Modularity and design principles in the sea urchin embryo gene regulatory network
Open accessAbstract
The gene regulatory network (GRN) established experimentally for the pre-gastrular sea urchin embryo provides causal explanations of the biological functions required for spatial specification of embryonic regulatory states. Here we focus on the structure of the GRN which controls the progressive increase in complexity of territorial regulatory states during embryogenesis; and on the types of modular subcircuits of which the GRN is composed. Each of these subcircuit topologies executes a particular operation of spatial information processing. The GRN architecture reflects the particular mode of embryogenesis represented by sea urchin development. Network structure not only specifies the linkages constituting the genomic regulatory code for development, but also indicates the various regulatory requirements of regional developmental processes.
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GRNs are composed of multiple sub-circuits, each accomplishing a parsed regulatory task.
“GRNs are composed of multiple sub-circuits, that is, the individual regulatory tasks into which a process can be parsed are each accomplished by a given GRN sub-circuit1–4.”
From Emerging properties of animal gene regulatory networks (2010) · cites this paper as [2]
The sea urchin mesoderm, endoderm, and oral/aboral ectoderm specification GRNs are deep, layered, and hierarchical.
“The GRNs underlying specification of the mesoderm, endoderm1,2,8 and of the oral and aboral ectoderm9 of the sea urchin embryo are similarly deep, layered and hierarchical.”
From Emerging properties of animal gene regulatory networks (2010) · cites this paper as [2]
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References 53 · Cited by 89
Research works printed but not linked: 3
- [1]Davidson EH 2006 The Regulatory Genome Gene Regulatory Networks in Development and Evolution Academic Press/Elsevier San Diego, CA
- [28]Oliveri P Davidson EH 2007 Development. Built to run, not fail Science 315 1510 1511 17363653
- [38]Davidson EH 1987 Gene Activity in Early Development Academic Press Orlando, FL
- Authors
- Peter, I. S., & Davidson, E. H.
- Affiliations
- California Institute of Technology (US)
- Corresponding author
- Davidson, Eric H.
- ORCID
- Peter, Isabelle S.
- Venue
- FEBS Letters
- Publisher
- Wiley
- Published
- 2009-11-20
- Volume
- 583
- Issue
- 24
- Pages
- 3948-3958
- ISSN
- 0014-5793 (ISSN-L)
- 1873-3468
- PMC
- PMC2810318
- OpenAlex
- W2030294802
- Cited by
- 89
- References
- 53
- Citations by year
- 2026: 2 · 2025: 2 · 2024: 4 · 2023: 1 · 2022: 2 · 2021: 5 · 2020: 3 · 2019: 2 · 2018: 4 · 2017: 2 · 2016: 9 · 2015: 8 · 2014: 5 · 2013: 7 · 2012: 10
- FWCI
- 0.84
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- FEBS Letters (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- CaltechAUTHORS (California Institute of Technology) (submittedVersion)
- Funders
- NIH (HD37105)
- Swiss National Science Foundation
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Keywords
- gene regulatory networks, sea urchin embryo, modularity, embryonic development, network architecture, spatial data processing
- MeSH terms
- Animals, Embryo, Nonmammalian, Gastrula, Models, Genetic, Sea Urchins, Gene Expression Regulation, Developmental, Gene Regulatory Networks
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