QuoVadoPro, an Autonomous Tool for Measuring Intracellular Dynamics Using Temporal Variance

Basu, Himanish; Schwarz, Thomas L.

doi:10.1002/cpcb.108

Cited by 6 publications

(8 citation statements)

References 37 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Mitochondria in these cells are extensively interconnected and make only short linear runs that are poorly analyzed by kymography. We therefore developed an algorithm ( Basu and Schwarz, 2020 ) that reflects the extent to which they move by analyzing the variance in pixel occupancy of mitochondrial fluorescence over time ( Fig. S2 A ).…”

Section: Resultsmentioning

confidence: 99%

“…The time-lapse images of organellar movement in cell lines were analyzed with software we developed for this purpose, QuoVadoPro ( Basu and Schwarz, 2020 ). Briefly, the images are initially segmented into binary masks.…”

Section: Methodsmentioning

confidence: 99%

“…These pixels will therefore have a high total occupancy. Thus, normalizing for the total occupancy allows QuoVadoPro to give more weight to processive movements than to back-and-forth jitters ( Basu and Schwarz, 2020 ).…”

Section: Methodsmentioning

confidence: 99%

See 2 more Smart Citations

FHL2 anchors mitochondria to actin and adapts mitochondrial dynamics to glucose supply

Basu

Pekkurnaz

Falk

et al. 2021

Journal of Cell Biology

Self Cite

View full text Add to dashboard Cite

Mitochondrial movement and distribution are fundamental to their function. Here we report a mechanism that regulates mitochondrial movement by anchoring mitochondria to the F-actin cytoskeleton. This mechanism is activated by an increase in glucose influx and the consequent O-GlcNAcylation of TRAK (Milton), a component of the mitochondrial motor-adaptor complex. The protein four and a half LIM domains protein 2 (FHL2) serves as the anchor. FHL2 associates with O-GlcNAcylated TRAK and is both necessary and sufficient to drive the accumulation of F-actin around mitochondria and to arrest mitochondrial movement by anchoring to F-actin. Disruption of F-actin restores mitochondrial movement that had been arrested by either TRAK O-GlcNAcylation or forced direction of FHL2 to mitochondria. This pathway for mitochondrial immobilization is present in both neurons and non-neuronal cells and can thereby adapt mitochondrial dynamics to changes in glucose availability.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

FHL2 anchors mitochondria to actin and adapts mitochondrial dynamics to glucose supply

Basu

Pekkurnaz

Falk

et al. 2021

Journal of Cell Biology

Self Cite

View full text Add to dashboard Cite

show abstract

“…This software was instrumental in the initial determination that mitochondrial motility follows a lognormal distribution as seen in Figure 2 (Kandel et al, 2015) and in demonstrating that motility in the cell perinuclear and peripheral regions is not identical, as is shown in Figure 2 (Jang et al, 2019;Green et al, 2021). QuoVadoPro (QVP) (Basu and Schwarz, 2020) is also available online and can be found at https://github.com/ ThomasSchwarzLab/QuoVadoPro, utilizes ImageJ macros to quantify movement of a fluorescently tagged organelle. The extent of intracellular movement is inferred by quantifying the variance of pixel illumination over a series of time-lapse images.…”

Section: Methods To Assess Mitochondrial Motilitymentioning

confidence: 99%

Mitochondrial dynamics involves molecular and mechanical events in motility, fusion and fission

Green

Hossain²,

Eckmann³

2022

Front. Cell Dev. Biol.

View full text Add to dashboard Cite

Mitochondria are cell organelles that play pivotal roles in maintaining cell survival, cellular metabolic homeostasis, and cell death. Mitochondria are highly dynamic entities which undergo fusion and fission, and have been shown to be very motile in vivo in neurons and in vitro in multiple cell lines. Fusion and fission are essential for maintaining mitochondrial homeostasis through control of morphology, content exchange, inheritance of mitochondria, maintenance of mitochondrial DNA, and removal of damaged mitochondria by autophagy. Mitochondrial motility occurs through mechanical and molecular mechanisms which translocate mitochondria to sites of high energy demand. Motility also plays an important role in intracellular signaling. Here, we review key features that mediate mitochondrial dynamics and explore methods to advance the study of mitochondrial motility as well as mitochondrial dynamics-related diseases and mitochondrial-targeted therapeutics.

show abstract

“…Quantitative analysis of this data remains a problem however. The majority of existing quantitative analysis software was designed for two-dimensional (2D) fluorescence images of mitochondria (MyToe 14 , MitoSPT 15 , QuoVadoPro 16 ). For threedimensional (3D) fluorescence images, MitoGraph [17][18][19] is a unique tool for the segmentation and quantitation of 3D mitochondrial network morphology, yet lacks temporal analysis.…”

Section: Introductionmentioning

confidence: 99%

MitoTNT: Mitochondrial Temporal Network Tracking for 4D live-cell fluorescence microscopy data

Wang

Natekar

Tea

et al. 2022

Preprint

View full text Add to dashboard Cite

Mitochondria form a network in the cell that rapidly changes through fission, fusion, and motility. This four-dimensional (4D, x,y,z,time) temporal network has only recently been made accessible through advanced imaging methods such as lattice light-sheet microscopy. Quantitative analysis tools for the resulting datasets however have been lacking. Here we present MitoTNT, the first-in-class software for Mitochondrial Temporal Network Tracking in 4D live-cell fluorescence microscopy data. MitoTNT uses spatial proximity and network topology to compute an optimal tracking. Tracking is >90% accurate in dynamic spatial mitochondria simulations and are in agreement with published motility results in vitro. Using MitoTNT, we reveal correlated mitochondrial movement patterns, local fission and fusion fingerprints, asymmetric fission and fusion dynamics, cross-network transport patterns, and network-level responses to pharmacological manipulations. MitoTNT is implemented in python with a JupyterLab interface. The extendable and user-friendly design aims at making temporal network tracking accessible to the wider mitochondria community.

show abstract

QuoVadoPro, an Autonomous Tool for Measuring Intracellular Dynamics Using Temporal Variance

Abstract: QuoVadoPro, an autonomous tool for measuring intracellular dynamics using temporal variance.

Cited by 6 publications

References 37 publications

FHL2 anchors mitochondria to actin and adapts mitochondrial dynamics to glucose supply

FHL2 anchors mitochondria to actin and adapts mitochondrial dynamics to glucose supply

Mitochondrial dynamics involves molecular and mechanical events in motility, fusion and fission

MitoTNT: Mitochondrial Temporal Network Tracking for 4D live-cell fluorescence microscopy data

Contact Info

Product

Resources

About