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Developmental gene network analysis

Revilla-i-Domingo, Roger and Davidson, Eric H. (2003) Developmental gene network analysis. International Journal of Developmental Biology, 47 (7-8). pp. 695-703. ISSN 0214-6282.

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The developmental process is controlled by the information processing functions executed by the cis-elements that regulate the expression of the participating genes. A model of the network of cis-regulatory interactions that underlies the specification of the endomesoderm of the sea urchin embryo is analyzed here. Although not all the relevant interactions have yet been uncovered, the model shows how the information processing functions executed by the cis-regulatory elements involved can control essential functions of the specification process, such as transforming the localization of maternal factors into a domain-specific program of gene expression; refining the specification pattern; and stabilizing states of specification. The analysis suggests that the progressivity of the developmental process is also controlled by the cis-regulatory interactions unraveled by the network model. Given that evolution occurs by changing the program for development of the body plan, we illustrate the potential of developmental gene network analysis in understanding the process by which morphological features are maintained and diversify. Comparison of the network of cis-regulatory interactions with a portion of that underlying the specification of the endomesoderm of the starfish illustrates how the similarities and differences provide insights into how the programs for development work and how they evolve.

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Additional Information:© 2003 UBC Press. We are very grateful to Dr. Takuya Minokawa for very useful criticism and fruitful discussions. We especially thank Dr. Paola Oliveri for providing a photomicrograph displaying the expression of delta gene 12 h after fertilization, and for useful discussions. We are particularly indebted to Dr. Veronica Hinman for allowing us to discuss her unpublished data regarding the comparison of sea urchin and starfish genomic sequences, and for useful criticism; to Dr. Andy Ransick for allowing us to discuss his unpublished data regarding the analysis of the cis-regulatory element of the gcm gene; and also to Pei Yun Lee for allowing us to discuss her unpublished data regarding the role of the gatae gene in the specification of the endoderm of the sea urchin embryo, and for helpful discussions. This research was supported by NIH Grants HD37105 and GM61005 and by NASA/Ames Grant NAG2-1587.
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Subject Keywords:Gene network, genetic program, evolution and development, genomic regulatory system, sea urchin
Issue or Number:7-8
Record Number:CaltechAUTHORS:20160302-083337623
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Official Citation:Developmental gene network analysis. Roger Revilla-i-Oomingo and Eric H Davidson Int J. Dev. Biol. (2003) 47 695-703
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:64952
Deposited By: Ruth Sustaita
Deposited On:02 Mar 2016 17:09
Last Modified:03 Oct 2019 09:42

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