ArticleDevelopment (Cambridge, England)2012
Molecular mechanism underlying the regulatory specificity of a Drosophila homeodomain protein that specifies myoblast identity.
Article in Development (Cambridge, England), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Experimental approaches to investigate biophysical interactions between homeodomain transcription factors and DNA.Biochimica et biophysica acta. Gene regulatory mechanisms · 2025Review
- Gelsolin and dCryAB act downstream of muscle identity genes and contribute to preventing muscle splitting and branching in Drosophila.Scientific reports · 2021Article
- Review
- Article
- A feed-forward relay integrates the regulatory activities of Bicoid and Orthodenticle via sequential binding to suboptimal sites.Genes & development · 2018Article
- TRAP-rc, Translating Ribosome Affinity Purification from Rare Cell Populations of Drosophila Embryos.Journal of visualized experiments : JoVE · 2015Article
- Enhancer modeling uncovers transcriptional signatures of individual cardiac cell states in Drosophila.Nucleic acids research · 2015Article
- Article
- UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein-DNA interactions.Nucleic acids research · 2015Article
- Evolution of transcription factor function as a mechanism for changing metazoan developmental gene regulatory networks.EvoDevo · 2015Review
- Article
- Modular evolution of DNA-binding preference of a Tbrain transcription factor provides a mechanism for modifying gene regulatory networks.Molecular biology and evolution · 2014Article
- Whole-genome analysis of muscle founder cells implicates the chromatin regulator Sin3A in muscle identity.Cell reports · 2014Article
- Machine learning classification of cell-specific cardiac enhancers uncovers developmental subnetworks regulating progenitor cell division and cell fate specification.Development (Cambridge, England) · 2014Article
- Highly parallel assays of tissue-specific enhancers in whole Drosophila embryos.Nature methods · 2013Article
- Bayesian hierarchical model of protein-binding microarray k-mer data reduces noise and identifies transcription factor subclasses and preferred k-mers.Bioinformatics (Oxford, England) · 2013Article
- Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape.Cell reports · 2013Article
- Proteome-wide profiling of activated transcription factors with a concatenated tandem array of transcription factor response elements.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Article
- Integrative analysis of the zinc finger transcription factor Lame duck in the Drosophila myogenic gene regulatory network.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
Corrections and comments
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Authors and funding
9 authors.
Funding
Abstract
A subfamily of Drosophila homeodomain (HD) transcription factors (TFs) controls the identities of individual muscle founder cells (FCs). However, the molecular mechanisms by which these TFs generate unique FC genetic programs remain unknown. To investigate this problem, we first applied genome-wide mRNA expression profiling to identify genes that are activated or repressed by the muscle HD TFs Slouch (Slou) and Muscle segment homeobox (Msh). Next, we used protein-binding microarrays to define the sequences that are bound by Slou, Msh and other HD TFs that have mesodermal expression. These studies revealed that a large class of HDs, including Slou and Msh, predominantly recognize TAAT core sequences but that each HD also binds to unique sites that deviate from this canonical motif. To understand better the regulatory specificity of an individual FC identity HD, we evaluated the functions of atypical binding sites that are preferentially bound by Slou relative to other HDs within muscle enhancers that are either activated or repressed by this TF. These studies showed that Slou regulates the activities of particular myoblast enhancers through Slou-preferred sequences, whereas swapping these sequences for sites that are capable of binding to multiple HD family members does not support the normal regulatory functions of Slou. Moreover, atypical Slou-binding sites are overrepresented in putative enhancers associated with additional Slou-responsive FC genes. Collectively, these studies provide new insights into the roles of individual HD TFs in determining cellular identity, and suggest that the diversity of HD binding preferences can confer regulatory specificity.
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