Abstract

MotivationActin filaments (AFs) are dynamic structures that substantially change their organization over time. The dynamic behavior and the relatively low signal-to-noise ratio during live-cell imaging have rendered the quantification of the actin organization a difficult task.ResultsWe developed an automated image-based framework that extracts AFs from fluorescence microscopy images and represents them as networks, which are automatically analyzed to identify and compare biologically relevant features. Although the source code is freely available, we have now implemented the framework into a graphical user interface that can be installed as a Fiji plugin, thus enabling easy access by the research community.Availability and implementationCytoSeg 2.0 is open-source software under the GPL and is available on Github: https://github.com/jnowak90/CytoSeg2.0.Supplementary information Supplementary data are available at Bioinformatics online.

Highlights

  • The actin cytoskeleton underpins many cellular processes, such as cytoplasmic streaming, cell wall organization and trafficking of vesicles inside the cell (Derksen et al, 1990)

  • Automated frameworks for the analysis of microtubule organization and dynamics are well-established (Faulkner et al, 2017; Kapoor et al, 2019), it has proven more challenging to device-automated frameworks to quantify features of the actin cytoskeleton, mainly due to its rapid dynamics

  • We used transport-related network properties to quantify the organization of the actin cytoskeleton and showed that actin filaments (AFs) in Arabidopsis thaliana hypocotyls are optimized for efficient transport

Read more

Summary

Introduction

The actin cytoskeleton underpins many cellular processes, such as cytoplasmic streaming, cell wall organization and trafficking of vesicles inside the cell (Derksen et al, 1990). The actin filaments (AFs) provide the backbone of the cytoskeleton. We published an automated framework which extracts networks from segmented AFs (Breuer et al, 2017). We used transport-related network properties to quantify the organization of the actin cytoskeleton and showed that AFs in Arabidopsis thaliana hypocotyls are optimized for efficient transport.

Results
Conclusion
Full Text

Published Version (Free)

Talk to us

Join us for a 30 min session where you can share your feedback and ask us any queries you have

Schedule a call

Disclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.