Stochastic individual-based modeling of bacterial growth and division using flow cytometry

12 pages, 2 tables, 3 figures.-- This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publicat...

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Autores: García, Miriam R., Vázquez, José Antonio, Teixeira, I. G., Alonso, Antonio A.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2018
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/159435
Acceso en línea:http://hdl.handle.net/10261/159435
Access Level:acceso abierto
Palabra clave:Individual-based modeling
Stochastic modeling
Cell cycle
Bacterial growth and division
Modified Fokker-Planck equation
Flow cytometry
Coccoid bacteria
Predictive microbiology
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spelling Stochastic individual-based modeling of bacterial growth and division using flow cytometryGarcía, Miriam R.Vázquez, José AntonioTeixeira, I. G.Alonso, Antonio A.Individual-based modelingStochastic modelingCell cycleBacterial growth and divisionModified Fokker-Planck equationFlow cytometryCoccoid bacteriaPredictive microbiology12 pages, 2 tables, 3 figures.-- This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these termsA realistic description of the variability in bacterial growth and division is critical to produce reliable predictions of safety risks along the food chain. Individual-based modeling of bacteria provides the theoretical framework to deal with this variability, but it requires information about the individual behavior of bacteria inside populations. In this work, we overcome this problem by estimating the individual behavior of bacteria from population statistics obtained with flow cytometry. For this objective, a stochastic individual-based modeling framework is defined based on standard assumptions during division and exponential growth. The unknown single-cell parameters required for running the individual-based modeling simulations, such as cell size growth rate, are estimated from the flow cytometry data. Instead of using directly the individual-based model, we make use of a modified Fokker-Plank equation. This only equation simulates the population statistics in function of the unknown single-cell parameters.We test the validity of the approach by modeling the growth and division of Pediococcus acidilactici within the exponential phase. Estimations reveal the statistics of cell growth and division using only data from flow cytometry at a given time. From the relationship between the mother and daughter volumes, we also predict that P. acidilactici divide into two successive parallel planesThe authors acknowledge financial support from the Spanish Government (MINECO) and the European Regional Development Fund (ERDF) through the projects “RESISTANCE” (DPI2014-54085-JIN) and “IMPROWINE” (AGL2015-67504-C3-2-R) and from the Spanish Council for Scientific Research (CSIC) for the project PIE 201230E042. We also acknowledge funds received from the Axencia Galega de Investigación (GAIN)Peer reviewedFrontiers MediaMinisterio de Economía y Competitividad (España)Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]201820182018info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/159435reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/MINECO/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/AGL2015-67504-C3-2-Rhttp://dx.doi.org/10.3389/fmicb.2017.02626Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/1594352026-05-22T06:33:51Z
dc.title.none.fl_str_mv Stochastic individual-based modeling of bacterial growth and division using flow cytometry
title Stochastic individual-based modeling of bacterial growth and division using flow cytometry
spellingShingle Stochastic individual-based modeling of bacterial growth and division using flow cytometry
García, Miriam R.
Individual-based modeling
Stochastic modeling
Cell cycle
Bacterial growth and division
Modified Fokker-Planck equation
Flow cytometry
Coccoid bacteria
Predictive microbiology
title_short Stochastic individual-based modeling of bacterial growth and division using flow cytometry
title_full Stochastic individual-based modeling of bacterial growth and division using flow cytometry
title_fullStr Stochastic individual-based modeling of bacterial growth and division using flow cytometry
title_full_unstemmed Stochastic individual-based modeling of bacterial growth and division using flow cytometry
title_sort Stochastic individual-based modeling of bacterial growth and division using flow cytometry
dc.creator.none.fl_str_mv García, Miriam R.
Vázquez, José Antonio
Teixeira, I. G.
Alonso, Antonio A.
author García, Miriam R.
author_facet García, Miriam R.
Vázquez, José Antonio
Teixeira, I. G.
Alonso, Antonio A.
author_role author
author2 Vázquez, José Antonio
Teixeira, I. G.
Alonso, Antonio A.
author2_role author
author
author
dc.contributor.none.fl_str_mv Ministerio de Economía y Competitividad (España)
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Individual-based modeling
Stochastic modeling
Cell cycle
Bacterial growth and division
Modified Fokker-Planck equation
Flow cytometry
Coccoid bacteria
Predictive microbiology
topic Individual-based modeling
Stochastic modeling
Cell cycle
Bacterial growth and division
Modified Fokker-Planck equation
Flow cytometry
Coccoid bacteria
Predictive microbiology
description 12 pages, 2 tables, 3 figures.-- This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms
publishDate 2018
dc.date.none.fl_str_mv 2018
2018
2018
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
Publisher's version
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/159435
url http://hdl.handle.net/10261/159435
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv #PLACEHOLDER_PARENT_METADATA_VALUE#
info:eu-repo/grantAgreement/MINECO/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/AGL2015-67504-C3-2-R
http://dx.doi.org/10.3389/fmicb.2017.02626
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Frontiers Media
publisher.none.fl_str_mv Frontiers Media
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
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repository.mail.fl_str_mv
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