Three-Dimensional Imaging Analysis for Skeletal Muscle

Smrithi Karthikeyan; Kyutae Kim; Yoko Asakura; Mayank Verma; Atsushi Asakura

doi:10.1007/978-1-0716-3036-5_32

Three-Dimensional Imaging Analysis for Skeletal Muscle

Smrithi Karthikeyan, Kyutae Kim, Yoko Asakura, Mayank Verma, Atsushi Asakura

Research output: Chapter in Book/Report/Conference proceeding › Chapter

1 Scopus citations

Abstract

Skeletal muscle is a highly ordered tissue composed of a complex network of a diverse variety of cells. The dynamic spatial and temporal interaction between these cells during homeostasis and during times of injury gives the skeletal muscle its regenerative capacity. In order to properly understand the process of regeneration, a three-dimensional (3-D) imaging process must be conducted. While there have been several protocols studying 3-D imaging, it has primarily been focused on the nervous system. This protocol aims to outline the workflow for rendering a 3-D image of the skeletal muscle using spatial data from confocal microscope images. This protocol uses the ImageJ, Ilastik, and Imaris software for 3-D rendering and computational image analysis as both are relatively easy to use and have powerful segmentation capabilities.

Original language	English (US)
Title of host publication	Methods in Molecular Biology
Publisher	Humana Press Inc.
Pages	463-477
Number of pages	15
DOIs	https://doi.org/10.1007/978-1-0716-3036-5_32
State	Published - 2023

Publication series

Name	Methods in Molecular Biology
Volume	2640
ISSN (Print)	1064-3745
ISSN (Electronic)	1940-6029

Bibliographical note

Funding Information:
We thank the Minnesota Supercomputing Institute, the University of Minnesota Imaging Center. We also thank Dr. Masatsugu Ema (Shiga University of Medical Science) for providing Flk1+/GFP mice. This work was supported by NIHR01AR062142, NIH-R21AR070319, and Regenerative Medicine Minnesota (RMM) Grant to AA.

Publisher Copyright:
© 2023, Springer Science+Business Media, LLC, part of Springer Nature.

Keywords

3D imaging
Angiogenesis
Endothelial cell
Muscle regeneration
Muscle stem cell
Muscular dystrophy
Myogenesis
Satellite cell
Skeletal muscle
Tissue clearing
Satellite Cells, Skeletal Muscle/physiology
Image Processing, Computer-Assisted
Muscle Development/physiology
Cell Differentiation
Muscle, Skeletal/physiology
Imaging, Three-Dimensional

PubMed: MeSH publication types

Research Support, Non-U.S. Gov't
Journal Article
Research Support, N.I.H., Extramural

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10.1007/978-1-0716-3036-5_32

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Cite this

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abstract = "Skeletal muscle is a highly ordered tissue composed of a complex network of a diverse variety of cells. The dynamic spatial and temporal interaction between these cells during homeostasis and during times of injury gives the skeletal muscle its regenerative capacity. In order to properly understand the process of regeneration, a three-dimensional (3-D) imaging process must be conducted. While there have been several protocols studying 3-D imaging, it has primarily been focused on the nervous system. This protocol aims to outline the workflow for rendering a 3-D image of the skeletal muscle using spatial data from confocal microscope images. This protocol uses the ImageJ, Ilastik, and Imaris software for 3-D rendering and computational image analysis as both are relatively easy to use and have powerful segmentation capabilities.",

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AU - Verma, Mayank

AU - Asakura, Atsushi

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N2 - Skeletal muscle is a highly ordered tissue composed of a complex network of a diverse variety of cells. The dynamic spatial and temporal interaction between these cells during homeostasis and during times of injury gives the skeletal muscle its regenerative capacity. In order to properly understand the process of regeneration, a three-dimensional (3-D) imaging process must be conducted. While there have been several protocols studying 3-D imaging, it has primarily been focused on the nervous system. This protocol aims to outline the workflow for rendering a 3-D image of the skeletal muscle using spatial data from confocal microscope images. This protocol uses the ImageJ, Ilastik, and Imaris software for 3-D rendering and computational image analysis as both are relatively easy to use and have powerful segmentation capabilities.

AB - Skeletal muscle is a highly ordered tissue composed of a complex network of a diverse variety of cells. The dynamic spatial and temporal interaction between these cells during homeostasis and during times of injury gives the skeletal muscle its regenerative capacity. In order to properly understand the process of regeneration, a three-dimensional (3-D) imaging process must be conducted. While there have been several protocols studying 3-D imaging, it has primarily been focused on the nervous system. This protocol aims to outline the workflow for rendering a 3-D image of the skeletal muscle using spatial data from confocal microscope images. This protocol uses the ImageJ, Ilastik, and Imaris software for 3-D rendering and computational image analysis as both are relatively easy to use and have powerful segmentation capabilities.

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KW - Muscle regeneration

KW - Muscle stem cell

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KW - Myogenesis

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KW - Tissue clearing

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KW - Image Processing, Computer-Assisted

KW - Muscle Development/physiology

KW - Cell Differentiation

KW - Muscle, Skeletal/physiology

KW - Imaging, Three-Dimensional

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ER -

Three-Dimensional Imaging Analysis for Skeletal Muscle

Abstract

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Bibliographical note

Keywords

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Nikon A1R FLIM Confocal Microscope

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Three-Dimensional Imaging Analysis for Skeletal Muscle

Abstract

Publication series

Bibliographical note

Keywords

PubMed: MeSH publication types

Publisher link

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Nikon A1R FLIM Confocal Microscope

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