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Wang S, Han Z, Libri D, Porrua O, Strick TR. Single-molecule characterization of extrinsic transcription termination by Sen1 helicase. Nat Commun 2019; 10:1545. [PMID: 30948716 PMCID: PMC6449345 DOI: 10.1038/s41467-019-09560-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2018] [Accepted: 03/11/2019] [Indexed: 01/08/2023] Open
Abstract
Extrinsic transcription termination typically involves remodeling of RNA polymerase by an accessory helicase. In yeast this is accomplished by the Sen1 helicase homologous to human senataxin (SETX). To gain insight into these processes we develop a DNA scaffold construct compatible with magnetic-trapping assays and from which S. cerevisiae RNA polymerase II (Pol II), as well as E. coli RNA polymerase (ecRNAP), can efficiently initiate transcription without transcription factors, elongate, and undergo extrinsic termination. By stalling Pol II TECs on the construct we can monitor Sen1-induced termination in real-time, revealing the formation of an intermediate in which the Pol II transcription bubble appears half-rewound. This intermediate requires ~40 sec to form and lasts ~20 sec prior to final dissociation of the stalled Pol II. The experiments enabled by the scaffold construct permit detailed statistical and kinetic analysis of Pol II interactions with a range of cofactors in a multi-round, high-throughput fashion. Yeast’s Sen1 helicase is involved in the suppression of antisense transcription from bidirectional eukaryotic promoters. Here authors develop and utilize a quantitative single-molecule assay reporting on the kinetics of extrinsic eukaryotic transcription termination by the Sen1 helicase and a reaction intermediate in which the Pol II transcription bubble appears half-rewound.
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Affiliation(s)
- S Wang
- Molecular Motors and Machines group, Ecole normale supérieure, Institut de Biologie de l'Ecole normale supérieure (IBENS), CNRS, INSERM, PSL Research University, 75005, Paris, France.,Biomolecular Nanomanipulation group, Institut Jacques Monod, CNRS, University Paris Diderot, Sorbonne Paris Cité, F-75205, Paris, France
| | - Z Han
- Metabolism and Function of RNA in the Nucleus, Institut Jacques Monod, CNRS, University Paris Diderot, Sorbonne Paris Cité, F-75205, Paris, France
| | - D Libri
- Metabolism and Function of RNA in the Nucleus, Institut Jacques Monod, CNRS, University Paris Diderot, Sorbonne Paris Cité, F-75205, Paris, France
| | - O Porrua
- Metabolism and Function of RNA in the Nucleus, Institut Jacques Monod, CNRS, University Paris Diderot, Sorbonne Paris Cité, F-75205, Paris, France
| | - T R Strick
- Molecular Motors and Machines group, Ecole normale supérieure, Institut de Biologie de l'Ecole normale supérieure (IBENS), CNRS, INSERM, PSL Research University, 75005, Paris, France. .,Biomolecular Nanomanipulation group, Institut Jacques Monod, CNRS, University Paris Diderot, Sorbonne Paris Cité, F-75205, Paris, France. .,Programme Equipe Labellisées, Ligue Contre le Cancer, 75013, Paris, France.
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