Distinct transcription kinetics of pluripotent cell states
Abstract: Mouse embryonic stem cells (mESCs) can adopt naïve, ground, and paused pluripotent states that give rise to unique transcriptomes. Here, we use transient transcriptome sequencing (TT‐seq) to define both coding and non‐coding transcription units (TUs) in these three pluripotent states and combine TT‐seq with RNA polymerase II occupancy profiling to unravel the kinetics of RNA metabolism genome‐wide. Compared to the naïve state (serum), RNA synthesis and turnover rates are globally reduced in the ground state (2i) and the paused state (mTORi). The global reduction in RNA synthesis goes along with a genome‐wide decrease of polymerase elongation velocity, which is related to epigenomic features and alterations in the Pol II termination window. Our data suggest that transcription activity is the main determinant of steady state mRNA levels in the naïve state and that genome‐wide changes in transcription kinetics invoke ground and paused pluripotent states.
- Location
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Deutsche Nationalbibliothek Frankfurt am Main
- Extent
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Online-Ressource
- Language
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Englisch
- Bibliographic citation
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Distinct transcription kinetics of pluripotent cell states ; volume:18 ; number:1 ; year:2022 ; extent:33
Molecular systems biology ; 18, Heft 1 (2022) (gesamt 33)
- Creator
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Shao, Rui
Kumar, Banushree
Lidschreiber, Katja
Lidschreiber, Michael
Cramer, Patrick
Elsässer, Simon J.
- DOI
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10.15252/msb.202110407
- URN
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urn:nbn:de:101:1-2022011314161528431079
- Rights
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Open Access; Der Zugriff auf das Objekt ist unbeschränkt möglich.
- Last update
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15.08.2025, 7:33 AM CEST
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Associated
- Shao, Rui
- Kumar, Banushree
- Lidschreiber, Katja
- Lidschreiber, Michael
- Cramer, Patrick
- Elsässer, Simon J.
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Mediator structure and function in transcription initiation
Structural basis of human mitochondrial transcription initiation and processive elongation
Genomic data integration with hidden Markov models to understand transcription regulation
Architecture of the RNA polymerase II-Paf1C-TFIIS transcription elongation complex
RNA polymerase I complex structures elucidate mechanisms of transcription initiation and elongation
Genome-wide occupancy profiling of the RNA polymerase II transcription machinery in S. cerevisiae
Structure of the closed Pol II transcription initiation complex and implications for promoter opening
Integrative structural and functional studies of Mediator and RNA polymerase II transcription initiation assemblies
Conserved architecture of the core RNA polymerase II transcription initiation complex and an integrative model of Ctk3
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Multi-omics analysis of transcription kinetics in human cells
RNA polymerase I structure and transcription regulation
Mediator structure and function in transcription initiation
Structural basis of human mitochondrial transcription initiation and processive elongation
Genomic data integration with hidden Markov models to understand transcription regulation
Architecture of the RNA polymerase II-Paf1C-TFIIS transcription elongation complex
RNA polymerase I complex structures elucidate mechanisms of transcription initiation and elongation
Genome-wide occupancy profiling of the RNA polymerase II transcription machinery in S. cerevisiae
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