Kinetics of promoter Pol II on Hsp70 reveal stable pausing and key insights into its regulation

The kinetics with which promoter-proximal paused Pol II undergoes premature termination versus productive elongation is key to understanding mechanisms of metazoan transcription regulation. To assess the fate of paused Pol II, Lis and colleagues measured the stability of paused Pol II at the Drosophila Hsp70 locus through a combination of optical studies and biochemical analysis. Heat shock drastically increases elongating Pol II without decreasing termination, indicating that regulation acts at the step of paused Pol II entry to productive elongation.

• Publication year

  2014

• Venue

  Genes & Development

• Publication date

  2014-01-01

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1101/gad.231886.113PMID 24395245PMCID 3894409
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Precise Maps of RNA Polymerase Reveal How Promoters Direct Initiation and Pausing

  2013cited by this paper
• Stable pausing by RNA polymerase II provides an opportunity to target and integrate regulatory signals.

  2013cited by this paper
• Defining the status of RNA polymerase at promoters.

  2012cited by this paper
• mRNA decapping factors and the exonuclease Xrn2 function in widespread premature termination of RNA polymerase II transcription.

  2012cited by this paper
• XPB, a subunit of TFIIH, is a target of the natural product triptolide.

  2011cited by this paper
• c-Myc regulates transcriptional pause release.

  2010influential reference
• Recruitment timing and dynamics of transcription factors at the Hsp70 loci in living cells.

  2010cited by this paper
• Defining mechanisms that regulate RNA polymerase II transcription in vivo

  2009cited by this paper
• Imaging transcription in living cells.

  2009cited by this paper
• Stability, Flexibility, and Dynamic Interactions of Colliding RNA Polymerase II Elongation Complexes

  2009cited by this paper
• Tracking rates of transcription and splicing in vivo

  2009cited by this paper
• Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters

  2008cited by this paper
• Damage-induced ubiquitylation of human RNA polymerase II by the ubiquitin ligase Nedd4, but not Cockayne syndrome proteins or BRCA1.

  2007cited by this paper
• RNA polymerase is poised for activation across the genome

  2007cited by this paper
• Imaging Drosophila gene activation and polymerase pausing in vivo

  2007cited by this paper
• RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo

  2007cited by this paper
• P-TEFb Is Critical for the Maturation of RNA Polymerase II into Productive Elongation In Vivo

  2007cited by this paper
• Intranuclear distribution and local dynamics of RNA polymerase II during transcription activation.

  2007cited by this paper
• Multiple mechanisms confining RNA polymerase II ubiquitylation to polymerases undergoing transcriptional arrest.

  2005cited by this paper
• NELF and DSIF cause promoter proximal pausing on the hsp70 promoter in Drosophila.

  2003cited by this paper
• A Photoactivatable GFP for Selective Photolabeling of Proteins and Cells

  2002cited by this paper
• Transcription attenuation.

  2002cited by this paper
• Flavopiridol Inactivates P-TEFb and Blocks Most RNA Polymerase II Transcription in Vivo *

  2001cited by this paper
• P-TEFb kinase recruitment and function at heat shock loci.

  2000cited by this paper
• Promoter-associated pausing in promoter architecture and postinitiation transcriptional regulation.

  1998cited by this paper
• Physical isolation of nascent RNA chains transcribed by RNA polymerase II: evidence for cotranscriptional splicing

  1994cited by this paper
• In vivo transcriptional pausing and cap formation on three Drosophila heat shock genes.

  1993cited by this paper
• Phosphorylation of RNA polymerase IIA occurs subsequent to interaction with the promoter and before the initiation of transcription.

  1990cited by this paper
• The RNA polymerase II molecule at the 5' end of the uninduced hsp70 gene of D. melanogaster is transcriptionally engaged.

  1988cited by this paper
• Transcription attenuation.

  1988cited by this paper
• Anti-termination of transcription within the long terminal repeat of HIV-1 by tat gene product

  1987cited by this paper
• A block to elongation is largely responsible for decreased transcription of c-myc in differentiated HL60 cells

  1986cited by this paper
• Short Hospital Stays for Mental Health Care Systematic Review of the Effectiveness of Planned Rapid Responses

  year unknowncited by this paper

• Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation

  2026cites this paper
• Genome-wide dynamic nascent transcript profiles reveal that most paused RNA polymerases terminate.

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  2025cites this paper
• Regulation of RNA polymerase II transcription through re-initiation and bursting.

  2025cites this paper
• Genome-wide dynamic nascent transcript profiles reveal that most paused RNA polymerases terminate

  2025influential citation
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  2025cites this paper
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  2024cites this paper
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  2024cites this paper
• Live-cell imaging of RNA Pol II and elongation factors distinguishes competing mechanisms of transcription regulation.

  2024cites this paper
• Rapid unleashing of macrophage efferocytic capacity via transcriptional pause release

  2024cites this paper
• Regulation of Pol II Pausing during Daily Gene Transcription in Mouse Liver

  2023cites this paper
• The NELF pausing checkpoint mediates the functional divergence of Cdk9

  2023cites this paper
• Predicting variability in nascent RNA from transcription initiation kinetics

  2022cites this paper
• Steady-state distributions of nascent RNA for general initiation mechanisms

  2022cites this paper
• Coordinated regulation of RNA polymerase II pausing and elongation progression by PAF1

  2022cites this paper
• A detailed model of gene promoter dynamics reveals the entry into productive elongation to be a highly punctual process

  2022influential citation
• Regulation of promoter proximal pausing of RNA polymerase II in metazoans.

  2021cites this paper
• Imaging Organization of RNA Processing within the Nucleus.

  2021cites this paper
• RNA polymerase II pausing in development: orchestrating transcription

  2021cites this paper
• HSF1 in RNA Polymerase II Promoter-Proximal Pausing and HSP70 Transcription

  2021cites this paper
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  2021cites this paper
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  2021cites this paper
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  2020cites this paper
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  2020cites this paper
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  2020cites this paper
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  2019cites this paper
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  2019cites this paper
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  2019cites this paper
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  2019cites this paper
• Promoter-proximal pausing of RNA polymerase II: a nexus of gene regulation

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  2019cites this paper
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  2019cites this paper
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  2019cites this paper
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  2019cites this paper
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  2018cites this paper
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  2018cites this paper
• Gene regulation of mammalian long non-coding RNA

  2018cites this paper
• Other Books and Studies

  2018cites this paper
• Transient pausing by RNA polymerase II

  2018cites this paper
• Single-molecule nascent RNA sequencing reveals regulatory domain architecture at promoters and enhancers

  2018cites this paper
• Dynamic turnover of paused Pol II complexes at human promoters

  2018cites this paper
• Paused RNA polymerase II inhibits new transcriptional initiation

  2017cites this paper
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  2017cites this paper
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  2017cites this paper
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  2017cites this paper
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  2016cites this paper
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  2016cites this paper
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  2016cites this paper
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  2016cites this paper
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  2015cites this paper
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  2015cites this paper
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  2015cites this paper
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