Evidence map›Paper›PMID 34729550›Full record

ArticleCell reports methods2021

Using soft X-ray tomography for rapid whole-cell quantitative imaging of SARS-CoV-2-infected cells.

Valentina Loconte, Jian-Hua Chen, Mirko Cortese, Axel Ekman, Mark A Le Gros, Carolyn Larabell, Ralf Bartenschlager, Venera Weinhardt

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports methods, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing papers in PubMed
5.0field-weighted citation impact, top 4% of its field
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

23 citing papers in PubMed, 54 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Review
  11. Article
  12. Article
  13. Article
  14. Article
  15. 3D surface reconstruction of cellular cryo-soft X-ray microscopy tomograms using semisupervised deep learning.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  16. Article
  17. Review
  18. Article
  19. Thapsigargin: key to new host-directed coronavirus antivirals?Trends in pharmacological sciences · 2022
    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

8 authors at 4 institutions in 2 countries.

Valentina LoconteMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Jian-Hua ChenMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Mirko CorteseDepartment of Infectious Diseases, Molecular Virology Heidelberg University, Heidelberg, Germany.
Axel EkmanDepartment of Anatomy, University of California, San Francisco, San Francisco, CA, USA.
Mark A Le GrosMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Carolyn LarabellMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Ralf BartenschlagerDepartment of Infectious Diseases, Molecular Virology Heidelberg University, Heidelberg, Germany.
Venera WeinhardtMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Lawrence Berkeley National Laboratory · USGerman Cancer Research Center · DEHeidelberg University · DEUniversity of California, San Francisco · US

Funding

TrainingP41GM103445 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LARABELL, CAROLYN A · 2012 to 2019
$8.2M
User Training and OutreachP30GM138441 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LARABELL, CAROLYN A · 2020 to 2023
$3.7M
NIGMS NIH HHS P30 GM138441NIGMS NIH HHS P41 GM103445
6 · The paper itself

Abstract

High-resolution and rapid imaging of host cell ultrastructure can generate insights toward viral disease mechanism, for example for a severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) infection. Here, we employ full-rotation soft X-ray tomography (SXT) to examine organelle remodeling induced by SARS-CoV-2 at the whole-cell level with high spatial resolution and throughput. Most of the current SXT systems suffer from a restricted field of view due to use of flat sample supports and artifacts due to missing data. In this approach using cylindrical sample holders, a full-rotation tomogram of human lung epithelial cells is performed in less than 10 min. We demonstrate the potential of SXT imaging by visualizing aggregates of SARS-CoV-2 virions and virus-induced intracellular alterations. This rapid whole-cell imaging approach allows us to visualize the spatiotemporal changes of cellular organelles upon viral infection in a quantitative manner.

Indexed as

COVID-19SARS-CoV-2Epithelial CellsHumansImaging, Three-DimensionalTomography, X-Raycellscryo-tomographyorganellesSARS-CoV-2soft X-raysynchrotrontomographyviral replication organelles

Identifiers

PMID34729550
PMCPMC8552653
OpenAlexW3209746740

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

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 Socratic graph.