A gene-centered C. elegans protein-DNA interaction network

Deplancke, Bart and Mukhopadhyay, Arnab and Ao, Wanyuan and Elewa, Ahmed M. and Grove, Christian A. and Martinez, Natalia J. and Sequerra, Reynaldo and Doucette-Stamm, Lynn and Reece-Hoyes, John S. and Hope, Ian A. and Tissenbaum, Heidi A. and Mango, Susan E. and Walhout, Albertha J. M.. (2006) A gene-centered C. elegans protein-DNA interaction network. Cell, 125 (6). pp. 1193-1205.

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Official URL: https://edoc.unibas.ch/70584/

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Transcription regulatory networks consist of physical and functional interactions between transcription factors (TFs) and their target genes. The systematic mapping of TF-target gene interactions has been pioneered in unicellular systems, using "TF-centered" methods (e.g., chromatin immunoprecipitation). However, metazoan systems are less amenable to such methods. Here, we used "gene-centered" high-throughput yeast one-hybrid (Y1H) assays to identify 283 interactions between 72 C. elegans digestive tract gene promoters and 117 proteins. The resulting protein-DNA interaction (PDI) network is highly connected and enriched for TFs that are expressed in the digestive tract. We provide functional annotations for approximately 10% of all worm TFs, many of which were previously uncharacterized, and find ten novel putative TFs, illustrating the power of a gene-centered approach. We provide additional in vivo evidence for multiple PDIs and illustrate how the PDI network provides insights into metazoan differential gene expression at a systems level.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Growth & Development > Cell and Developmental Biology (Mango)
UniBasel Contributors:Mango, Susan Elizabeth
Item Type:Article, refereed
Article Subtype:Research Article
Publisher:Cell Press
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:13 Nov 2020 10:00
Deposited On:13 Nov 2020 10:00

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