A change point analysis protocol for comparing intracellular transport by different molecular motor combinations

Intracellular transport by microtubule-based molecular motors is marked by qualitatively different behaviors. It is a long-standing and still-open challenge to accurately quantify the various individual-cargo behaviors and how they are affected by the presence or absence of particular motor families...

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Autores principales:	Melanie A. Jensen, Qingzhou Feng, William O. Hancock, Scott A. McKinley
Formato:	article
Lenguaje:	EN
Publicado:	AIMS Press 2021
Materias:	intracellular transport molecular motors change point analysis Biotechnology TP248.13-248.65 Mathematics QA1-939
Acceso en línea:	https://doaj.org/article/75cacde1639347e6a4150e1c91a2b4fa
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spelling	oai:doaj.org-article:75cacde1639347e6a4150e1c91a2b4fa2021-11-29T02:51:55ZA change point analysis protocol for comparing intracellular transport by different molecular motor combinations10.3934/mbe.20214421551-0018https://doaj.org/article/75cacde1639347e6a4150e1c91a2b4fa2021-10-01T00:00:00Zhttps://www.aimspress.com/article/doi/10.3934/mbe.2021442?viewType=HTMLhttps://doaj.org/toc/1551-0018Intracellular transport by microtubule-based molecular motors is marked by qualitatively different behaviors. It is a long-standing and still-open challenge to accurately quantify the various individual-cargo behaviors and how they are affected by the presence or absence of particular motor families. In this work we introduce a protocol for analyzing change points in cargo trajectories that can be faithfully projected along the length of a (mostly) straight microtubule. Our protocol consists of automated identification of velocity change points, estimation of velocities during the behavior segments, and extrapolation to motor-specific velocity distributions. Using simulated data we show that our method compares favorably with existing methods. We then apply the technique to data sets in which quantum dots are transported by Kinesin-1, by Dynein-Dynactin-BicD2 (DDB), and by Kinesin-1/DDB pairs. In the end, we identify pausing behavior that is consistent with some tug-of-war model predictions, but also demonstrate that the simultaneous presence of antagonistic motors can lead to long processive runs that could contribute favorably to population-wide transport.Melanie A. JensenQingzhou FengWilliam O. HancockScott A. McKinleyAIMS Pressarticleintracellular transportmolecular motorschange point analysisBiotechnologyTP248.13-248.65MathematicsQA1-939ENMathematical Biosciences and Engineering, Vol 18, Iss 6, Pp 8962-8996 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	intracellular transport molecular motors change point analysis Biotechnology TP248.13-248.65 Mathematics QA1-939
spellingShingle	intracellular transport molecular motors change point analysis Biotechnology TP248.13-248.65 Mathematics QA1-939 Melanie A. Jensen Qingzhou Feng William O. Hancock Scott A. McKinley A change point analysis protocol for comparing intracellular transport by different molecular motor combinations
description	Intracellular transport by microtubule-based molecular motors is marked by qualitatively different behaviors. It is a long-standing and still-open challenge to accurately quantify the various individual-cargo behaviors and how they are affected by the presence or absence of particular motor families. In this work we introduce a protocol for analyzing change points in cargo trajectories that can be faithfully projected along the length of a (mostly) straight microtubule. Our protocol consists of automated identification of velocity change points, estimation of velocities during the behavior segments, and extrapolation to motor-specific velocity distributions. Using simulated data we show that our method compares favorably with existing methods. We then apply the technique to data sets in which quantum dots are transported by Kinesin-1, by Dynein-Dynactin-BicD2 (DDB), and by Kinesin-1/DDB pairs. In the end, we identify pausing behavior that is consistent with some tug-of-war model predictions, but also demonstrate that the simultaneous presence of antagonistic motors can lead to long processive runs that could contribute favorably to population-wide transport.
format	article
author	Melanie A. Jensen Qingzhou Feng William O. Hancock Scott A. McKinley
author_facet	Melanie A. Jensen Qingzhou Feng William O. Hancock Scott A. McKinley
author_sort	Melanie A. Jensen
title	A change point analysis protocol for comparing intracellular transport by different molecular motor combinations
title_short	A change point analysis protocol for comparing intracellular transport by different molecular motor combinations
title_full	A change point analysis protocol for comparing intracellular transport by different molecular motor combinations
title_fullStr	A change point analysis protocol for comparing intracellular transport by different molecular motor combinations
title_full_unstemmed	A change point analysis protocol for comparing intracellular transport by different molecular motor combinations
title_sort	change point analysis protocol for comparing intracellular transport by different molecular motor combinations
publisher	AIMS Press
publishDate	2021
url	https://doaj.org/article/75cacde1639347e6a4150e1c91a2b4fa
work_keys_str_mv	AT melanieajensen achangepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations AT qingzhoufeng achangepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations AT williamohancock achangepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations AT scottamckinley achangepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations AT melanieajensen changepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations AT qingzhoufeng changepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations AT williamohancock changepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations AT scottamckinley changepointanalysisprotocolforcomparingintracellulartransportbydifferentmolecularmotorcombinations
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A change point analysis protocol for comparing intracellular transport by different molecular motor combinations

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