Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase

ABSTRACT In the process of Escherichia coli K-12 growth from exponential phase to stationary, marked alteration takes place in the pattern of overall genome expression through modulation of both parts of the transcriptional and translational apparatus. In transcription, the sigma subunit with promot...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Hideji Yoshida, Tomohiro Shimada, Akira Ishihama
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2018
Materias:	Escherichia coli PS-TF screening anti-sigma factor Rsd ribosome modulation factor RMF stationary-phase adaptation Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/4310a7cf8e464c1892c3883efa7f237f
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:4310a7cf8e464c1892c3883efa7f237f
record_format	dspace
spelling	oai:doaj.org-article:4310a7cf8e464c1892c3883efa7f237f2021-12-02T19:45:30ZCoordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase10.1128/mSystems.00057-182379-5077https://doaj.org/article/4310a7cf8e464c1892c3883efa7f237f2018-10-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSystems.00057-18https://doaj.org/toc/2379-5077ABSTRACT In the process of Escherichia coli K-12 growth from exponential phase to stationary, marked alteration takes place in the pattern of overall genome expression through modulation of both parts of the transcriptional and translational apparatus. In transcription, the sigma subunit with promoter recognition properties is replaced from the growth-related factor RpoD by the stationary-phase-specific factor RpoS. The unused RpoD is stored by binding with the anti-sigma factor Rsd. In translation, the functional 70S ribosome is converted to inactive 100S dimers through binding with the ribosome modulation factor (RMF). Up to the present time, the regulatory mechanisms of expression of these two critical proteins, Rsd and RMF, have remained totally unsolved. In this study, attempts were made to identify the whole set of transcription factors involved in transcription regulation of the rsd and rmf genes using the newly developed promoter-specific transcription factor (PS-TF) screening system. In the first screening, 74 candidate TFs with binding activity to both of the rsd and rmf promoters were selected from a total of 194 purified TFs. After 6 cycles of screening, we selected 5 stress response TFs, ArcA, McbR, RcdA, SdiA, and SlyA, for detailed analysis in vitro and in vivo of their regulatory roles. Results indicated that both rsd and rmf promoters are repressed by ArcA and activated by McbR, RcdA, SdiA, and SlyA. We propose the involvement of a number of TFs in simultaneous and coordinated regulation of the transcriptional and translational apparatus. By using genomic SELEX (gSELEX) screening, each of the five TFs was found to regulate not only the rsd and rmf genes but also a variety of genes for growth and survival. IMPORTANCE During the growth transition of E. coli from exponential phase to stationary, the genome expression pattern is altered markedly. For this alteration, the transcription apparatus is altered by binding of anti-sigma factor Rsd to the RpoD sigma factor for sigma factor replacement, while the translation machinery is modulated by binding of RMF to 70S ribosome to form inactive ribosome dimer. Using the PS-TF screening system, a number of TFs were found to bind to both the rsd and rmf promoters, of which the regulatory roles of 5 representative TFs (one repressor ArcA and the four activators McbR, RcdA, SdiA, and SlyA) were analyzed in detail. The results altogether indicated the involvement of a common set of TFs, each sensing a specific environmental condition, in coordinated hibernation of the transcriptional and translational apparatus for adaptation and survival under stress conditions.Hideji YoshidaTomohiro ShimadaAkira IshihamaAmerican Society for MicrobiologyarticleEscherichia coliPS-TF screeninganti-sigma factor Rsdribosome modulation factor RMFstationary-phase adaptationMicrobiologyQR1-502ENmSystems, Vol 3, Iss 5 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Escherichia coli PS-TF screening anti-sigma factor Rsd ribosome modulation factor RMF stationary-phase adaptation Microbiology QR1-502
spellingShingle	Escherichia coli PS-TF screening anti-sigma factor Rsd ribosome modulation factor RMF stationary-phase adaptation Microbiology QR1-502 Hideji Yoshida Tomohiro Shimada Akira Ishihama Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase
