ArticleDevelopmental biology2008
A spatially dynamic cohort of regulatory genes in the endomesodermal gene network of the sea urchin embryo.
Article in Developmental biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 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
30 citing papers in PubMed, 56 citations in OpenAlex.
- Wnt dynamics at the blastopore and stomodeum during sea urchin gastrulation.Development (Cambridge, England) · 2026Article
- Detection of ExpressedBiology · 2025Article
- An Integrated Canonical and Non-Canonical Wnt Signaling Network Controls Early Anterior-Posterior Axis Formation in Sea Urchin Embryos.Journal of developmental biology · 2025Review
- Reprogramming of cells during embryonic transfating: overcoming a reprogramming block.Development (Cambridge, England) · 2024Article
- Evolutionarily conserved Wnt/Sp5 signaling is critical for anterior-posterior axis patterning in sea urchin embryos.iScience · 2024Article
- Conserved regulatory state expression controlled by divergent developmental gene regulatory networks in echinoids.Development (Cambridge, England) · 2018Article
- Bacterial artificial chromosomes as recombinant reporter constructs to investigate gene expression and regulation in echinoderms.Briefings in functional genomics · 2018Review
- Robustness and Accuracy in Sea Urchin Developmental Gene Regulatory Networks.Frontiers in genetics · 2016Article
- Evolutionary rewiring of gene regulatory network linkages at divergence of the echinoid subclasses.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Comparative Study of Regulatory Circuits in Two Sea Urchin Species Reveals Tight Control of Timing and High Conservation of Expression Dynamics.PLoS genetics · 2015Article
- microRNAs regulate β-catenin of the Wnt signaling pathway in early sea urchin development.Developmental biology · 2015Article
- From blastocyst to gastrula: gene regulatory networks of embryonic stem cells and early mouse embryogenesis.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2014Review
- Specific functions of the Wnt signaling system in gene regulatory networks throughout the early sea urchin embryo.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Selective accumulation of germ-line associated gene products in early development of the sea star and distinct differences from germ-line development in the sea urchin.Developmental dynamics : an official publication of the American Association of Anatomists · 2014Article
- Sequencing and analysis of the gastrula transcriptome of the brittle star Ophiocoma wendtii.EvoDevo · 2012Article
- Sequential signaling crosstalk regulates endomesoderm segregation in sea urchin embryos.Science (New York, N.Y.) · 2012Article
- Article
- The evolution of nervous system patterning: insights from sea urchin development.Development (Cambridge, England) · 2011Review
- Regeneration in the era of functional genomics and gene network analysis.The Biological bulletin · 2011Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
Abstract
A gene regulatory network subcircuit comprising the otx, wnt8, and blimp1 genes accounts for a moving torus of gene expression that sweeps concentrically across the vegetal domain of the sea urchin embryo. Here we confirm by mutation the inputs into the blimp1cis-regulatory module predicted by network analysis. Its essential design feature is that it includes both activation and autorepression sites. The wnt8 gene is functionally linked into the subcircuit in that cells receiving this ligand generate a beta-catenin/Tcf input required for blimp1 expression, while the wnt8 gene in turn requires a Blimp1 input. Their torus-like spatial expression patterns and gene regulatory analysis indicate that the genes even-skipped and hox11/13b are also entrained by this subcircuit. We verify the cis-regulatory inputs of even-skipped predicted by network analysis. These include activation by beta-catenin/Tcf and Blimp1, repression within the torus by Hox11/13b, and repression outside the torus by Tcf in the absence of Wnt8 signal input. Thus even-skipped and hox11/13b, along with blimp1 and wnt8, are members of a cohort of torus genes with similar regulatory inputs and similar, though slightly out-of-phase, expression patterns, which reflect differences in cis-regulatory design.
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.