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Cited by 150Genomics and Chromatin DynamicsGene Regulatory Network AnalysisDevelopmental Biology and Gene Regulation

Temporal control of gene expression by the pioneer factor Zelda through transient interactions in hubs

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Dufourt, Jeremy, Trullo, Antonio, Hunter, Jennifer, Fernandez, Carola, Lazaro, Jorge, Dejean, Matthieu, Morales, Lucas, Nait-Amer, Saida +5 more·2018·Nature Communications
DOI 10.1038/s41467-018-07613-zPMC PMC6281682

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Abstract

Pioneer transcription factors can engage nucleosomal DNA, which leads to local chromatin remodeling and to the establishment of transcriptional competence. However, the impact of enhancer priming by pioneer factors on the temporal control of gene expression and on mitotic memory remains unclear. Here we employ quantitative live imaging methods and mathematical modeling to test the effect of the pioneer factor Zelda on transcriptional dynamics and memory in Drosophila embryos. We demonstrate that increasing the number of Zelda binding sites accelerates the kinetics of nuclei transcriptional activation regardless of their transcriptional past. Despite its known pioneering activities, we show that Zelda does not remain detectably associated with mitotic chromosomes and is neither necessary nor sufficient to foster memory. We further reveal that Zelda forms sub-nuclear dynamic hubs where Zelda binding events are transient. We propose that Zelda facilitates transcriptional activation by accumulating in microenvironments where it could accelerate the duration of multiple pre-initiation steps.

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  • Zelda promotes the formation of local transcription factor hubs involving transcription factors required for developmental patterning, such as Bicoid and Dorsal.

    “For instance, Zelda promotes the formation of local TF hubs involving important transcription factors required for developmental patterning, such as Bicoid and Dorsal [51–54].”

    From Transcriptional enhancers and their communication with gene promoters (2021) · cites this paper as [53]

    The Results and Discussion section (‘Zelda accumulates into subnuclear hubs’; page unavailable) reports local, dynamic Zelda hubs and suggests they could promote cooperation with Bicoid. The Introduction and ‘Zelda fosters temporal transcriptional coordination’ section say Zelda potentiates Bicoid and Dorsal activity, but the paper does not establish that either factor participates in the observed Zelda hubs or that Zelda promotes formation of hubs containing them. (LLM, conf=0.87)

    Experimental — accuracy not yet measured

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Authors
Dufourt, J., Trullo, A., Hunter, J., Fernandez, C., Lazaro, J., Dejean, M., Morales, L., Nait-Amer, S., Schulz, K. N., Harrison, M. M., Favard, C., Radulescu, O., & Lagha, M.
Affiliations
  • Centre National de la Recherche Scientifique (FR)
  • University of Wisconsin–Madison (US)
Corresponding author
Lagha, Mounia
ORCID
Venue
Nature Communications
Publisher
Springer Science and Business Media LLC
Published
2018-12-05
Volume
9
Issue
1
Pages
5194-5194
ISSN
2041-1723 (ISSN-L)
DOI
10.1038/s41467-018-07613-z
PMC
PMC6281682
OpenAlex
W2902773595
Cited by
150
References
1
Citations by year
2026: 9 · 2025: 16 · 2024: 19 · 2023: 18 · 2022: 18 · 2021: 28 · 2020: 24 · 2019: 14 · 2018: 4
FWCI
6.22
Type
journal article
Language
en
Update notices
correction (2019-01-15)
Open access
Licence
Locations
  • Nature Communications (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
  • Europe PMC (PubMed Central) (publishedVersion, other-oa)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • HAL Portal Artxiker (Hindustan Aeronautics Limited (India)) (submittedVersion)
  • HAL (submittedVersion, other-oa)
  • HAL (submittedVersion)
  • RePEc: Research Papers in Economics (submittedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
Funders
  • Agence Nationale de la Recherche (10-INBS-04, ANR‐10_INBS‐04, ANR-10, ANR-10-INBS-0004)
  • National Institutes of Health (ANR-10-INBS-04)
  • National Institute of General Medical Sciences (R01GM111694)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
Keywords
Zelda, pioneer transcription factors, temporal control of gene expression, chromatin remodeling, Drosophila embryo, transcriptional dynamics
MeSH terms
Animals, Cell Nucleus, Drosophila, Kinetics, Mitosis, Nuclear Proteins, Transcription Factors, Transcription, Genetic, Transcriptional Activation, Gene Expression Regulation, Developmental, Drosophila Proteins

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