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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Autores principales:	Bruno, A., Bruno, L., Levi, V.
Formato:	JOUR
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:	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	todo:paper_10859195_v65_n1_p1_Bruno
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spelling	todo:paper_10859195_v65_n1_p1_Bruno2023-10-03T16:04:19Z Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles Bruno, A. Bruno, L. Levi, V. 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. JOUR info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar 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, A. Bruno, L. Levi, V. 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.
format	JOUR
author	Bruno, A. Bruno, L. Levi, V.
author_facet	Bruno, A. Bruno, L. Levi, V.
author_sort	Bruno, A.
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
url	http://hdl.handle.net/20.500.12110/paper_10859195_v65_n1_p1_Bruno
work_keys_str_mv	AT brunoa extractingthesteppingdynamicsofmolecularmotorsinlivingcellsfromtrajectoriesofsingleparticles AT brunol extractingthesteppingdynamicsofmolecularmotorsinlivingcellsfromtrajectoriesofsingleparticles AT leviv extractingthesteppingdynamicsofmolecularmotorsinlivingcellsfromtrajectoriesofsingleparticles
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Extracting the Stepping Dynamics of Molecular Motors in Living Cells from Trajectories of Single Particles

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