Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia

Abstract Bacteria can adjust their genetic programs via alternative σ factors to face new environmental pressures. Here, we analyzed a unique set of paralogous alternative σ factors, termed σIs, which fine-tune the regulation of one of the most intricate cellulolytic systems in nature, the bacterial...

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Autores principales:	Lizett Ortiz de Ora, Raphael Lamed, Ya-Jun Liu, Jian Xu, Qiu Cui, Yingang Feng, Yuval Shoham, Edward A. Bayer, Iván Muñoz-Gutiérrez
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/70e525dc9c80479facb83eb784752270
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spelling	oai:doaj.org-article:70e525dc9c80479facb83eb7847522702021-12-02T15:08:41ZRegulation of biomass degradation by alternative σ factors in cellulolytic clostridia10.1038/s41598-018-29245-52045-2322https://doaj.org/article/70e525dc9c80479facb83eb7847522702018-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-29245-5https://doaj.org/toc/2045-2322Abstract Bacteria can adjust their genetic programs via alternative σ factors to face new environmental pressures. Here, we analyzed a unique set of paralogous alternative σ factors, termed σIs, which fine-tune the regulation of one of the most intricate cellulolytic systems in nature, the bacterial cellulosome, that is involved in degradation of environmental polysaccharides. We combined bioinformatics with experiments to decipher the regulatory networks of five σIs in Clostridium thermocellum, the epitome of cellulolytic microorganisms, and one σI in Pseudobacteroides cellulosolvens which produces the cellulosomal system with the greatest known complexity. Despite high homology between different σIs, our data suggest limited cross-talk among them. Remarkably, the major cross-talk occurs within the main cellulosomal genes which harbor the same σI-dependent promoter elements, suggesting a promoter-based mechanism to guarantee the expression of relevant genes. Our findings provide insights into the mechanisms used by σIs to differentiate among their corresponding regulons, representing a comprehensive overview of the regulation of the cellulosome to date. Finally, we show the advantage of using a heterologous host system for analysis of multiple σIs, since information generated by their analysis in their natural host can be misinterpreted owing to a cascade of interactions among the different σIs.Lizett Ortiz de OraRaphael LamedYa-Jun LiuJian XuQiu CuiYingang FengYuval ShohamEdward A. BayerIván Muñoz-GutiérrezNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-11 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Lizett Ortiz de Ora Raphael Lamed Ya-Jun Liu Jian Xu Qiu Cui Yingang Feng Yuval Shoham Edward A. Bayer Iván Muñoz-Gutiérrez Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia
description	Abstract Bacteria can adjust their genetic programs via alternative σ factors to face new environmental pressures. Here, we analyzed a unique set of paralogous alternative σ factors, termed σIs, which fine-tune the regulation of one of the most intricate cellulolytic systems in nature, the bacterial cellulosome, that is involved in degradation of environmental polysaccharides. We combined bioinformatics with experiments to decipher the regulatory networks of five σIs in Clostridium thermocellum, the epitome of cellulolytic microorganisms, and one σI in Pseudobacteroides cellulosolvens which produces the cellulosomal system with the greatest known complexity. Despite high homology between different σIs, our data suggest limited cross-talk among them. Remarkably, the major cross-talk occurs within the main cellulosomal genes which harbor the same σI-dependent promoter elements, suggesting a promoter-based mechanism to guarantee the expression of relevant genes. Our findings provide insights into the mechanisms used by σIs to differentiate among their corresponding regulons, representing a comprehensive overview of the regulation of the cellulosome to date. Finally, we show the advantage of using a heterologous host system for analysis of multiple σIs, since information generated by their analysis in their natural host can be misinterpreted owing to a cascade of interactions among the different σIs.
format	article
author	Lizett Ortiz de Ora Raphael Lamed Ya-Jun Liu Jian Xu Qiu Cui Yingang Feng Yuval Shoham Edward A. Bayer Iván Muñoz-Gutiérrez
author_facet	Lizett Ortiz de Ora Raphael Lamed Ya-Jun Liu Jian Xu Qiu Cui Yingang Feng Yuval Shoham Edward A. Bayer Iván Muñoz-Gutiérrez
author_sort	Lizett Ortiz de Ora
title	Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia
title_short	Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia
title_full	Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia
title_fullStr	Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia
title_full_unstemmed	Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia
title_sort	regulation of biomass degradation by alternative σ factors in cellulolytic clostridia
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/70e525dc9c80479facb83eb784752270
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Regulation of biomass degradation by alternative σ factors in cellulolytic clostridia

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