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

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...

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Autores principales: 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.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5469484/
https://www.ncbi.nlm.nih.gov/pubmed/28609469
http://dx.doi.org/10.1371/journal.pone.0179464
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author 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.
author_facet 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.
author_sort Cui, Huanhuan
collection PubMed
description 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.
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spelling pubmed-54694842017-07-03 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. PLoS One Research Article 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. Public Library of Science 2017-06-13 /pmc/articles/PMC5469484/ /pubmed/28609469 http://dx.doi.org/10.1371/journal.pone.0179464 Text en © 2017 Cui et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
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
title Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation
title_full Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation
title_fullStr Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation
title_full_unstemmed Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation
title_short Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation
title_sort muscle-relevant genes marked by stable h3k4me2/3 profiles and enriched myod binding during myogenic differentiation
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5469484/
https://www.ncbi.nlm.nih.gov/pubmed/28609469
http://dx.doi.org/10.1371/journal.pone.0179464
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