Cargando…
Soft X‐ray tomograms provide a structural basis for whole‐cell modeling
Developing in silico models that accurately reflect a whole, functional cell is an ongoing challenge in biology. Current efforts bring together mathematical models, probabilistic models, visual representations, and data to create a multi‐scale description of cellular processes. A realistic whole‐cel...
Autores principales: | , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2022
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10107707/ https://www.ncbi.nlm.nih.gov/pubmed/36519968 http://dx.doi.org/10.1096/fj.202200253R |
_version_ | 1785026664709750784 |
---|---|
author | Loconte, Valentina Chen, Jian‐Hua Vanslembrouck, Bieke Ekman, Axel A. McDermott, Gerry Le Gros, Mark A. Larabell, Carolyn A. |
author_facet | Loconte, Valentina Chen, Jian‐Hua Vanslembrouck, Bieke Ekman, Axel A. McDermott, Gerry Le Gros, Mark A. Larabell, Carolyn A. |
author_sort | Loconte, Valentina |
collection | PubMed |
description | Developing in silico models that accurately reflect a whole, functional cell is an ongoing challenge in biology. Current efforts bring together mathematical models, probabilistic models, visual representations, and data to create a multi‐scale description of cellular processes. A realistic whole‐cell model requires imaging data since it provides spatial constraints and other critical cellular characteristics that are still impossible to obtain by calculation alone. This review introduces Soft X‐ray Tomography (SXT) as a powerful imaging technique to visualize and quantify the mesoscopic (~25 nm spatial scale) organelle landscape in whole cells. SXT generates three‐dimensional reconstructions of cellular ultrastructure and provides a measured structural framework for whole‐cell modeling. Combining SXT with data from disparate technologies at varying spatial resolutions provides further biochemical details and constraints for modeling cellular mechanisms. We conclude, based on the results discussed here, that SXT provides a foundational dataset for a broad spectrum of whole‐cell modeling experiments. |
format | Online Article Text |
id | pubmed-10107707 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-101077072023-04-18 Soft X‐ray tomograms provide a structural basis for whole‐cell modeling Loconte, Valentina Chen, Jian‐Hua Vanslembrouck, Bieke Ekman, Axel A. McDermott, Gerry Le Gros, Mark A. Larabell, Carolyn A. FASEB J Perspective Developing in silico models that accurately reflect a whole, functional cell is an ongoing challenge in biology. Current efforts bring together mathematical models, probabilistic models, visual representations, and data to create a multi‐scale description of cellular processes. A realistic whole‐cell model requires imaging data since it provides spatial constraints and other critical cellular characteristics that are still impossible to obtain by calculation alone. This review introduces Soft X‐ray Tomography (SXT) as a powerful imaging technique to visualize and quantify the mesoscopic (~25 nm spatial scale) organelle landscape in whole cells. SXT generates three‐dimensional reconstructions of cellular ultrastructure and provides a measured structural framework for whole‐cell modeling. Combining SXT with data from disparate technologies at varying spatial resolutions provides further biochemical details and constraints for modeling cellular mechanisms. We conclude, based on the results discussed here, that SXT provides a foundational dataset for a broad spectrum of whole‐cell modeling experiments. John Wiley and Sons Inc. 2022-12-15 2023-01 /pmc/articles/PMC10107707/ /pubmed/36519968 http://dx.doi.org/10.1096/fj.202200253R Text en © 2022 The Authors. The FASEB Journal published by Wiley Periodicals LLC on behalf of Federation of American Societies for Experimental Biology. https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc-nd/4.0/ (https://creativecommons.org/licenses/by-nc-nd/4.0/) License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made. |
spellingShingle | Perspective Loconte, Valentina Chen, Jian‐Hua Vanslembrouck, Bieke Ekman, Axel A. McDermott, Gerry Le Gros, Mark A. Larabell, Carolyn A. Soft X‐ray tomograms provide a structural basis for whole‐cell modeling |
title | Soft X‐ray tomograms provide a structural basis for whole‐cell modeling |
title_full | Soft X‐ray tomograms provide a structural basis for whole‐cell modeling |
title_fullStr | Soft X‐ray tomograms provide a structural basis for whole‐cell modeling |
title_full_unstemmed | Soft X‐ray tomograms provide a structural basis for whole‐cell modeling |
title_short | Soft X‐ray tomograms provide a structural basis for whole‐cell modeling |
title_sort | soft x‐ray tomograms provide a structural basis for whole‐cell modeling |
topic | Perspective |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10107707/ https://www.ncbi.nlm.nih.gov/pubmed/36519968 http://dx.doi.org/10.1096/fj.202200253R |
work_keys_str_mv | AT locontevalentina softxraytomogramsprovideastructuralbasisforwholecellmodeling AT chenjianhua softxraytomogramsprovideastructuralbasisforwholecellmodeling AT vanslembrouckbieke softxraytomogramsprovideastructuralbasisforwholecellmodeling AT ekmanaxela softxraytomogramsprovideastructuralbasisforwholecellmodeling AT mcdermottgerry softxraytomogramsprovideastructuralbasisforwholecellmodeling AT legrosmarka softxraytomogramsprovideastructuralbasisforwholecellmodeling AT larabellcarolyna softxraytomogramsprovideastructuralbasisforwholecellmodeling |