The role of Ctk1 kinase in termination of small non-coding RNAs.

Transcription termination in Saccharomyces cerevisiae can be performed by at least two distinct pathways and is influenced by the phosphorylation status of the carboxy-terminal domain (CTD) of RNA polymerase II (Pol II). Late termination of mRNAs is performed by the CPF/CF complex, the recruitment o...

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Autores principales:	Tineke L Lenstra, Agnieszka Tudek, Sandra Clauder, Zhenyu Xu, Spyridon T Pachis, Dik van Leenen, Patrick Kemmeren, Lars M Steinmetz, Domenico Libri, Frank C P Holstege
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/08c865409f0d45fc9efc0acb62f7dc75
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spelling	oai:doaj.org-article:08c865409f0d45fc9efc0acb62f7dc752021-11-18T08:43:38ZThe role of Ctk1 kinase in termination of small non-coding RNAs.1932-620310.1371/journal.pone.0080495https://doaj.org/article/08c865409f0d45fc9efc0acb62f7dc752013-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24324601/?tool=EBIhttps://doaj.org/toc/1932-6203Transcription termination in Saccharomyces cerevisiae can be performed by at least two distinct pathways and is influenced by the phosphorylation status of the carboxy-terminal domain (CTD) of RNA polymerase II (Pol II). Late termination of mRNAs is performed by the CPF/CF complex, the recruitment of which is dependent on CTD-Ser2 phosphorylation (Ser2P). Early termination of shorter cryptic unstable transcripts (CUTs) and small nucleolar/nuclear RNAs (sno/snRNAs) is performed by the Nrd1-Nab3-Sen1 (NNS) complex that binds phosphorylated CTD-Ser5 (Ser5P) via the CTD-interacting domain (CID) of Nrd1p. In this study, mutants of the different termination pathways were compared by genome-wide expression analysis. Surprisingly, the expression changes observed upon loss of the CTD-Ser2 kinase Ctk1p are more similar to those derived from alterations in the Ser5P-dependent NNS pathway, than from loss of CTD-Ser2P binding factors. Tiling array analysis of ctk1Δ cells reveals readthrough at snoRNAs, at many cryptic unstable transcripts (CUTs) and stable uncharacterized transcripts (SUTs), but only at some mRNAs. Despite the suggested predominant role in termination of mRNAs, we observed that a CTK1 deletion or a Pol II CTD mutant lacking all Ser2 positions does not result in a global mRNA termination defect. Rather, termination defects in these strains are widely observed at NNS-dependent genes. These results indicate that Ctk1p and Ser2 CTD phosphorylation have a wide impact in termination of small non-coding RNAs but only affect a subset of mRNA coding genes.Tineke L LenstraAgnieszka TudekSandra ClauderZhenyu XuSpyridon T PachisDik van LeenenPatrick KemmerenLars M SteinmetzDomenico LibriFrank C P HolstegePublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 8, Iss 12, p e80495 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Tineke L Lenstra Agnieszka Tudek Sandra Clauder Zhenyu Xu Spyridon T Pachis Dik van Leenen Patrick Kemmeren Lars M Steinmetz Domenico Libri Frank C P Holstege The role of Ctk1 kinase in termination of small non-coding RNAs.
description	Transcription termination in Saccharomyces cerevisiae can be performed by at least two distinct pathways and is influenced by the phosphorylation status of the carboxy-terminal domain (CTD) of RNA polymerase II (Pol II). Late termination of mRNAs is performed by the CPF/CF complex, the recruitment of which is dependent on CTD-Ser2 phosphorylation (Ser2P). Early termination of shorter cryptic unstable transcripts (CUTs) and small nucleolar/nuclear RNAs (sno/snRNAs) is performed by the Nrd1-Nab3-Sen1 (NNS) complex that binds phosphorylated CTD-Ser5 (Ser5P) via the CTD-interacting domain (CID) of Nrd1p. In this study, mutants of the different termination pathways were compared by genome-wide expression analysis. Surprisingly, the expression changes observed upon loss of the CTD-Ser2 kinase Ctk1p are more similar to those derived from alterations in the Ser5P-dependent NNS pathway, than from loss of CTD-Ser2P binding factors. Tiling array analysis of ctk1Δ cells reveals readthrough at snoRNAs, at many cryptic unstable transcripts (CUTs) and stable uncharacterized transcripts (SUTs), but only at some mRNAs. Despite the suggested predominant role in termination of mRNAs, we observed that a CTK1 deletion or a Pol II CTD mutant lacking all Ser2 positions does not result in a global mRNA termination defect. Rather, termination defects in these strains are widely observed at NNS-dependent genes. These results indicate that Ctk1p and Ser2 CTD phosphorylation have a wide impact in termination of small non-coding RNAs but only affect a subset of mRNA coding genes.
format	article
author	Tineke L Lenstra Agnieszka Tudek Sandra Clauder Zhenyu Xu Spyridon T Pachis Dik van Leenen Patrick Kemmeren Lars M Steinmetz Domenico Libri Frank C P Holstege
author_facet	Tineke L Lenstra Agnieszka Tudek Sandra Clauder Zhenyu Xu Spyridon T Pachis Dik van Leenen Patrick Kemmeren Lars M Steinmetz Domenico Libri Frank C P Holstege
author_sort	Tineke L Lenstra
title	The role of Ctk1 kinase in termination of small non-coding RNAs.
title_short	The role of Ctk1 kinase in termination of small non-coding RNAs.
title_full	The role of Ctk1 kinase in termination of small non-coding RNAs.
title_fullStr	The role of Ctk1 kinase in termination of small non-coding RNAs.
title_full_unstemmed	The role of Ctk1 kinase in termination of small non-coding RNAs.
title_sort	role of ctk1 kinase in termination of small non-coding rnas.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/08c865409f0d45fc9efc0acb62f7dc75
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The role of Ctk1 kinase in termination of small non-coding RNAs.

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