Cargando…

GelMap: intrinsic calibration and deformation mapping for expansion microscopy

Expansion microscopy (ExM) is a powerful technique to overcome the diffraction limit of light microscopy by physically expanding biological specimen in three dimensions. Nonetheless, using ExM for quantitative or diagnostic applications requires robust quality control methods to precisely determine...

Descripción completa

Detalles Bibliográficos
Autores principales: Damstra, Hugo G. J., Passmore, Josiah B., Serweta, Albert K., Koutlas, Ioannis, Burute, Mithila, Meye, Frank J., Akhmanova, Anna, Kapitein, Lukas C.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group US 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10555834/
https://www.ncbi.nlm.nih.gov/pubmed/37723243
http://dx.doi.org/10.1038/s41592-023-02001-y
_version_ 1785116745742155776
author Damstra, Hugo G. J.
Passmore, Josiah B.
Serweta, Albert K.
Koutlas, Ioannis
Burute, Mithila
Meye, Frank J.
Akhmanova, Anna
Kapitein, Lukas C.
author_facet Damstra, Hugo G. J.
Passmore, Josiah B.
Serweta, Albert K.
Koutlas, Ioannis
Burute, Mithila
Meye, Frank J.
Akhmanova, Anna
Kapitein, Lukas C.
author_sort Damstra, Hugo G. J.
collection PubMed
description Expansion microscopy (ExM) is a powerful technique to overcome the diffraction limit of light microscopy by physically expanding biological specimen in three dimensions. Nonetheless, using ExM for quantitative or diagnostic applications requires robust quality control methods to precisely determine expansion factors and to map deformations due to anisotropic expansion. Here we present GelMap, a flexible workflow to introduce a fluorescent grid into pre-expanded hydrogels that scales with expansion and reports deformations. We demonstrate that GelMap can be used to precisely determine the local expansion factor and to correct for deformations without the use of cellular reference structures or pre-expansion ground-truth images. Moreover, we show that GelMap aids sample navigation for correlative uses of expansion microscopy. Finally, we show that GelMap is compatible with expansion of tissue and can be readily implemented as a quality control step into existing ExM workflows.
format Online
Article
Text
id pubmed-10555834
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Nature Publishing Group US
record_format MEDLINE/PubMed
spelling pubmed-105558342023-10-07 GelMap: intrinsic calibration and deformation mapping for expansion microscopy Damstra, Hugo G. J. Passmore, Josiah B. Serweta, Albert K. Koutlas, Ioannis Burute, Mithila Meye, Frank J. Akhmanova, Anna Kapitein, Lukas C. Nat Methods Article Expansion microscopy (ExM) is a powerful technique to overcome the diffraction limit of light microscopy by physically expanding biological specimen in three dimensions. Nonetheless, using ExM for quantitative or diagnostic applications requires robust quality control methods to precisely determine expansion factors and to map deformations due to anisotropic expansion. Here we present GelMap, a flexible workflow to introduce a fluorescent grid into pre-expanded hydrogels that scales with expansion and reports deformations. We demonstrate that GelMap can be used to precisely determine the local expansion factor and to correct for deformations without the use of cellular reference structures or pre-expansion ground-truth images. Moreover, we show that GelMap aids sample navigation for correlative uses of expansion microscopy. Finally, we show that GelMap is compatible with expansion of tissue and can be readily implemented as a quality control step into existing ExM workflows. Nature Publishing Group US 2023-09-18 2023 /pmc/articles/PMC10555834/ /pubmed/37723243 http://dx.doi.org/10.1038/s41592-023-02001-y Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Damstra, Hugo G. J.
Passmore, Josiah B.
Serweta, Albert K.
Koutlas, Ioannis
Burute, Mithila
Meye, Frank J.
Akhmanova, Anna
Kapitein, Lukas C.
GelMap: intrinsic calibration and deformation mapping for expansion microscopy
title GelMap: intrinsic calibration and deformation mapping for expansion microscopy
title_full GelMap: intrinsic calibration and deformation mapping for expansion microscopy
title_fullStr GelMap: intrinsic calibration and deformation mapping for expansion microscopy
title_full_unstemmed GelMap: intrinsic calibration and deformation mapping for expansion microscopy
title_short GelMap: intrinsic calibration and deformation mapping for expansion microscopy
title_sort gelmap: intrinsic calibration and deformation mapping for expansion microscopy
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10555834/
https://www.ncbi.nlm.nih.gov/pubmed/37723243
http://dx.doi.org/10.1038/s41592-023-02001-y
work_keys_str_mv AT damstrahugogj gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy
AT passmorejosiahb gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy
AT serwetaalbertk gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy
AT koutlasioannis gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy
AT burutemithila gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy
AT meyefrankj gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy
AT akhmanovaanna gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy
AT kapiteinlukasc gelmapintrinsiccalibrationanddeformationmappingforexpansionmicroscopy