Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.

Bacterial chromosomes are organized into polycistronic cotranscribed operons, but the evolutionary pressures maintaining them are unclear. We hypothesized that operons alter gene expression noise characteristics, resulting in selection for or against maintaining operons depending on network architec...

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Autores principales:	J Christian J Ray, Oleg A Igoshin
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/2aea96f88df34d66a1a4cf130f055dca
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spelling	oai:doaj.org-article:2aea96f88df34d66a1a4cf130f055dca2021-11-18T05:51:01ZInterplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.1553-734X1553-735810.1371/journal.pcbi.1002672https://doaj.org/article/2aea96f88df34d66a1a4cf130f055dca2012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22956903/pdf/?tool=EBIhttps://doaj.org/toc/1553-734Xhttps://doaj.org/toc/1553-7358Bacterial chromosomes are organized into polycistronic cotranscribed operons, but the evolutionary pressures maintaining them are unclear. We hypothesized that operons alter gene expression noise characteristics, resulting in selection for or against maintaining operons depending on network architecture. Mathematical models for 6 functional classes of network modules showed that three classes exhibited decreased noise and 3 exhibited increased noise with same-operon cotranscription of interacting proteins. Noise reduction was often associated with a decreased chance of reaching an ultrasensitive threshold. Stochastic simulations of the lac operon demonstrated that the predicted effects of transcriptional coupling hold for a complex network module. We employed bioinformatic analysis to find overrepresentation of noise-minimizing operon organization compared with randomized controls. Among constitutively expressed physically interacting protein pairs, higher coupling frequencies appeared at lower expression levels, where noise effects are expected to be dominant. Our results thereby suggest an important role for gene expression noise, in many cases interacting with an ultrasensitive switch, in maintaining or selecting for operons in bacterial chromosomes.J Christian J RayOleg A IgoshinPublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Computational Biology, Vol 8, Iss 8, p e1002672 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 J Christian J Ray Oleg A Igoshin Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
description	Bacterial chromosomes are organized into polycistronic cotranscribed operons, but the evolutionary pressures maintaining them are unclear. We hypothesized that operons alter gene expression noise characteristics, resulting in selection for or against maintaining operons depending on network architecture. Mathematical models for 6 functional classes of network modules showed that three classes exhibited decreased noise and 3 exhibited increased noise with same-operon cotranscription of interacting proteins. Noise reduction was often associated with a decreased chance of reaching an ultrasensitive threshold. Stochastic simulations of the lac operon demonstrated that the predicted effects of transcriptional coupling hold for a complex network module. We employed bioinformatic analysis to find overrepresentation of noise-minimizing operon organization compared with randomized controls. Among constitutively expressed physically interacting protein pairs, higher coupling frequencies appeared at lower expression levels, where noise effects are expected to be dominant. Our results thereby suggest an important role for gene expression noise, in many cases interacting with an ultrasensitive switch, in maintaining or selecting for operons in bacterial chromosomes.
format	article
author	J Christian J Ray Oleg A Igoshin
author_facet	J Christian J Ray Oleg A Igoshin
author_sort	J Christian J Ray
title	Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
title_short	Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
title_full	Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
title_fullStr	Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
title_full_unstemmed	Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
title_sort	interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/2aea96f88df34d66a1a4cf130f055dca
work_keys_str_mv	AT jchristianjray interplayofgeneexpressionnoiseandultrasensitivedynamicsaffectsbacterialoperonorganization AT olegaigoshin interplayofgeneexpressionnoiseandultrasensitivedynamicsaffectsbacterialoperonorganization
_version_	1718424716265390080

Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.

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