ArticleBMC genomics2008
Sequence conservation and combinatorial complexity of Drosophila neural precursor cell enhancers.
Article in BMC genomics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- Neural precursor-specific expression of multiple Drosophila genes is driven by dual enhancer modules with overlapping function.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Engrailed cooperates directly with Extradenticle and Homothorax on a distinct class of homeodomain binding sites to repress sloppy paired.Developmental biology · 2012Article
- Regulation of a duplicated locus: Drosophila sloppy paired is replete with functionally overlapping enhancers.Developmental biology · 2012Article
- Use of a Drosophila genome-wide conserved sequence database to identify functionally related cis-regulatory enhancers.Developmental dynamics : an official publication of the American Association of Anatomists · 2012Article
- Transcriptional regulatory regions of gap43 needed in developing and regenerating retinal ganglion cells.Developmental dynamics : an official publication of the American Association of Anatomists · 2010Article
- Conserved sequence block clustering and flanking inter-cluster flexibility delineate enhancers that regulate nerfin-1 expression during Drosophila CNS development.Gene expression patterns : GEP · 2009Article
- Functional analysis of conserved sequences within a temporally restricted neural precursor cell enhancer.Mechanisms of developmentArticle
- The cis-regulatory dynamics of the Drosophila CNS determinant castor are controlled by multiple sub-pattern enhancers.Gene expression patterns : GEPArticle
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Authors and funding
6 authors.
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Abstract
backgroundThe presence of highly conserved sequences within cis-regulatory regions can serve as a valuable starting point for elucidating the basis of enhancer function. This study focuses on regulation of gene expression during the early events of Drosophila neural development. We describe the use of EvoPrinter and cis-Decoder, a suite of interrelated phylogenetic footprinting and alignment programs, to characterize highly conserved sequences that are shared among co-regulating enhancers.
resultsAnalysis of in vivo characterized enhancers that drive neural precursor gene expression has revealed that they contain clusters of highly conserved sequence blocks (CSBs) made up of shorter shared sequence elements which are present in different combinations and orientations within the different co-regulating enhancers; these elements contain either known consensus transcription factor binding sites or consist of novel sequences that have not been functionally characterized. The CSBs of co-regulated enhancers share a large number of sequence elements, suggesting that a diverse repertoire of transcription factors may interact in a highly combinatorial fashion to coordinately regulate gene expression. We have used information gained from our comparative analysis to discover an enhancer that directs expression of the nervy gene in neural precursor cells of the CNS and PNS.
conclusionThe combined use EvoPrinter and cis-Decoder has yielded important insights into the combinatorial appearance of fundamental sequence elements required for neural enhancer function. Each of the 30 enhancers examined conformed to a pattern of highly conserved blocks of sequences containing shared constituent elements. These data establish a basis for further analysis and understanding of neural enhancer function.
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