description	ABSTRACT In the process of Escherichia coli K-12 growth from exponential phase to stationary, marked alteration takes place in the pattern of overall genome expression through modulation of both parts of the transcriptional and translational apparatus. In transcription, the sigma subunit with promoter recognition properties is replaced from the growth-related factor RpoD by the stationary-phase-specific factor RpoS. The unused RpoD is stored by binding with the anti-sigma factor Rsd. In translation, the functional 70S ribosome is converted to inactive 100S dimers through binding with the ribosome modulation factor (RMF). Up to the present time, the regulatory mechanisms of expression of these two critical proteins, Rsd and RMF, have remained totally unsolved. In this study, attempts were made to identify the whole set of transcription factors involved in transcription regulation of the rsd and rmf genes using the newly developed promoter-specific transcription factor (PS-TF) screening system. In the first screening, 74 candidate TFs with binding activity to both of the rsd and rmf promoters were selected from a total of 194 purified TFs. After 6 cycles of screening, we selected 5 stress response TFs, ArcA, McbR, RcdA, SdiA, and SlyA, for detailed analysis in vitro and in vivo of their regulatory roles. Results indicated that both rsd and rmf promoters are repressed by ArcA and activated by McbR, RcdA, SdiA, and SlyA. We propose the involvement of a number of TFs in simultaneous and coordinated regulation of the transcriptional and translational apparatus. By using genomic SELEX (gSELEX) screening, each of the five TFs was found to regulate not only the rsd and rmf genes but also a variety of genes for growth and survival. IMPORTANCE During the growth transition of E. coli from exponential phase to stationary, the genome expression pattern is altered markedly. For this alteration, the transcription apparatus is altered by binding of anti-sigma factor Rsd to the RpoD sigma factor for sigma factor replacement, while the translation machinery is modulated by binding of RMF to 70S ribosome to form inactive ribosome dimer. Using the PS-TF screening system, a number of TFs were found to bind to both the rsd and rmf promoters, of which the regulatory roles of 5 representative TFs (one repressor ArcA and the four activators McbR, RcdA, SdiA, and SlyA) were analyzed in detail. The results altogether indicated the involvement of a common set of TFs, each sensing a specific environmental condition, in coordinated hibernation of the transcriptional and translational apparatus for adaptation and survival under stress conditions.
format	article
author	Hideji Yoshida Tomohiro Shimada Akira Ishihama
author_facet	Hideji Yoshida Tomohiro Shimada Akira Ishihama
author_sort	Hideji Yoshida
title	Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase
title_short	Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase
title_full	Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase
title_fullStr	Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase
title_full_unstemmed	Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase
title_sort	coordinated hibernation of transcriptional and translational apparatus during growth transition of <named-content content-type="genus-species">escherichia coli</named-content> to stationary phase
publisher	American Society for Microbiology
publishDate	2018
url	https://doaj.org/article/4310a7cf8e464c1892c3883efa7f237f
work_keys_str_mv	AT hidejiyoshida coordinatedhibernationoftranscriptionalandtranslationalapparatusduringgrowthtransitionofnamedcontentcontenttypegenusspeciesescherichiacolinamedcontenttostationaryphase AT tomohiroshimada coordinatedhibernationoftranscriptionalandtranslationalapparatusduringgrowthtransitionofnamedcontentcontenttypegenusspeciesescherichiacolinamedcontenttostationaryphase AT akiraishihama coordinatedhibernationoftranscriptionalandtranslationalapparatusduringgrowthtransitionofnamedcontentcontenttypegenusspeciesescherichiacolinamedcontenttostationaryphase
_version_	1718376021197062144

Coordinated Hibernation of Transcriptional and Translational Apparatus during Growth Transition of <named-content content-type="genus-species">Escherichia coli</named-content> to Stationary Phase

Ejemplares similares