherosclerotic lesions. Nanomedicine London. 2018 Jan 15. doi: 10.2217/nnm-2017-0350

Goudarzi M, Tarbashevich K, Mildner K, Begemann I, Garcia J, Paksa A, Reichman-Fried M, Mahabaleshwar H, Blaser H, Hartwig J, Zeuschner D, Galic M, Bagnat M, Betz T, Raz E. (2017). Bleb Expansion in Migrating Cells Depends on Supply of Membrane from Cell Surface Invaginations. Dev Cell. 2017 Nov 21. pii: S1534-5807(17)30874-2. doi: 10.1016/j.devcel.2017.10.030

Mildner K, Zeuschner, D. (2017) Cryo-Immuno Electron Microscopy of Perixosomal Marker proteins. Methods Mol Biol. 2017;1595:101-111. doi: 10.1007/978-1-4939-6937-1_11.

Seebeck F, März M, Meyer AW, Reuter H, Vogg MC, Stehling M, Mildner K, Zeuschner D, Rabert F, Bartscherer K. (2017). Integrins are required for tissue organization and restriction of neurogenesis in regenerating planarians. Development. 2017 Jan 30.

Uhl B, Hirn S, Immler R, Mildner K, Möckl L, Sperandio M, Braeuchle C, Reichel CA, Zeuschner D, Krombach F. (2017). The Endothelial Glycocalyx Controls Interactions of Quantum Dots with the Endothelium and their translocation across the Blood-Tissue Border. ACS Nano. 2017 Jan 30. doi: 10.1021/acsnano.6b06812. [Epub ahead of print]

Costello JL, Castro IG, Hacker C, Schrader TA, Metz J, Zeuschner D, Azadi AS, Godinho LF, Costina V, Findeisen P, Manner A, Islinger M, Schrader M. (2017). ACBD5 and VAPB mediate membrane associations between peroxisomes and the ER. J Cell Biol. 2017 Jan 20. pii: jcb.201607055. doi: 10.1083/jcb.201607055. [Epub ahead of print]

Ramasamy SK, Kusumbe AP, Schiller M, Zeuschner D, Bixel MG, Milia C, Gamrekelashvili J, Limbourg A, Medvinsky A, Santoro MM, Limbourg FP, Adams RH.(2016) Blood flow controls bone vascular function and osteogenesis. Nat Commun. 2016 Dec 6;7:13601. doi: 10.1038/ncomms13601.

Rehberg M, Nekolla K, Sellner S, Praetner M, Mildner K, Zeuschner D, Krombach F.(2016). Intercellular Transport of Nanomaterials is Mediated by Membrane Nanotubes In Vivo. Small. 2016 Apr;12(14):1818. doi: 10.1002/smll.201670068.

Nekolla K, Kick K, Sellner S, Mildner K, Zahler S, Zeuschner D, Krombach F, Rehberg M. (2016). Influence of Surface Modifications on the Spatiotemporal Microdistribution of Quantum Dots In Vivo. Small. 2016 May;12(19):2641-51. doi: 10.1002/smll.201600071. Epub 2016 Mar 29.

Yamamoto H, Ehling M, Kato K, Kanai K, van Lessen M, Frye M, Zeuschner D, Nakayama M, Vestweber D, Adams RH. Integrin β1 controls VE-cadherin localization and blood vessel stability. (2015). Nat Commun. Mar 10;6:6429.

Zhang M, Schulte JS, Heinick A, Piccini I, Rao J, Quaranta R, Zeuschner D, Malan D, Kim KP, Röpke A, Sasse P, Araúzo-Bravo M, Seebohm G, Schöler H, Fabritz L, Kirchhof P, Müller FU, Greber B.
Stem Cells. 2015 May;33(5):1456-69. doi: 10.1002/stem.1964.

Goudarzi M, Mildner K, Babatz F Riedel D, Klämbt C, Zeuschner D, and Raz E. Correlative Light and Electron Microscopy of rare cell populations in zebrafish embryos using laser marks. Zebrafish. December 2015, 12(6): 470-473. doi:10.1089/zeb.2015.1148.

