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Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2

Recent studies identified a 5´ to 3´ exoribonuclease termed Sso-RNase J in the crenarchaeon Sulfolobus solfataricus (Sso), which has been reclassified to the aCPSF2 (archaeal cleavage and polyadenylation specificity factor 2) group of β-CASP proteins. In this study, the Sso-aCPSF2 orthologue of Sulf...

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Autores principales: Märtens, Birgit, Amman, Fabian, Manoharadas, Salim, Zeichen, Lukas, Orell, Alvaro, Albers, Sonja-Verena, Hofacker, Ivo, Bläsi, Udo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3792030/
https://www.ncbi.nlm.nih.gov/pubmed/24116119
http://dx.doi.org/10.1371/journal.pone.0076569
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author Märtens, Birgit
Amman, Fabian
Manoharadas, Salim
Zeichen, Lukas
Orell, Alvaro
Albers, Sonja-Verena
Hofacker, Ivo
Bläsi, Udo
author_facet Märtens, Birgit
Amman, Fabian
Manoharadas, Salim
Zeichen, Lukas
Orell, Alvaro
Albers, Sonja-Verena
Hofacker, Ivo
Bläsi, Udo
author_sort Märtens, Birgit
collection PubMed
description Recent studies identified a 5´ to 3´ exoribonuclease termed Sso-RNase J in the crenarchaeon Sulfolobus solfataricus (Sso), which has been reclassified to the aCPSF2 (archaeal cleavage and polyadenylation specificity factor 2) group of β-CASP proteins. In this study, the Sso-aCPSF2 orthologue of Sulfolobus acidocaldarius (Saci-aCPSF2) was functionally characterized. Like Sso-aCPSF2, Saci-aCPSF2 degrades RNA with 5´ to 3´ directionality in vitro. To address the biological significance of Saci-aCPSF2, a deletion mutant was constructed, and the influence of Saci-aCPSF2 on the transcriptome profile was assessed employing high throughput RNA sequencing. This analysis revealed 560 genes with differential transcript abundance, suggesting a considerable role of this enzyme in RNA metabolism. In addition, bioinformatic analyses revealed several transcripts that are preferentially degraded at the 5´ end. This was exemplarily verified for two transcripts by Northern-blot analyses, showing for the first time that aCPSF2 proteins play a role in 5' to 3' directional mRNA decay in the crenarchaeal clade of Archaea.
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spelling pubmed-37920302013-10-10 Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2 Märtens, Birgit Amman, Fabian Manoharadas, Salim Zeichen, Lukas Orell, Alvaro Albers, Sonja-Verena Hofacker, Ivo Bläsi, Udo PLoS One Research Article Recent studies identified a 5´ to 3´ exoribonuclease termed Sso-RNase J in the crenarchaeon Sulfolobus solfataricus (Sso), which has been reclassified to the aCPSF2 (archaeal cleavage and polyadenylation specificity factor 2) group of β-CASP proteins. In this study, the Sso-aCPSF2 orthologue of Sulfolobus acidocaldarius (Saci-aCPSF2) was functionally characterized. Like Sso-aCPSF2, Saci-aCPSF2 degrades RNA with 5´ to 3´ directionality in vitro. To address the biological significance of Saci-aCPSF2, a deletion mutant was constructed, and the influence of Saci-aCPSF2 on the transcriptome profile was assessed employing high throughput RNA sequencing. This analysis revealed 560 genes with differential transcript abundance, suggesting a considerable role of this enzyme in RNA metabolism. In addition, bioinformatic analyses revealed several transcripts that are preferentially degraded at the 5´ end. This was exemplarily verified for two transcripts by Northern-blot analyses, showing for the first time that aCPSF2 proteins play a role in 5' to 3' directional mRNA decay in the crenarchaeal clade of Archaea. Public Library of Science 2013-10-07 /pmc/articles/PMC3792030/ /pubmed/24116119 http://dx.doi.org/10.1371/journal.pone.0076569 Text en © 2013 Märtens et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Märtens, Birgit
Amman, Fabian
Manoharadas, Salim
Zeichen, Lukas
Orell, Alvaro
Albers, Sonja-Verena
Hofacker, Ivo
Bläsi, Udo
Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2
title Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2
title_full Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2
title_fullStr Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2
title_full_unstemmed Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2
title_short Alterations of the Transcriptome of Sulfolobus acidocaldarius by Exoribonuclease aCPSF2
title_sort alterations of the transcriptome of sulfolobus acidocaldarius by exoribonuclease acpsf2
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3792030/
https://www.ncbi.nlm.nih.gov/pubmed/24116119
http://dx.doi.org/10.1371/journal.pone.0076569
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