Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation

Huanhuan Cui, Vikas Bansal, Marcel Grunert, Barbora Malecova, Alessandra Dall'Agnese, Lucia Latella, Sole Gatto, Tammy Ryan, Kerstin Schulz, Wei Chen, Cornelia Dorn, Pier Lorenzo Puri, Silke R. Sperling

Research output: Contribution to journalArticle

Abstract

Post-translational modifications of histones play a key role in the regulation of gene expression during development and differentiation. Numerous studies have shown the dynamics of combinatorial regulation by transcription factors and histone modifications, in the sense that different combinations lead to distinct expression outcomes. Here, we investigated gene regulation by stable enrichment patterns of histone marks H3K4me2 and H3K4me3 in combination with the chromatin binding of the muscle tissue-specific transcription factor MyoD during myogenic differentiation of C2C12 cells. Using k-means clustering, we found that specific combinations of H3K4me2/3 profiles over and towards the gene body impact on gene expression and marks a subset of genes important for muscle development and differentiation. By further analysis, we found that the muscle key regulator MyoD was significantly enriched on this subset of genes and played a repressive role during myogenic differentiation. Among these genes, we identified the pluripotency gene Patz1, which is repressed during myogenic differentiation through direct binding of MyoD to promoter elements. These results point to the importance of integrating histone modifications and MyoD chromatin binding for coordinated gene activation and repression during myogenic differentiation.

Original languageEnglish
Article number0179464
JournalPLoS One
Volume12
Issue number6
DOIs
Publication statusPublished - Jun 1 2017

Fingerprint

Muscle
Histone Code
Genes
histones
Muscles
Histones
muscles
Gene expression
genes
Chromatin
chromatin
Transcription Factors
transcription factors
gene activation
Muscle Development
muscle development
post-translational modification
gene expression regulation
Gene Expression Regulation
Post Translational Protein Processing

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation. / Cui, Huanhuan; Bansal, Vikas; Grunert, Marcel; Malecova, Barbora; Dall'Agnese, Alessandra; Latella, Lucia; Gatto, Sole; Ryan, Tammy; Schulz, Kerstin; Chen, Wei; Dorn, Cornelia; Puri, Pier Lorenzo; Sperling, Silke R.

In: PLoS One, Vol. 12, No. 6, 0179464, 01.06.2017.

Research output: Contribution to journalArticle

Cui, H, Bansal, V, Grunert, M, Malecova, B, Dall'Agnese, A, Latella, L, Gatto, S, Ryan, T, Schulz, K, Chen, W, Dorn, C, Puri, PL & Sperling, SR 2017, 'Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation', PLoS One, vol. 12, no. 6, 0179464. https://doi.org/10.1371/journal.pone.0179464
Cui, Huanhuan ; Bansal, Vikas ; Grunert, Marcel ; Malecova, Barbora ; Dall'Agnese, Alessandra ; Latella, Lucia ; Gatto, Sole ; Ryan, Tammy ; Schulz, Kerstin ; Chen, Wei ; Dorn, Cornelia ; Puri, Pier Lorenzo ; Sperling, Silke R. / Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation. In: PLoS One. 2017 ; Vol. 12, No. 6.
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