Dynamic regulation of transcription factors by nucleosome remodeling

Ming Li; Arjan Hada; Payel Sen; Lola Olufemi; Michael A. Hall; Benjamin Y. Smith; Scott Forth; Jeffrey N. McKnight; Ashok Patel; Gregory D. Bowman; Blaine Bartholomew; Michelle D. Wang

doi:10.7554/eLife.06249

Dynamic regulation of transcription factors by nucleosome remodeling

Ming Li, Arjan Hada, Payel Sen, Lola Olufemi, Michael A. Hall, Benjamin Y. Smith, Scott Forth, Jeffrey N. McKnight, Ashok Patel, Gregory D. Bowman, Blaine Bartholomew, Michelle D. Wang

Research output: Contribution to journal › Article › peer-review

69 Scopus citations

Abstract

The chromatin landscape and promoter architecture are dominated by the interplay of nucleosome and transcription factor (TF) binding to crucial DNA sequence elements. However, it remains unclear whether nucleosomes mobilized by chromatin remodelers can influence TFs that are already present on the DNA template. In this study, we investigated the interplay between nucleosome remodeling, by either yeast ISW1a or SWI/SNF, and a bound TF. We found that a TF serves as a major barrier to ISW1a remodeling, and acts as a boundary for nucleosome repositioning. In contrast, SWI/SNF was able to slide a nucleosome past a TF, with concurrent eviction of the TF from the DNA, and the TF did not significantly impact the nucleosome positioning. Our results provide direct evidence for a novel mechanism for both nucleosome positioning regulation by bound TFs and TF regulation via dynamic repositioning of nucleosomes.

Original language	English (US)
Article number	e06249
Pages (from-to)	1-16
Number of pages	16
Journal	eLife
Volume	4
Issue number	JUNE
DOIs	https://doi.org/10.7554/eLife.06249
State	Published - Jun 5 2015
Externally published	Yes

ASJC Scopus subject areas

General Neuroscience
General Biochemistry, Genetics and Molecular Biology
General Immunology and Microbiology

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10.7554/eLife.06249

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title = "Dynamic regulation of transcription factors by nucleosome remodeling",

abstract = "The chromatin landscape and promoter architecture are dominated by the interplay of nucleosome and transcription factor (TF) binding to crucial DNA sequence elements. However, it remains unclear whether nucleosomes mobilized by chromatin remodelers can influence TFs that are already present on the DNA template. In this study, we investigated the interplay between nucleosome remodeling, by either yeast ISW1a or SWI/SNF, and a bound TF. We found that a TF serves as a major barrier to ISW1a remodeling, and acts as a boundary for nucleosome repositioning. In contrast, SWI/SNF was able to slide a nucleosome past a TF, with concurrent eviction of the TF from the DNA, and the TF did not significantly impact the nucleosome positioning. Our results provide direct evidence for a novel mechanism for both nucleosome positioning regulation by bound TFs and TF regulation via dynamic repositioning of nucleosomes.",

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AU - Li, Ming

AU - Hada, Arjan

AU - Sen, Payel

AU - Olufemi, Lola

AU - Hall, Michael A.

AU - Smith, Benjamin Y.

AU - Forth, Scott

AU - McKnight, Jeffrey N.

AU - Patel, Ashok

AU - Bowman, Gregory D.

AU - Bartholomew, Blaine

AU - Wang, Michelle D.

PY - 2015/6/5

Y1 - 2015/6/5

N2 - The chromatin landscape and promoter architecture are dominated by the interplay of nucleosome and transcription factor (TF) binding to crucial DNA sequence elements. However, it remains unclear whether nucleosomes mobilized by chromatin remodelers can influence TFs that are already present on the DNA template. In this study, we investigated the interplay between nucleosome remodeling, by either yeast ISW1a or SWI/SNF, and a bound TF. We found that a TF serves as a major barrier to ISW1a remodeling, and acts as a boundary for nucleosome repositioning. In contrast, SWI/SNF was able to slide a nucleosome past a TF, with concurrent eviction of the TF from the DNA, and the TF did not significantly impact the nucleosome positioning. Our results provide direct evidence for a novel mechanism for both nucleosome positioning regulation by bound TFs and TF regulation via dynamic repositioning of nucleosomes.

AB - The chromatin landscape and promoter architecture are dominated by the interplay of nucleosome and transcription factor (TF) binding to crucial DNA sequence elements. However, it remains unclear whether nucleosomes mobilized by chromatin remodelers can influence TFs that are already present on the DNA template. In this study, we investigated the interplay between nucleosome remodeling, by either yeast ISW1a or SWI/SNF, and a bound TF. We found that a TF serves as a major barrier to ISW1a remodeling, and acts as a boundary for nucleosome repositioning. In contrast, SWI/SNF was able to slide a nucleosome past a TF, with concurrent eviction of the TF from the DNA, and the TF did not significantly impact the nucleosome positioning. Our results provide direct evidence for a novel mechanism for both nucleosome positioning regulation by bound TFs and TF regulation via dynamic repositioning of nucleosomes.

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Dynamic regulation of transcription factors by nucleosome remodeling

Abstract

ASJC Scopus subject areas

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