Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles

Molecular motors are responsible of transporting a wide variety of cargos in the cytoplasm. Current efforts are oriented to characterize the biophysical properties of motors in cells with the aim of elucidating the mechanisms of these nanomachines in the complex cellular environment. In this study,...

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Detalles Bibliográficos
Autores principales: Bruno, Luciana, Levi, Valeria
Publicado: 2013
Materias:
Dwell time
Molecular motors
Single particle tracking
Stepping dynamics
Xenopus melanophores
myosin V
Xenopus protein
algorithm
animal
article
biology
cell survival
kinetics
melanosome
metabolism
methodology
movement (physiology)
transport at the cellular level
Xenopus laevis
Algorithms
Animals
Biological Transport
Cell Survival
Computational Biology
Kinetics
Melanosomes
Movement
Myosin Type V
Xenopus Proteins
Acceso en línea:https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_10859195_v65_n1_p1_Bruno
http://hdl.handle.net/20.500.12110/paper_10859195_v65_n1_p1_Bruno
Aporte de:
Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) de Universidad de Buenos Aires
id paper:paper_10859195_v65_n1_p1_Bruno
record_format dspace
spelling paper:paper_10859195_v65_n1_p1_Bruno2023-06-08T16:06:09Z Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles Bruno, Luciana Levi, Valeria Dwell time Molecular motors Single particle tracking Stepping dynamics Xenopus melanophores myosin V Xenopus protein algorithm animal article biology cell survival kinetics melanosome metabolism methodology movement (physiology) transport at the cellular level Xenopus laevis Algorithms Animals Biological Transport Cell Survival Computational Biology Kinetics Melanosomes Movement Myosin Type V Xenopus laevis Xenopus Proteins Molecular motors are responsible of transporting a wide variety of cargos in the cytoplasm. Current efforts are oriented to characterize the biophysical properties of motors in cells with the aim of elucidating the mechanisms of these nanomachines in the complex cellular environment. In this study, we present an algorithm designed to extract motor step sizes and dwell times between steps from trajectories of motors or cargoes driven by motors in cells. The algorithm is based on finding patterns in the trajectory compatible with the behavior expected for a motor step, i. e., a region of confined motion followed by a jump in the position to another region of confined motion with similar characteristics to the previous one. We show that this algorithm allows the analysis of 2D trajectories even if they present complex motion patterns such as active transport interspersed with diffusion and does not require the assumption of a given step size or dwell period. The confidence on the step detection can be easily obtained and allows the evaluation of the confidence of the dwell and step size distributions. To illustrate the possible applications of this algorithm, we analyzed trajectories of myosin-V driven organelles in living cells. © 2012 Springer Science+Business Media, LLC. Fil:Bruno, L. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Levi, V. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. 2013 https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_10859195_v65_n1_p1_Bruno http://hdl.handle.net/20.500.12110/paper_10859195_v65_n1_p1_Bruno
institution Universidad de Buenos Aires
institution_str I-28
repository_str R-134
collection Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA)
topic Dwell time
Molecular motors
Single particle tracking
Stepping dynamics
Xenopus melanophores
myosin V
Xenopus protein
algorithm
animal
article
biology
cell survival
kinetics
melanosome
metabolism
methodology
movement (physiology)
transport at the cellular level
Xenopus laevis
Algorithms
Animals
Biological Transport
Cell Survival
Computational Biology
Kinetics
Melanosomes
Movement
Myosin Type V
Xenopus laevis
Xenopus Proteins
spellingShingle Dwell time
Molecular motors
Single particle tracking
Stepping dynamics
Xenopus melanophores
myosin V
Xenopus protein
algorithm
animal
article
biology
cell survival
kinetics
melanosome
metabolism
methodology
movement (physiology)
transport at the cellular level
Xenopus laevis
Algorithms
Animals
Biological Transport
Cell Survival
Computational Biology
Kinetics
Melanosomes
Movement
Myosin Type V
Xenopus laevis
Xenopus Proteins
Bruno, Luciana
Levi, Valeria
Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles
topic_facet Dwell time
Molecular motors
Single particle tracking
Stepping dynamics
Xenopus melanophores
myosin V
Xenopus protein
algorithm
animal
article
biology
cell survival
kinetics
melanosome
metabolism
methodology
movement (physiology)
transport at the cellular level
Xenopus laevis
Algorithms
Animals
Biological Transport
Cell Survival
Computational Biology
Kinetics
Melanosomes
Movement
Myosin Type V
Xenopus laevis
Xenopus Proteins
description Molecular motors are responsible of transporting a wide variety of cargos in the cytoplasm. Current efforts are oriented to characterize the biophysical properties of motors in cells with the aim of elucidating the mechanisms of these nanomachines in the complex cellular environment. In this study, we present an algorithm designed to extract motor step sizes and dwell times between steps from trajectories of motors or cargoes driven by motors in cells. The algorithm is based on finding patterns in the trajectory compatible with the behavior expected for a motor step, i. e., a region of confined motion followed by a jump in the position to another region of confined motion with similar characteristics to the previous one. We show that this algorithm allows the analysis of 2D trajectories even if they present complex motion patterns such as active transport interspersed with diffusion and does not require the assumption of a given step size or dwell period. The confidence on the step detection can be easily obtained and allows the evaluation of the confidence of the dwell and step size distributions. To illustrate the possible applications of this algorithm, we analyzed trajectories of myosin-V driven organelles in living cells. © 2012 Springer Science+Business Media, LLC.
author Bruno, Luciana
Levi, Valeria
author_facet Bruno, Luciana
Levi, Valeria
author_sort Bruno, Luciana
title Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles
title_short Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles
title_full Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles
title_fullStr Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles
title_full_unstemmed Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles
title_sort extracting the stepping dynamics of molecular motors in living cells from trajectories of single particles
publishDate 2013
url https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_10859195_v65_n1_p1_Bruno
http://hdl.handle.net/20.500.12110/paper_10859195_v65_n1_p1_Bruno
work_keys_str_mv AT brunoluciana extractingthesteppingdynamicsofmolecularmotorsinlivingcellsfromtrajectoriesofsingleparticles
AT levivaleria extractingthesteppingdynamicsofmolecularmotorsinlivingcellsfromtrajectoriesofsingleparticles
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