Molecular Biology of the Cell track citations

Home Help [Feedback] [For Subscribers] [Archive] [Search] --
QUICK SEARCH:   [advanced]


     

MBC in Press, published online ahead of print February 27, 2008
Mol. Biol. Cell 10.1091/mbc.E07-12-1242

A more recent version of this article appeared on May 1, 2008
This Article
Right arrow Full Text (PDF)
Right arrow Supplemental Materials
Right arrow All Versions of this Article:
E07-12-1242v1
19/5/2193    most recent
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Google Scholar
Right arrow Articles by Schlecht, U.
Right arrow Articles by Primig, M.
PubMed
Right arrow PubMed Citation
Right arrow Articles by Schlecht, U.
Right arrow Articles by Primig, M.

Submitted on December 19, 2007
Revised on February 14, 2008
Accepted on February 19, 2008

Genome-wide Expression Profiling, in vivo DNA Binding Analysis and Probabilistic Motif Prediction Reveal Novel Abf1 Target Genes during Fermentation, Respiration and Sporulation in Yeast

Ulrich Schlecht,*{dagger} Ionas Erb,* Philippe Demougin,* Nicolas Robine,{ddagger}{sect} Valérie Borde,{ddagger} Erik van Nimwegen,* Alain Nicolas,{ddagger} and Michael Primig*||

*Biozentrum and Swiss Institute of Bioinformatics, CH-4056 Basel, Switzerland; {ddagger}CNRS UMR7147 Recombination and Genome Instability, Institut Curie, Université Pierre et Marie Curie, F-75248 Paris, France; {sect}Service de Bioinformatique, Institut Curie, Université Pierre et Marie Curie, F-75248 Paris, France

Monitoring Editor: Mark Solomon

The DNA-binding Autonomously Replicating Sequence Binding Factor 1 (Abf1) was initially identified as an essential DNA replication factor and later shown to be a component of the regulatory network controlling mitotic and meiotic cell cycle progression in budding yeast. The protein is thought to exert its functions via specific interaction with its target site as part of distinct protein complexes but its roles during mitotic growth and meiotic development are only partially understood. Here we report a comprehensive approach aiming at the identification of direct Abf1-target genes expressed during fermentation, respiration and sporulation. Computational prediction of the protein’s target sites was integrated with a genome-wide DNA binding assay in growing and sporulating cells. The resulting data were combined with the output of expression profiling studies using wild-type versus temperature sensitive alleles. This work identified 434 protein-coding loci as being transcriptionally dependent on Abf1. More than 60% of their putative promoter regions contained a computationally predicted Abf1 binding site and/or were bound by Abf1 in vivo, identifying them as direct targets. The present study revealed numerous loci previously unknown to be under Abf1 control and yielded evidence for the protein’s variable DNA binding pattern during mitotic growth and meiotic development.

{dagger}Present address: Stanford Genome Technology Center, 855 California Avenue, Palo Alto, California 94304.

||Present address: Institut National de la Santé et de la Recherche Médicale (Inserm) Unité 625, Université de Rennes 1, F-35042 Rennes, France.

Address correspondence to: Michael Primig (michael.primig{at}rennes.inserm.fr)






Home Help [Feedback] [For Subscribers] [Archive] [Search] --
Copyright © 2008 by The American Society for Cell Biology. Terms of copyright protection, warranties, and disclaimers.