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Resources » Paper

Hryshkevich, Uladzislau et al. (2009) International Worm Meeting "Motif composition and evolution of the core promoter."

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    Status:
    Publication type:
    Meeting_abstract
    WormBase ID:
    WBPaper00034600

    Hryshkevich, Uladzislau, & Yanai, Itai (2009). Motif composition and evolution of the core promoter presented in International Worm Meeting. Unpublished information; cite only with author permission.

    Even before specific transcription factors can begin to modulate gene expression, the initiation of transcription is crucially dependent upon the properties of core promoter sequence. While many short motifs such as the initiator motif and the TATA-box are known to occupy this region, a surprising level of variation is present across a genome''s core promoters. We hypothesized the existence of a code of short motifs distinguishing the functional properties of core promoters. Here we characterize 12 regulatory elements located in C. elegans core promoters. We found that these cluster into two mutually exclusive groups of motifs (Core1 and Core2). For example the initiator motif and T-repeats (with a consensus of TTTTTCCTCCATTTTT) from the Core1 group do not co-occur with the TATA-box and purine-repeats ((R)12), of the second group. Invoking gene expression data across embryonic development, we asked whether different core promoter motifs correlate with different expression levels. We found that genes with elements from the first group show significantly elevated expression level. For example genes with the initiator motif exhibit strong expression levels (z-score = 35.7), while genes with motifs from the second group such as the TATA-box show low expression (z-score = -1.7). Our analysis enables us to examine the evolution of motif architecture in the core promoter across different species. Such an analysis of the dynamics of motif composition may lead to an understanding of the tuning of gene expression level by motif combinatorics of the core promoter.


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