Skip to main content

Development gene networks and evolution

  • Chapter
Genome Evolution
  • 619 Accesses

Abstract

Animal development relies on complex programs of gene regulation that are likely to account for a significant fraction of the information carried in genomes. The evolution of these regulatory programs is a major contributor to the diversity of animal forms, yet the architecture of the transcriptional networks that comprise developmental programs is only beginning to come into focus. The sea urchin offers an uncomplicated system in which to study transcriptional regulation and the networks that direct embryogenesis. This review describes the approaches that we are taking towards this problem using the sea urchin embryo and some comparative methods that will eventually lead to a deeper understanding of the evolution of developmental networks.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 129.00
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 169.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  • Arendt, D., Technau, U. and Wittbrodt, J. (2001) Evolution of the bilaterian larval foregut. Nature 409, 81–85.

    Article  PubMed  CAS  Google Scholar 

  • Arnone, M.I. and Davidson, E.H. (1997) The hardwiring of development: organization and function of genomic regulatory systems. Development 124, 1851–1864.

    PubMed  CAS  Google Scholar 

  • Bolouri, H. and Davidson E.H. (2002) Modeling DNA sequence-based cis-regulatory gene networks. Dev. Biol. 246, 2–13.

    Article  PubMed  CAS  Google Scholar 

  • Britten, R.J. and Davidson, E.H. (1971) Repetitive and non-repetitive DNA sequences and a speculation on the origins of evolutionary novelty. Q. Rev. Biol. 46, 111–138.

    Article  PubMed  CAS  Google Scholar 

  • Brown, C.T., Rust, A.G., Clarke, P.J.C., Pan, Z., Schilstra, M.J., De Buysscher, T., Griffin, G., Wold, B.J., Cameron, R.A., Davidson, E.H. and Bolouri, H. (2002). New computational approaches for analysis of cis-regulatory networks. Dev. Biol. 246, 86–102.

    Article  PubMed  CAS  Google Scholar 

  • Croce, J., Lhomond, G. and Gache, C. (2001) Expression pattern of Brachyury in the embryo of the sea urchin Paracentrotus lividus. Dev. Genes Evol. 211, 617–619.

    Article  PubMed  CAS  Google Scholar 

  • Davidson, E.H. (2001) Genomic Regulatory Systems: Development and Evolution, Academic Press, San Diego, CA.

    Google Scholar 

  • Davidson, E.H., Rast, J.P., Oliveri, P., Ransick, A., Calestani, C., Yuh, C-.H., Minokawa, T. Amore, G., Hinman, V., Arenas-Mena, C., Otim, O., Brown, C.T., Livi, C.B., Lee, P.Y., Revilla, R., Schilstra, M.J., Clarke, P.J.C., Rust, A.G., Pan, Z., Arnone, M.I., Rowen, L., R., Cameron, R.A., McClay, D.R., Hood, L. and Bolouri, H. (2002a) A provisional regulatory gene network for specification of endomesoderm in the sea urchin embryo. Dev. Biol. 246, 162–190.

    Article  PubMed  CAS  Google Scholar 

  • Davidson, E.H., Rast, J.P., Oliveri, P., Ransick, A., Calestani, C., Yuh, C-.H., Minokawa, T., Amore, G., Hinman, V., Arenas-Mena, C., Otim, O., Brown, C.T., Livi, C.B., Lee, P.Y., Revilla, R., Rust, A.G., Pan, Z., Schilstra, M.J., Clarke, P.J., Arnone, M.I., Rowen, L., Cameron, R.A., McClay, D.R., Hood, L. and Bolouri, H. (2002b) A genomic regulatory network for development. Science 295, 1669–1678.

    Article  PubMed  CAS  Google Scholar 

  • Gross, J.M. and McClay, D.R. (2001) The role of Brachyury (T) during gastrulation movements in the sea urchin, Lytechinus variegatus. Dev. Biol. 239, 132–147.

