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First published online May 5, 2004
doi: 10.1242/10.1242/dev.01124

Development 131, 2387-2394 (2004)
Published by The Company of Biologists 2004
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A regulatory code for neurogenic gene expression in the Drosophila embryo

Michele Markstein1,*,{dagger}, Robert Zinzen1,*, Peter Markstein2, Ka-Ping Yee3, Albert Erives1, Angela Stathopoulos1 and Michael Levine1,{dagger}

1 Department of Molecular and Cellular Biology, Division of Genetics and Development, 401 Barker Hall, University of California, Berkeley, CA 94720, USA
2 Hewlett-Packard Laboratories, 1501 Page Mill Road, Palo Alto, CA 94304, USA
3 Computer Science Division Office, University of California, Berkeley, 387 Soda Hall #1776, Berkeley, CA 94720-1776, USA

{dagger} Authors for correspondence (e-mail: mlevine{at}uclink4.berkeley.edu and michele{at}opengenomics.org)

Accepted 12 February 2004

Bioinformatics methods have identified enhancers that mediate restricted expression in the Drosophila embryo. However, only a small fraction of the predicted enhancers actually work when tested in vivo. In the present study, co-regulated neurogenic enhancers that are activated by intermediate levels of the Dorsal regulatory gradient are shown to contain several shared sequence motifs. These motifs permitted the identification of new neurogenic enhancers with high precision: five out of seven predicted enhancers direct restricted expression within ventral regions of the neurogenic ectoderm. Mutations in some of the shared motifs disrupt enhancer function, and evidence is presented that the Twist and Su(H) regulatory proteins are essential for the specification of the ventral neurogenic ectoderm prior to gastrulation. The regulatory model of neurogenic gene expression defined in this study permitted the identification of a neurogenic enhancer in the distant Anopheles genome. We discuss the prospects for deciphering regulatory codes that link primary DNA sequence information with predicted patterns of gene expression.

Key words: Drosophila, Anopheles, cis-regulation, enhancers, neurogenic ectoderm, mesectoderm, Twist, Su(H), Dorsal


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