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Efficient computation of stochastic cell-size transient dynamics

BACKGROUND: How small, fast-growing bacteria ensure tight cell-size distributions remains elusive. High-throughput measurement techniques have propelled efforts to build modeling tools that help to shed light on the relationships between cell size, growth and cycle progression. Most proposed models...

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Autores principales: Nieto-Acuna, Cesar Augusto, Vargas-Garcia, Cesar Augusto, Singh, Abhyudai, Pedraza, Juan Manuel
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6933677/
https://www.ncbi.nlm.nih.gov/pubmed/31881826
http://dx.doi.org/10.1186/s12859-019-3213-7
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author Nieto-Acuna, Cesar Augusto
Vargas-Garcia, Cesar Augusto
Singh, Abhyudai
Pedraza, Juan Manuel
author_facet Nieto-Acuna, Cesar Augusto
Vargas-Garcia, Cesar Augusto
Singh, Abhyudai
Pedraza, Juan Manuel
author_sort Nieto-Acuna, Cesar Augusto
collection PubMed
description BACKGROUND: How small, fast-growing bacteria ensure tight cell-size distributions remains elusive. High-throughput measurement techniques have propelled efforts to build modeling tools that help to shed light on the relationships between cell size, growth and cycle progression. Most proposed models describe cell division as a discrete map between size at birth and size at division with stochastic fluctuations assumed. However, such models underestimate the role of cell size transient dynamics by excluding them. RESULTS: We propose an efficient approach for estimation of cell size transient dynamics. Our technique approximates the transient size distribution and statistical moment dynamics of exponential growing cells following an adder strategy with arbitrary precision. CONCLUSIONS: We approximate, up to arbitrary precision, the distribution of division times and size across time for the adder strategy in rod-shaped bacteria cells. Our approach is able to compute statistical moments like mean size and its variance from such distributions efficiently, showing close match with numerical simulations. Additionally, we observed that these distributions have periodic properties. Our approach further might shed light on the mechanisms behind gene product homeostasis.
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spelling pubmed-69336772019-12-30 Efficient computation of stochastic cell-size transient dynamics Nieto-Acuna, Cesar Augusto Vargas-Garcia, Cesar Augusto Singh, Abhyudai Pedraza, Juan Manuel BMC Bioinformatics Research BACKGROUND: How small, fast-growing bacteria ensure tight cell-size distributions remains elusive. High-throughput measurement techniques have propelled efforts to build modeling tools that help to shed light on the relationships between cell size, growth and cycle progression. Most proposed models describe cell division as a discrete map between size at birth and size at division with stochastic fluctuations assumed. However, such models underestimate the role of cell size transient dynamics by excluding them. RESULTS: We propose an efficient approach for estimation of cell size transient dynamics. Our technique approximates the transient size distribution and statistical moment dynamics of exponential growing cells following an adder strategy with arbitrary precision. CONCLUSIONS: We approximate, up to arbitrary precision, the distribution of division times and size across time for the adder strategy in rod-shaped bacteria cells. Our approach is able to compute statistical moments like mean size and its variance from such distributions efficiently, showing close match with numerical simulations. Additionally, we observed that these distributions have periodic properties. Our approach further might shed light on the mechanisms behind gene product homeostasis. BioMed Central 2019-12-27 /pmc/articles/PMC6933677/ /pubmed/31881826 http://dx.doi.org/10.1186/s12859-019-3213-7 Text en © The Author(s) 2019 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research
Nieto-Acuna, Cesar Augusto
Vargas-Garcia, Cesar Augusto
Singh, Abhyudai
Pedraza, Juan Manuel
Efficient computation of stochastic cell-size transient dynamics
title Efficient computation of stochastic cell-size transient dynamics
title_full Efficient computation of stochastic cell-size transient dynamics
title_fullStr Efficient computation of stochastic cell-size transient dynamics
title_full_unstemmed Efficient computation of stochastic cell-size transient dynamics
title_short Efficient computation of stochastic cell-size transient dynamics
title_sort efficient computation of stochastic cell-size transient dynamics
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6933677/
https://www.ncbi.nlm.nih.gov/pubmed/31881826
http://dx.doi.org/10.1186/s12859-019-3213-7
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