3D correlative light and electron microscopy of cultured cells using serial blockface scanning electron microscopy

Matthew R.G. Russell, Thomas R. Lerner, Jemima J. Burden, David O. Nkwe, Annegret Pelchen-Matthews, Marie Charlotte Domart, Joanne Durgan, Anne Weston, Martin L. Jones, Christopher J. Peddie, Raffaella Carzaniga, Oliver Florey, Mark Marsh, Maximiliano G. Gutierrez, Lucy M. Collinson

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24 Citations (Scopus)


The processes of life take place in multiple dimensions, but imaging these processes in even three dimensions is challenging. Here, we describe a workflow for 3D correlative light and electron microscopy (CLEM) of cell monolayers using fluorescence microscopy to identify and follow biological events, combined with serial blockface scanning electron microscopy to analyse the underlying ultrastructure. The workflow encompasses all steps from cell culture to sample processing, imaging strategy, and 3D image processing and analysis. We demonstrate successful application of the workflow to three studies, each aiming to better understand complex and dynamic biological processes, including bacterial and viral infections of cultured cells and formation of entotic cell-in-cell structures commonly observed in tumours. Our workflow revealed new insight into the replicative niche of Mycobacterium tuberculosis in primary human lymphatic endothelial cells, HIV-1 in human monocytederived macrophages, and the composition of the entotic vacuole. The broad application of this 3D CLEM technique will make it a useful addition to the correlative imaging toolbox for biomedical research.

Original languageEnglish
Pages (from-to)278-291
Number of pages14
JournalJournal of Cell Science
Issue number1
Publication statusPublished - Jan 1 2017


All Science Journal Classification (ASJC) codes

  • Cell Biology

Cite this

Russell, M. R. G., Lerner, T. R., Burden, J. J., Nkwe, D. O., Pelchen-Matthews, A., Domart, M. C., Durgan, J., Weston, A., Jones, M. L., Peddie, C. J., Carzaniga, R., Florey, O., Marsh, M., Gutierrez, M. G., & Collinson, L. M. (2017). 3D correlative light and electron microscopy of cultured cells using serial blockface scanning electron microscopy. Journal of Cell Science, 130(1), 278-291. https://doi.org/10.1242/jcs.188433