    Article  PubMed  CAS  Google Scholar 

  • Kispert, A., Koschorz, B. and Herrmann, B.G. (1995) The T protein encoded by Brachyury is a tissue-specific transcription factor. EMBO J. 14, 4763–4772.

    PubMed  CAS  Google Scholar 

  • Ludwig, M.Z., Bergman, C., Patel, N.H. and Kreitman, M. (2000) Evidence for stabilizing selection in a eukaryotic enhancer element. Nature 403, 564–567.

    Article  PubMed  CAS  Google Scholar 

  • Oliveri, P., Carrick, D.M., Davidson, E.H. (2002) A Regulatory gene network that directs micromere specification in the sea urchin embryo. Dev. Biol. 246, 209–228.

    Article  PubMed  CAS  Google Scholar 

  • Peterson, K.J., Cameron, R.A., Tagawa, K., Satoh, N. and Davidson, E.H. (1999) A comparative molecular approach to mesodermal patterning in basal deuterostomes: the expression pattern of Brachyury in the enteropneust hemichordate Ptychodera flava. Development 126, 85–95.

    PubMed  CAS  Google Scholar 

  • Ransick, A., Rast, J.P., Minokawa, T., Calestani, C. and Davidson, E.H. (2002) New early zygotic regulators of endomesoderm specification in sea urchin embryos discovered by differential array hybridization. Dev. Biol. 246, 132–147.

    Article  PubMed  CAS  Google Scholar 

  • Rast, J.P., Amore, G., Calestani, C., Livi, C. B., Ransick, A. and Davidson, E.H. (2000) Recovery of developmentally defined gene sets from high-density cDNA macroarrays. Dev. Biol. 228, 270–286.

    Article  PubMed  CAS  Google Scholar 

  • Rast, J.P., Cameron, R.A., Poustka, A.J. and Davidson, E.H. (2002) Brachyury target genes in the early sea urchin embryo isolated by differential macroarray screening. Dev. Biol. 246, 191–208.

    Article  PubMed  CAS  Google Scholar 

  • Ruffins, S.W. and Ettensohn, C.A. (1996) A fate map of the vegetal plate of the sea urchin (Lytechinus variegatus) mesenchyme blastula. Development 122, 253–263.

    PubMed  CAS  Google Scholar 

  • Sumiyama, K., Irvine, S.Q., Stock, D.W., Weiss, K.M., Kawasaki, K., Shimizu, N., Shashikant, C.S., Miller, W. and Ruddle, F.H. (2002) Genomic structure and functional control of the Dlx3-7 bigene cluster. Proc. Natl. Acad. Sci. USA 99, 780–785.

    Article  PubMed  CAS  Google Scholar 

  • Yuh, C-.H., Bolouri, H. and Davidson, E.H. (1998) Genomic cis-regulatory logic: experimental and computational analysis of a sea urchin gene. Science 279, 1896–1902.

    Article  PubMed  CAS  Google Scholar 

  • Yuh, C-.H., Bolouri, H. and Davidson, E.H. (2001) Cis-regulatory logic in the endo 16 gene: switching from a specification to a differentiation mode of control. Development 128, 617–629.

    PubMed  CAS  Google Scholar 

  • Yuh, C-.H., Brown, C.T., Livi, C., Rowen, L., Clarke, P.J.C. and Davidson, E.H. (2002) Patchy interspecific sequence similarities efficiently identify positive cis-regulatory elements in the sea urchin. Dev. Biol. 246, 148–161.

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Jonathan P. Rast .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2003 Springer Science+Business Media Dordrecht

About this chapter

Cite this chapter

Rast, J.P. (2003). Development gene networks and evolution. In: Meyer, A., Van de Peer, Y. (eds) Genome Evolution. Springer, Dordrecht. https://doi.org/10.1007/978-94-010-0263-9_22

Download citation

  • DOI: https://doi.org/10.1007/978-94-010-0263-9_22

  • Publisher Name: Springer, Dordrecht

  • Print ISBN: 978-94-010-3957-4

  • Online ISBN: 978-94-010-0263-9

  • eBook Packages: Springer Book Archive

Publish with us

Policies and ethics