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| Status |
Public on Jan 01, 2017 |
| Title |
Characterization of the TCT motif reveals a crucial role of the core promoter micro-environment in gene regulation |
| Organism |
Drosophila melanogaster |
| Experiment type |
Other
|
| Summary |
The signals initiating gene expression are eventually integrated at the core promoter where diverse core promoter motifs interact with the basal transcription machinery to recruit the RNA polymerase. The diversityThe signals initiating gene expression are eventually integrated at the core promoter where diverse core promoter motifs interact with the basal transcription machinery to recruit the RNA polymerase. The diversity in core promoter motif poises their composition as a means to regulate gene expression. We utilized genome-wide (5’GRO-seq) and biochemical methods to characterize the TCT motif in humans and Drosophila and show that it is a functionally conserved RNA polymerase II core promoter element. Human TCT-containing promoters are ~3-fold enriched for the TATA box motif while Drosophila promoters are depleted. The downstream core promoter element (DPE) is underrepresented. Combinatorial analysis revealed the TCT motif to cooperatively facilitate transcription with the TATA box in some instances, but not others implying a role for the core promoter micro-environment in gene regulation. The interaction among core promoter elements is therefore not as straightforward as previously thought. TCT-containing promoters predominantly regulate the expression of genes involved in translation, thereby providing an example how core promoter motifs facilitate regulatory specialization. This may explain why diverse translation-related genes are observed as commonly altered in some cancers.
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| Overall design |
Nascent transcript initiation profiles in S2 cells using 5'GRO-Seq
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| Contributor(s) |
Duttke SH, Benner C, Kadonaga JT |
| Citation missing |
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| |
| Submission date |
May 08, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Christopher Benner |
| E-mail(s) |
cbenner@ucsd.edu
|
| Organization name |
University of California, San Diego (UCSD)
|
| Department |
Medicine
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| Street address |
9500 Gilman Dr. MC 0640
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093-0640 |
| Country |
USA |
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| Platforms (1) |
| GPL17275 |
Illumina HiSeq 2500 (Drosophila melanogaster) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA284402 |
| SRA |
SRP058504 |
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