ArticleProceedings of the National Academy of Sciences of the United States of America2005
Quantitative analysis of binding motifs mediating diverse spatial readouts of the Dorsal gradient in the Drosophila embryo.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
47 citing papers in PubMed.
- Bulk-level maps of pioneer factor binding dynamics during the Drosophila maternal-to-zygotic transition.Development (Cambridge, England) · 2025Article
- Target gene responses differ when transcription factor levels are acutely decreased by nuclear export versus degradation.bioRxiv : the preprint server for biology · 2024Article
- Dynamic patterning by morphogens illuminated by cis-regulatory studies.Development (Cambridge, England) · 2021Review
- Experimental and engineering approaches to intracellular communication.Essays in biochemistry · 2018Review
- A novel function for the IκB inhibitor Cactus in promoting Dorsal nuclear localization and activity in theDevelopment (Cambridge, England) · 2017Article
- Quality of TCR signaling determined by differential affinities of enhancers for the composite BATF-IRF4 transcription factor complex.Nature immunology · 2017Article
- An Enhancer's Length and Composition Are Shaped by Its Regulatory Task.Frontiers in genetics · 2017Article
- Cells change their sensitivity to an EGF morphogen gradient to control EGF-induced gene expression.Nature communications · 2015Article
- Spatial and temporal organization of signaling pathways.Trends in biochemical sciences · 2014Review
- Transcriptional regulation of graded Hedgehog signaling.Seminars in cell & developmental biology · 2014Review
- Core promoter functions in the regulation of gene expression of Drosophila dorsal target genes.The Journal of biological chemistry · 2014Article
- Article
- Cis-regulatory timers for developmental gene expression.PLoS biology · 2013Article
- Gene regulatory networks governing pancreas development.Developmental cell · 2013Review
- Neural-specific Sox2 input and differential Gli-binding affinity provide context and positional information in Shh-directed neural patterning.Genes & development · 2012Article
- Pattern formation by graded and uniform signals in the early Drosophila embryo.Biophysical journal · 2012Article
- Contribution of transcription factor binding site motif variants to condition-specific gene expression patterns in budding yeast.PloS one · 2012Article
- Comparison of embryonic expression within multigene families using the FlyExpress discovery platform reveals more spatial than temporal divergence.Developmental dynamics : an official publication of the American Association of Anatomists · 2012Article
- Role of sequence encoded κB DNA geometry in gene regulation by Dorsal.Nucleic acids research · 2011Article
- Rapid evolutionary rewiring of a structurally constrained eye enhancer.Current biology : CB · 2011Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
Dorsal is a sequence-specific transcription factor that is distributed in a broad nuclear gradient across the dorsal-ventral (DV) axis of the early Drosophila embryo. It initiates gastrulation by regulating at least 30-50 target genes in a concentration-dependent fashion. Previous studies identified 18 enhancers that are directly regulated by different concentrations of Dorsal. Here, we employ computational methods to determine the basis for these distinct transcriptional outputs. Orthologous enhancers were identified in a variety of divergent Drosophila species, and their comparison revealed several conserved sequence features responsible for DV patterning. In particular, the quality of Dorsal and Twist recognition sequences correlates with the DV coordinates of gene expression relative to the Dorsal gradient. These findings are entirely consistent with a gradient threshold model for DV patterning, whereby the quality of individual Dorsal binding sites determines in vivo occupancy of target enhancers by the Dorsal gradient. Linked Dorsal and Twist binding sites constitute a conserved composite element in certain "type 2" Dorsal target enhancers, which direct gene expression in ventral regions of the neurogenic ectoderm in response to intermediate levels of the Dorsal gradient. Similar motif arrangements were identified in orthologous loci in the distant mosquito genome, Anopheles gambiae. We discuss how Dorsal and Twist work either additively or synergistically to activate different target enhancers.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.