ArticleDevelopmental biology2011
Molecular dissection of cis-regulatory modules at the Drosophila bithorax complex reveals critical transcription factor signature motifs.
Article in Developmental biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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22 citing papers in PubMed, 27 citations in OpenAlex.
- Developmental patterning of adipose tissue bybioRxiv : the preprint server for biology · 2026Article
- Study of the Role of Transvection in the Regulation of Initiators That Determine Activity of the Regulatory Domains of the Drosophila melanogaster Abd-B Gene.Doklady. Biochemistry and biophysics · 2026Article
- Initiators counteract Polycomb repression and stimulate long-range contacts between enhancers and theOpen biology · 2025Article
- Experimental approaches to investigate biophysical interactions between homeodomain transcription factors and DNA.Biochimica et biophysica acta. Gene regulatory mechanisms · 2025Review
- Two coacting shadow enhancers regulate twin of eyeless expression during early Drosophila development.Genetics · 2025Article
- Boundary bypass activity in theOpen biology · 2023Article
- Boundary Bypass Activity in thebioRxiv : the preprint server for biology · 2023Article
- Different transcriptional responses by the CRISPRa system in distinct types of heterochromatin in Drosophila melanogaster.Scientific reports · 2022Article
- Redundant enhancers in the iab-5 domain cooperatively activate Abd-B in the A5 and A6 abdominal segments of Drosophila.Development (Cambridge, England) · 2021Article
- Mapping of functional elements of the Fab-6 boundary involved in the regulation of the Abd-B hox gene in Drosophila melanogaster.Scientific reports · 2021Article
- Homeotic Genes: Clustering, Modularity, and Diversity.Frontiers in cell and developmental biology · 2021Review
- Rapid and efficient purification of Drosophila homeodomain transcription factors for biophysical characterization.Protein expression and purification · 2019Article
- Boundaries mediate long-distance interactions between enhancers and promoters in the Drosophila Bithorax complex.PLoS genetics · 2018Article
- Sex combs reduced (Scr) regulatory region of Drosophila revisited.Molecular genetics and genomics : MGG · 2017Article
- Article
- Spatial distribution of predicted transcription factor binding sites in Drosophila ChIP peaks.Mechanisms of development · 2016Article
- Nucleotide Interdependency in Transcription Factor Binding Sites in the Drosophila Genome.Gene regulation and systems biology · 2016Article
- The open for business model of the bithorax complex in Drosophila.Chromosoma · 2015Review
- Deciphering the combinatorial architecture of a Drosophila homeotic gene enhancer.Mechanisms of development · 2014Article
- Flanking sequence context-dependent transcription factor binding in early Drosophila development.BMC bioinformatics · 2013Article
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9 authors at 1 institution in 1 country.
Funding
Abstract
At the Drosophila melanogaster bithorax complex (BX-C) over 330kb of intergenic DNA is responsible for directing the transcription of just three homeotic (Hox) genes during embryonic development. A number of distinct enhancer cis-regulatory modules (CRMs) are responsible for controlling the specific expression patterns of the Hox genes in the BX-C. While it has proven possible to identify orthologs of known BX-C CRMs in different Drosophila species using overall sequence conservation, this approach has not proven sufficiently effective for identifying novel CRMs or defining the key functional sequences within enhancer CRMs. Here we demonstrate that the specific spatial clustering of transcription factor (TF) binding sites is important for BX-C enhancer activity. A bioinformatic search for combinations of putative TF binding sites in the BX-C suggests that simple clustering of binding sites is frequently not indicative of enhancer activity. However, through molecular dissection and evolutionary comparison across the Drosophila genus we discovered that specific TF binding site clustering patterns are an important feature of three known BX-C enhancers. Sub-regions of the defined IAB5 and IAB7b enhancers were both found to contain an evolutionarily conserved signature motif of clustered TF binding sites which is critical for the functional activity of the enhancers. Together, these results indicate that the spatial organization of specific activator and repressor binding sites within BX-C enhancers is of greater importance than overall sequence conservation and is indicative of enhancer functional activity.
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