Zelda overcomes the high intrinsic nucleosome barrier at enhancers during Drosophila zygotic genome activation

Yujia Sun, Chung Yi Nien, Kai Chen, Hsiao Yun Liu, Jeff Johnston, Julia Zeitlinger, Christine Rushlow

Research output: Contribution to journalArticle

Abstract

The Drosophila genome activator Vielfaltig (Vfl), also known as Zelda (Zld), is thought to prime enhancers for activation by patterning transcription factors (TFs). Such priming is accompanied by increased chromatin accessibility, but the mechanisms by which this occurs are poorly understood. Here, we analyze the effect of Zld on genome-wide nucleosome occupancy and binding of the patterning TF Dorsal (Dl). Our results show that early enhancers are characterized by an intrinsically high nucleosome barrier. Zld tackles this nucleosome barrier through local depletion of nucleosomes with the effect being dependent on the number and position of Zld motifs. Without Zld, Dl binding decreases at enhancers and redistributes to open regions devoid of enhancer activity. We propose that Zld primes enhancers by lowering the high nucleosome barrier just enough to assist TFs in accessing their binding motifs and promoting spatially controlled enhancer activation if the right patterning TFs are present. We envision that genome activators in general will utilize this mechanism to activate the zygotic genome in a robust and precise manner.

Original languageEnglish (US)
Pages (from-to)1703-1714
Number of pages12
JournalGenome Research
Volume25
Issue number11
DOIs
StatePublished - Nov 1 2015

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Nucleosomes
Drosophila
Genome
Transcription Factors
Chromatin

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

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Zelda overcomes the high intrinsic nucleosome barrier at enhancers during Drosophila zygotic genome activation. / Sun, Yujia; Nien, Chung Yi; Chen, Kai; Liu, Hsiao Yun; Johnston, Jeff; Zeitlinger, Julia; Rushlow, Christine.

In: Genome Research, Vol. 25, No. 11, 01.11.2015, p. 1703-1714.

Research output: Contribution to journalArticle

Sun, Yujia ; Nien, Chung Yi ; Chen, Kai ; Liu, Hsiao Yun ; Johnston, Jeff ; Zeitlinger, Julia ; Rushlow, Christine. / Zelda overcomes the high intrinsic nucleosome barrier at enhancers during Drosophila zygotic genome activation. In: Genome Research. 2015 ; Vol. 25, No. 11. pp. 1703-1714.
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AU - Johnston, Jeff

AU - Zeitlinger, Julia

AU - Rushlow, Christine

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