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Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax

A thermophilic and hydrogenogenic carboxydotroph, Carboxydothermus pertinax, performs hydrogenogenic CO metabolism in which CODH-II couples with distally encoded ECH. To enhance our knowledge of its hydrogenogenic CO metabolism, we performed whole transcriptome analysis of C. pertinax grown under 10...

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Autores principales: Fukuyama, Yuto, Omae, Kimiho, Yoshida, Takashi, Sako, Yoshihiko
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Japan 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6557876/
https://www.ncbi.nlm.nih.gov/pubmed/30941583
http://dx.doi.org/10.1007/s00792-019-01091-x
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author Fukuyama, Yuto
Omae, Kimiho
Yoshida, Takashi
Sako, Yoshihiko
author_facet Fukuyama, Yuto
Omae, Kimiho
Yoshida, Takashi
Sako, Yoshihiko
author_sort Fukuyama, Yuto
collection PubMed
description A thermophilic and hydrogenogenic carboxydotroph, Carboxydothermus pertinax, performs hydrogenogenic CO metabolism in which CODH-II couples with distally encoded ECH. To enhance our knowledge of its hydrogenogenic CO metabolism, we performed whole transcriptome analysis of C. pertinax grown under 100% CO or 100% N(2) using RNA sequencing. Of the 2577 genes, 36 and 64 genes were differentially expressed genes (DEGs) with false discovery rate adjusted P value < 0.05 when grown under 100% CO or 100% N(2), respectively. Most of the DEGs were components of 23 gene clusters, suggesting switch between metabolisms via intensive expression changes in a relatively low number of gene clusters. Of the 9 significantly expressed gene clusters under 100% CO, CODH-II and ECH gene clusters were found. Only the ECH gene cluster was regulated by the CO-responsive transcriptional factor CooA, suggesting that others were separately regulated in the same transcriptional cascade as the ECH gene cluster. Of the 14 significantly expressed gene clusters under 100% N(2), ferrous iron transport gene cluster involved in anaerobic respiration and prophage region were found. Considering that the expression of the temperate phage was strictly repressed under 100% CO, hydrogenogenic CO metabolism might be stable for C. pertinax. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1007/s00792-019-01091-x) contains supplementary material, which is available to authorized users.
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spelling pubmed-65578762019-06-26 Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax Fukuyama, Yuto Omae, Kimiho Yoshida, Takashi Sako, Yoshihiko Extremophiles Original Paper A thermophilic and hydrogenogenic carboxydotroph, Carboxydothermus pertinax, performs hydrogenogenic CO metabolism in which CODH-II couples with distally encoded ECH. To enhance our knowledge of its hydrogenogenic CO metabolism, we performed whole transcriptome analysis of C. pertinax grown under 100% CO or 100% N(2) using RNA sequencing. Of the 2577 genes, 36 and 64 genes were differentially expressed genes (DEGs) with false discovery rate adjusted P value < 0.05 when grown under 100% CO or 100% N(2), respectively. Most of the DEGs were components of 23 gene clusters, suggesting switch between metabolisms via intensive expression changes in a relatively low number of gene clusters. Of the 9 significantly expressed gene clusters under 100% CO, CODH-II and ECH gene clusters were found. Only the ECH gene cluster was regulated by the CO-responsive transcriptional factor CooA, suggesting that others were separately regulated in the same transcriptional cascade as the ECH gene cluster. Of the 14 significantly expressed gene clusters under 100% N(2), ferrous iron transport gene cluster involved in anaerobic respiration and prophage region were found. Considering that the expression of the temperate phage was strictly repressed under 100% CO, hydrogenogenic CO metabolism might be stable for C. pertinax. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1007/s00792-019-01091-x) contains supplementary material, which is available to authorized users. Springer Japan 2019-04-03 2019 /pmc/articles/PMC6557876/ /pubmed/30941583 http://dx.doi.org/10.1007/s00792-019-01091-x Text en © The Author(s) 2019 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.
spellingShingle Original Paper
Fukuyama, Yuto
Omae, Kimiho
Yoshida, Takashi
Sako, Yoshihiko
Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax
title Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax
title_full Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax
title_fullStr Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax
title_full_unstemmed Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax
title_short Transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph Carboxydothermus pertinax
title_sort transcriptome analysis of a thermophilic and hydrogenogenic carboxydotroph carboxydothermus pertinax
topic Original Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6557876/
https://www.ncbi.nlm.nih.gov/pubmed/30941583
http://dx.doi.org/10.1007/s00792-019-01091-x
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