Phase resetting reveals network dynamics underlying a bacterial cell cycle.

Genomic and proteomic methods yield networks of biological regulatory interactions but do not provide direct insight into how those interactions are organized into functional modules, or how information flows from one module to another. In this work we introduce an approach that provides this comple...

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Autores principales:	Yihan Lin, Ying Li, Sean Crosson, Aaron R Dinner, Norbert F Scherer
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/c5bb1ff4367f4f3f95b7f6e1598b8017
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spelling	oai:doaj.org-article:c5bb1ff4367f4f3f95b7f6e1598b80172021-11-18T05:52:41ZPhase resetting reveals network dynamics underlying a bacterial cell cycle.1553-734X1553-735810.1371/journal.pcbi.1002778https://doaj.org/article/c5bb1ff4367f4f3f95b7f6e1598b80172012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23209388/?tool=EBIhttps://doaj.org/toc/1553-734Xhttps://doaj.org/toc/1553-7358Genomic and proteomic methods yield networks of biological regulatory interactions but do not provide direct insight into how those interactions are organized into functional modules, or how information flows from one module to another. In this work we introduce an approach that provides this complementary information and apply it to the bacterium Caulobacter crescentus, a paradigm for cell-cycle control. Operationally, we use an inducible promoter to express the essential transcriptional regulatory gene ctrA in a periodic, pulsed fashion. This chemical perturbation causes the population of cells to divide synchronously, and we use the resulting advance or delay of the division times of single cells to construct a phase resetting curve. We find that delay is strongly favored over advance. This finding is surprising since it does not follow from the temporal expression profile of CtrA and, in turn, simulations of existing network models. We propose a phenomenological model that suggests that the cell-cycle network comprises two distinct functional modules that oscillate autonomously and couple in a highly asymmetric fashion. These features collectively provide a new mechanism for tight temporal control of the cell cycle in C. crescentus. We discuss how the procedure can serve as the basis for a general approach for probing network dynamics, which we term chemical perturbation spectroscopy (CPS).Yihan LinYing LiSean CrossonAaron R DinnerNorbert F SchererPublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Computational Biology, Vol 8, Iss 11, p e1002778 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 Yihan Lin Ying Li Sean Crosson Aaron R Dinner Norbert F Scherer Phase resetting reveals network dynamics underlying a bacterial cell cycle.
description	Genomic and proteomic methods yield networks of biological regulatory interactions but do not provide direct insight into how those interactions are organized into functional modules, or how information flows from one module to another. In this work we introduce an approach that provides this complementary information and apply it to the bacterium Caulobacter crescentus, a paradigm for cell-cycle control. Operationally, we use an inducible promoter to express the essential transcriptional regulatory gene ctrA in a periodic, pulsed fashion. This chemical perturbation causes the population of cells to divide synchronously, and we use the resulting advance or delay of the division times of single cells to construct a phase resetting curve. We find that delay is strongly favored over advance. This finding is surprising since it does not follow from the temporal expression profile of CtrA and, in turn, simulations of existing network models. We propose a phenomenological model that suggests that the cell-cycle network comprises two distinct functional modules that oscillate autonomously and couple in a highly asymmetric fashion. These features collectively provide a new mechanism for tight temporal control of the cell cycle in C. crescentus. We discuss how the procedure can serve as the basis for a general approach for probing network dynamics, which we term chemical perturbation spectroscopy (CPS).
format	article
author	Yihan Lin Ying Li Sean Crosson Aaron R Dinner Norbert F Scherer
author_facet	Yihan Lin Ying Li Sean Crosson Aaron R Dinner Norbert F Scherer
author_sort	Yihan Lin
title	Phase resetting reveals network dynamics underlying a bacterial cell cycle.
title_short	Phase resetting reveals network dynamics underlying a bacterial cell cycle.
title_full	Phase resetting reveals network dynamics underlying a bacterial cell cycle.
title_fullStr	Phase resetting reveals network dynamics underlying a bacterial cell cycle.
title_full_unstemmed	Phase resetting reveals network dynamics underlying a bacterial cell cycle.
title_sort	phase resetting reveals network dynamics underlying a bacterial cell cycle.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/c5bb1ff4367f4f3f95b7f6e1598b8017
work_keys_str_mv	AT yihanlin phaseresettingrevealsnetworkdynamicsunderlyingabacterialcellcycle AT yingli phaseresettingrevealsnetworkdynamicsunderlyingabacterialcellcycle AT seancrosson phaseresettingrevealsnetworkdynamicsunderlyingabacterialcellcycle AT aaronrdinner phaseresettingrevealsnetworkdynamicsunderlyingabacterialcellcycle AT norbertfscherer phaseresettingrevealsnetworkdynamicsunderlyingabacterialcellcycle
_version_	1718424753346183168

Phase resetting reveals network dynamics underlying a bacterial cell cycle.

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