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Hierarchical imaging : a new concept for targeted imaging of large volumes from cells to tissues

Wacker, Irene; Spomer, Waldemar 1; Hofmann, Andreas ORCID iD icon 1; Thaler, Marlene; Hillmer, Stefan; Gengenbach, Ulrich 1; Schröder, Rasmus R.
1 Institut für Angewandte Informatik (IAI), Karlsruher Institut für Technologie (KIT)


Background: Imaging large volumes such as entire cells or small model organisms at nanoscale resolution seemed an unrealistic, rather tedious task so far. Now, technical advances have lead to several electron microscopy (EM) large volume imaging techniques. One is array tomography, where ribbons of ultrathin serial sections are deposited on solid substrates like silicon wafers or glass coverslips.
Results: To ensure reliable retrieval of multiple ribbons from the boat of a diamond knife we introduce a substrate holder with 7 axes of translation or rotation specifically designed for that purpose. With this device we are able to deposit hundreds of sections in an ordered way in an area of 22 × 22 mm, the size of a coverslip. Imaging such arrays in a standard wide field fluorescence microscope produces reconstructions with 200 nm lateral resolution and 100 nm (the section thickness) resolution in z. By hierarchical imaging cascades in the scanning electron microscope (SEM), using a new software platform, we can address volumes from single cells to complete organs. In our first example, a cell population isolated from zebrafish spleen, we characterize different cell types according to their organelle inventory by segmenting 3D reconstructions of complete cells imaged with nanoscale resolution. ... mehr

Volltext §
DOI: 10.5445/IR/1000065550
DOI: 10.1186/s12860-016-0122-8
Zitationen: 28
Zitationen: 30
Cover der Publikation
Zugehörige Institution(en) am KIT Institut für Angewandte Informatik (IAI)
Publikationstyp Zeitschriftenaufsatz
Publikationsjahr 2016
Sprache Englisch
Identifikator ISSN: 1471-2121
KITopen-ID: 1000065550
HGF-Programm 43.22.03 (POF III, LK 01) Printed Materials and Systems
Erschienen in BMC cell biology
Verlag Springer Fachmedien Wiesbaden
Band 17
Heft 38
Seiten 1-12
Schlagwörter array tomography, serial sectioning, section libraries, hierarchical imaging, large volume 3D reconstruction
Nachgewiesen in Dimensions
Web of Science
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