Evidence map›Paper›PMID 25392009›Full record

ArticleMicroscopy and microanalysis : the official journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada2015

X-ray microscopy as an approach to increasing accuracy and efficiency of serial block-face imaging for correlated light and electron microscopy of biological specimens.

Eric A Bushong, Donald D Johnson, Keun-Young Kim, Masako Terada, Megumi Hatori, Steven T Peltier, Satchidananda Panda, Arno Merkle, Mark H Ellisman

Abstract readEvaluation Study
In one paragraph

Article in Microscopy and microanalysis : the official journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.

0numbers the graph read from it
0cells of the map it votes in
38citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

38 citing papers in PubMed.

  1. Article
  2. Inhibitory Neurons Marked by the Connectivity Molecule Kirrel3 Regulate Memory Precision.The Journal of neuroscience : the official journal of the Society for Neuroscience · 2025
    Article
  3. Article
  4. Article
  5. Article
  6. Morphomics via next-generation electron microscopy.Journal of molecular cell biology · 2024
    Review
  7. Review
  8. Article
  9. Volume electron microscopy.Nature reviews. Methods primers · 2022
    Article
  10. Article
  11. Article
  12. Article
  13. Review
  14. Article
  15. Article
  16. Taking a microscale look at symbiotic interactions-and why it matters.Proceedings of the National Academy of Sciences of the United States of America · 2021
    Article
  17. Review
  18. Article
  19. Review
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Eric A Bushong1Center for Research in Biological Systems,National Center for Microscopy and Imaging Research,University of California at San Diego,9500 Gilman Drive,La Jolla,CA 92093,USA.
Donald D Johnson1Center for Research in Biological Systems,National Center for Microscopy and Imaging Research,University of California at San Diego,9500 Gilman Drive,La Jolla,CA 92093,USA.
Keun-Young Kim1Center for Research in Biological Systems,National Center for Microscopy and Imaging Research,University of California at San Diego,9500 Gilman Drive,La Jolla,CA 92093,USA.
Masako Terada2Carl Zeiss X-ray Microscopy Inc.,4385 Hopyard Rd #100,Pleasanton,CA 94588,USA.
Megumi Hatori3Salk Institute for Biological Sciences,10010 N Torrey Pines Rd,La Jolla,CA 92037,USA.
Steven T Peltier1Center for Research in Biological Systems,National Center for Microscopy and Imaging Research,University of California at San Diego,9500 Gilman Drive,La Jolla,CA 92093,USA.
Satchidananda Panda3Salk Institute for Biological Sciences,10010 N Torrey Pines Rd,La Jolla,CA 92037,USA.
Arno Merkle2Carl Zeiss X-ray Microscopy Inc.,4385 Hopyard Rd #100,Pleasanton,CA 94588,USA.
Mark H Ellisman1Center for Research in Biological Systems,National Center for Microscopy and Imaging Research,University of California at San Diego,9500 Gilman Drive,La Jolla,CA 92093,USA.

Funding

IVEM and Image Analysis ResourceP41GM103412 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI ELLISMAN, MARK H · 2012 to 2019
$17.9M
National Biomedical Computation Resource - Competitive Revision SupplementP41GM103426 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI AMARO, ROMMIE E · 2012 to 2019
$14.0M
NIGMS NIH HHS 5P41GM103426NIGMS NIH HHS P41 GM103412NIGMS NIH HHS P41 GM103426
6 · The paper itself

Abstract

The recently developed three-dimensional electron microscopic (EM) method of serial block-face scanning electron microscopy (SBEM) has rapidly established itself as a powerful imaging approach. Volume EM imaging with this scanning electron microscopy (SEM) method requires intense staining of biological specimens with heavy metals to allow sufficient back-scatter electron signal and also to render specimens sufficiently conductive to control charging artifacts. These more extreme heavy metal staining protocols render specimens light opaque and make it much more difficult to track and identify regions of interest (ROIs) for the SBEM imaging process than for a typical thin section transmission electron microscopy correlative light and electron microscopy study. We present a strategy employing X-ray microscopy (XRM) both for tracking ROIs and for increasing the efficiency of the workflow used for typical projects undertaken with SBEM. XRM was found to reveal an impressive level of detail in tissue heavily stained for SBEM imaging, allowing for the identification of tissue landmarks that can be subsequently used to guide data collection in the SEM. Furthermore, specific labeling of individual cells using diaminobenzidine is detectable in XRM volumes. We demonstrate that tungsten carbide particles or upconverting nanophosphor particles can be used as fiducial markers to further increase the precision and efficiency of SBEM imaging.

Indexed as

AnimalsBrainImaging, Three-DimensionalMiceMicroscopy, Electron, Scanningupconverting nanoparticles

Identifiers

PMID25392009
PMCPMC4415271

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.