Guided-deconvolution for correlative light and electron microscopy

Fengjiao Ma; Rainer Kaufmann; Jaroslaw Sedzicki; Zoltán Cseresnyés; Christoph Dehio; Stephanie Hoeppener; Marc Thilo Figge; Rainer Heintzmann

doi:10.1371/journal.pone.0282803

Guided-deconvolution for correlative light and electron microscopy

PLoS One. 2023 Mar 9;18(3):e0282803. doi: 10.1371/journal.pone.0282803. eCollection 2023.

Authors

Fengjiao Ma^{1

2

3}, Rainer Kaufmann^{4

5}, Jaroslaw Sedzicki⁶, Zoltán Cseresnyés⁷, Christoph Dehio⁶, Stephanie Hoeppener^{3

8}, Marc Thilo Figge^{3

7

9}, Rainer Heintzmann^{1

2

3}

Affiliations

¹ Institute of Physical Chemistry and Abbe Center of Photonics, University of Jena, Jena, Thuringia, Germany.
² Leibniz Institute of Photonic Technology, Jena, Thuringia, Germany.
³ Jena Center for Soft Matter, University of Jena, Jena, Thuringia, Germany.
⁴ Centre for Structural Systems Biology, Hamburg, Germany.
⁵ Department of Physics, University of Hamburg, Hamburg, Germany.
⁶ Biozentrum, University of Basel, Basel, Switzerland.
⁷ Applied Systems Biology, Leibniz Institute for Natural Product Research and Infection Biology - Hans Knöll Institute, Jena, Thuringia, Germany.
⁸ Laboratory of Organic Chemistry and Macromolecular Chemistry, University of Jena, Jena, Thuringia, Germany.
⁹ Institute of Microbiology, Faculty of Biological Sciences, University of Jena, Jena, Thuringia, Germany.

Abstract

Correlative light and electron microscopy is a powerful tool to study the internal structure of cells. It combines the mutual benefit of correlating light (LM) and electron (EM) microscopy information. The EM images only contain contrast information. Therefore, some of the detailed structures cannot be specified from these images alone, especially when different cell organelle are contacted. However, the classical approach of overlaying LM onto EM images to assign functional to structural information is hampered by the large discrepancy in structural detail visible in the LM images. This paper aims at investigating an optimized approach which we call EM-guided deconvolution. This applies to living cells structures before fixation as well as previously fixed sample. It attempts to automatically assign fluorescence-labeled structures to structural details visible in the EM image to bridge the gaps in both resolution and specificity between the two imaging modes. We tested our approach on simulations, correlative data of multi-color beads and previously published data of biological samples.

Copyright: © 2023 Ma et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

HeLa Cells
Humans
Microscopy, Electron
Organelles*

Associated data

figshare/10.6084/m9.figshare.20517927.v2

Grants and funding

This work was financially supported by the German Research Foundation (DFG) through the Collaborative Research Center PolyTarget 1278, project number 316213987, subprojects C04 and Z01 to FM, RH, SH, ZC and MF. The experimental data sets of the fluorescence beads in this paper are provided from sub-project C04. The electron microscopy facilities of the JCSM were established with funds from the Deutsche Forschungsgemeinschaft (DFG) and the European Funds for Regional development (EFRE). This work was also supported by the Swiss National Science Foundation (SNSF, www.snf.ch) grant 310030B_201273 to CD and JS. We thank the Microverse Imaging Center (Aurélie Jost / Patrick Then) for providing microscope facility support for data acquisition. The LSM 980 (used for producing the LM image in Fig. 3 ) was funded by the Free State of Thuringia with grant number 2019 FGI 0001. The Microverse Imaging Center is funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany´s Excellence Strategy – EXC 2051 – Project-ID 390713860. This work was also supported by the Freigeist Fellowship (91671) of the Volkswagen Foundation to RK. The funders had no role in study design, data collection and analysis, decision to or preparation of the manuscript.