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Updated: Feb 9, 2026

Standardized Processing for Formalin-Fixed, Paraffin-Embedded Cell Pellet Immunohistochemistry Controls
Published on: July 27, 2022
Electron Microscopic Study Using Formalin-fixed, Paraffin-embedded Material, with Special Reference to Observation of
1Division of Diagnostic Pathology, Haruhi Respiratory Medical Hospital, Kiyosu, Japan.
Abstract:
In the diagnostic pathology practice, specimens for electron microscopy (EM) are not necessarily handled and fixed under the ideal condition. In the present article, the author describes ultrastructural study using formalin-fixed and/or paraffin-embedded material. The fine morphologic preservation is often acceptable, particularly when small cubes are dug out of paraffin blocks. Particulate structures such as neuroendocrine granules and microbes are consistently observed even using paraffin sections. Paraffin sections signalized with silver particles in Grimelius and Grocott stains or diaminobenzidine products in immunostaining and in situ hybridization are applicable to EM evaluation by using a pre-embedding sequence. The practical merit includes the targeted approach: highly accurate sampling from focal lesions can be achieved for EM analysis, after observing hematoxylin and eosin-stained or specific-signalized paraffin-sections. This allows us pathologists a convenient and practical way for identifying focally infected pathogens, as well as a retrospective ultrastructural analysis of rare lesions long kept as a form of paraffin blocks.
Insights
Electron microscopy (EM) can effectively analyze formalin-fixed, paraffin-embedded tissues, even particulate structures like microbes. This method enables precise ultrastructural examination of rare lesions and pathogens from archival blocks.
Area of Science:
- Diagnostic Pathology
- Electron Microscopy (EM)
- Histopathology
Background:
- Diagnostic pathology practice often involves specimens not fixed under ideal conditions for electron microscopy (EM).
- Traditional EM requires specific fixation protocols, limiting its application to archival or non-optimally preserved samples.
Purpose of the Study:
- To describe and evaluate the utility of ultrastructural studies using routine formalin-fixed and paraffin-embedded (FFPE) material.
- To demonstrate the feasibility of EM analysis on FFPE tissue sections, including those processed with specific stains.
Main Methods:
- Utilized formalin-fixed and/or paraffin-embedded tissue samples for ultrastructural examination.
- Investigated the preservation of fine morphology and particulate structures (neuroendocrine granules, microbes) in paraffin sections.
- Employed pre-embedding techniques on paraffin sections stained with Grimelius, Grocott, or immunostaining (DAB) for EM evaluation.
Main Results:
- Fine morphologic preservation was often acceptable, particularly from small tissue cubes extracted from paraffin blocks.
- Particulate structures, including neuroendocrine granules and microbes, were consistently observed in paraffin sections.
- Stained paraffin sections (Grimelius, Grocott, DAB) were successfully adapted for EM evaluation using pre-embedding methods.
Conclusions:
- FFPE tissues are a viable resource for ultrastructural pathology, offering acceptable morphologic detail.
- This approach allows for targeted EM analysis of focal lesions and retrospective studies of rare conditions from archival material.
- Provides pathologists a practical method for identifying pathogens and analyzing rare ultrastructural findings in FFPE samples.
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