Dual-functioning transcription factors in the developmental gene network of Drosophila melanogaster

Bauer, Denis C., Buske, Fabian A. and Bailey, Timothy L. (2010) Dual-functioning transcription factors in the developmental gene network of Drosophila melanogaster. BMC Bioinformatics, 11 . doi:10.1186/1471-2105-11-366

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Author Bauer, Denis C.
Buske, Fabian A.
Bailey, Timothy L.
Title Dual-functioning transcription factors in the developmental gene network of Drosophila melanogaster
Formatted title
Dual-functioning transcription factors in the developmental gene network of Drosophila melanogaster
Journal name BMC Bioinformatics   Check publisher's open access policy
ISSN 1471-2105
Publication date 2010-07
Sub-type Article (original research)
DOI 10.1186/1471-2105-11-366
Open Access Status DOI
Volume 11
Total pages 14
Editor Melissa Norton
Place of publication London, U.K.
Publisher BioMed Central
Collection year 2011
Language eng
Formatted abstract
Background: Quantitative models for transcriptional regulation have shown great promise for advancing our understanding of the biological mechanisms underlying gene regulation. However, all of the models to date assume a transcription factor (TF) to have either activating or repressing function towards all the genes it is regulating.
Results: In this paper we demonstrate, on the example of the developmental gene network in D. melanogaster, that the data-fit can be improved by up to 40% if the model is allowing certain TFs to have dual function, that is, acting as activator for some genes and as repressor for others. We demonstrate that the improvement is not due to additional flexibility in the model but rather derived from the data itself. We also found no evidence for the involvement of other known site-specific TFs in regulating this network. Finally, we propose SUMOylation as a candidate biological mechanism allowing TFs to switch their role when a small ubiquitin-like modifier (SUMO) is covalently attached to the TF. We strengthen this hypothesis by demonstrating that the TFs predicted to have dual function also contain the known SUMO consensus motif, while TFs predicted to have only one role lack this motif.
Conclusions: We argue that a SUMOylation-dependent mechanism allowing TFs to have dual function represents a promising area for further research and might be another step towards uncovering the biological mechanisms underlying transcriptional regulation.
© 2010 Bauer et al; licensee BioMed Central Ltd.
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ
Additional Notes Article # 366

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2011 Collection
ERA 2012 Admin Only
Institute for Molecular Bioscience - Publications
 
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Citation counts: TR Web of Science Citation Count  Cited 8 times in Thomson Reuters Web of Science Article | Citations
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Created: Sun, 19 Sep 2010, 00:07:41 EST