Zeuschner D, Mildner K, Volkery S, Dierkes M, Rehberg M. Quantum Dots in Transmission Electron Microscopy. Imaging and Microscopy, Nov 2015.

Frye M, Dierkes M, Küppers V, Vockel M, Tomm J, Zeuschner D, Roissant J, Zarbock A, Koh GY, Peters K, Nottebaum AF, Vestweber D. (2015) Interfering with VE-PTP stabilizes endothelial junctions in vivo via Tie-2 in the absence of VE-cadherin. J. Exp. Med. 7. pii: jem.20150718.

Vestweber D, Zeuschner D, Rottner K, Schnoor M. Cortactin regulates the activity of small GTPases and ICAM-1 clustering in endothelium: implications for the formation of docking structures. Tissue Barriers 2013, January/February/March

Wang L, Benedito R, Bixel MG, Zeuschner D, Stehling M, Sävendahl L, Haigh JJ, Snippert H, Clevers H, Breier G, Kiefer F, Adams RH. Identification of a clonally expanding haematopoietic compartment in bone marrow. EMBO Journal 2013, 32(2):219-30

Rehberg M, Leite CF, Mildner K, Horstkotte J, Zeuschner D, Krombach F. Surface chemistry of quantum dots determines their behavior in postischemic tissue. ACS Nano 2012, 6(2):1370-9

Jones C, Denecke J, Sträter R, Stölting T, Schunicht Y, Zeuschner D, Klumperman J, Lefeber DJ, Spelten O, Zarbock A, Kelm S, Strenge K, Haslam SM, Lühn K, Stahl D, Gentile L, Schreiter T, Hilgard P, Beck-Sickinger AG, Marquardt T, Wild MK. A Novel Type of Macrothrombocytopenia Associated with a Defect in Alpha2,3-Sialylation. Am J Pathol 2011, 179(4):1969-77

Borta H, Aroso M, Rinn C, Gomez-Lazaro M, Vitorino R, Zeuschner D, Grabenbauer M, Amado F, Schrader M. Analysis of low abundant membrane-associated proteins from rat pancreatic zymogen granules. J Proteome Res 2010, 9(10):4927-39

Rehberg M, Praetner M, Leite CF, Reichel CA, Bihari P, Mildner K, Duhr S, Zeuschner D, Krombach F. Quantum Dots Modulate Leukocyte Adhesion and Transmigration Depending on Their Surface Modification. Nano Lett. 2010, 10(9):3656-64

Bixel MG, Li H, Petri B, Khandoga AG, Khandoga A, Zarbock A, Wolburg-Buchholz K, Wolburg H, Sorokin L, Zeuschner D, Maerz S, Butz S, Krombach F, Vestweber D. CD99 and CD99L2 act at the same site as, but independently of, PECAM-1 during leukocyte diapedesis. Blood 2010, 116(7):1172-84

Fernandéz-Taboada E, Moritz S, Zeuschner D, Stehling M, Schöler HR, Saló E, Gentile L. Smed-SmB, a member of the LSm protein superfamily, is essential for chromatoid body organization and planarian stem cell proliferation. Development. 2010, 137(7):1055-65.

Zeuschner D, Mildner K, Zaehres H, Schöler H.R.(2009) Induced Pluripotent Stem Cells at Nano Scale. Stem Cells Dev 2010, 19(5):615-20

Mari M, Bujny MV, Zeuschner D, Geerts WJ, Griffith J, Petersen CM, Cullen PJ, Klumperman J, Geuze HJ (2008). SNX1 defines an early endosomal recycling exit for sortilin and mannose 6-phosphate receptors. Traffic 2008, 9(3):380-93

Donselaar E, Zeuschner D, Posthuma G, Humbel BM, Slot JW. Immunogold labeling of cryosections from high-pressure frozen cells. Traffic 2007, 8(5):471-85



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