Book Chapter


Quantitation of ER morphology and dynamics

Abstract

The plant endoplasmic reticulum forms a network of tubules connected by three-way junctions or sheet-like cisternae. Although the network is three-dimensional, in many plant cells, it is constrained to thin volume sandwiched between the vacuole and plasma membrane, effectively restricting it to a 2-D planar network. The structure of the network, and the morphology of the tubules and cisternae can be automatically extracted following intensity-independent edge-enhancement and various segmentation techniques to give an initial pixel-based skeleton, which is then converted to a graph representation. ER dynamics can be determined using optical flow techniques from computer vision or persistency analysis. Collectively, this approach yields a wealth of quantitative metrics for ER structure and can be used to describe the effects of pharmacological treatments or genetic manipulation. The software is publicly available.



The fulltext files of this resource are currently embargoed.
Embargo end: 2025-02-28

Authors

Fricker, Mark
Breeze, Emily
Pain, Charlotte
Kriechbaumer, Verena
Aguilar, Carlos
Ugalde, José M.
Meyer, Andreas J.

Oxford Brookes departments

Department of Biological and Medical Sciences

Dates

Year of publication: 2024
Date of RADAR deposit: 2024-03-01



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Related resources

This RADAR resource is the Accepted Manuscript of Quantitation of ER Morphology and Dynamics
This RADAR resource is Part of 2024.03.06: Springer alThe plant endoplasmic reticulum: methods and protocols [ISBN: 9781071637098] / edited by Verena Kriechbaumer (Springer, 2024).

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