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Molecular and Cellular Biology, April 2002, p. 2642-2649, Vol. 22, No. 8
0270-7306/02/$04.00+0     DOI: 10.1128/MCB.22.8.2642-2649.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.

New Insights into the Pleiotropic Drug Resistance Network from Genome-Wide Characterization of the YRR1 Transcription Factor Regulation System

Stéphane Le Crom,1 Frédéric Devaux,1 Philippe Marc,1 Xiaoting Zhang,2 W. Scott Moye-Rowley,2 and Claude Jacq1*

Laboratoire de Génétique Moléculaire, CNRS UMR 8541, Ecole Normale Supérieure, 75230 Paris Cedex 05, France,1 Molecular Biology Program and Department of Physiology and Biophysics, University of Iowa, Iowa City, Iowa 522422

Received 30 November 2001/ Accepted 16 January 2002

Yrr1p is a recently described Zn2Cys6 transcription factor involved in the pleiotropic drug resistance (PDR) phenomenon. It is controlled in a Pdr1p-dependent manner and is autoregulated. We describe here a new genome-wide approach to characterization of the set of genes directly regulated by Yrr1p. We found that the time-course production of an artificial chimera protein containing the DNA-binding domain of Yrr1p activated the 15 genes that are also up-regulated by a gain-of-function mutant of Yrr1p. Gel mobility shift assays showed that the promoters of the genes AZR1, FLR1, SNG1, YLL056C, YLR346C, and YPL088W interacted with Yrr1p. The putative consensus Yrr1p binding site deduced from these experiments, (T/A)CCG(C/T)(G/T)(G/T)(A/T)(A/T), is strikingly similar to the PDR element binding site sequence recognized by Pdr1p and Pdr3p. The minor differences between these sequences are consistent with Yrr1p and Pdr1p and Pdr3p having different sets of target genes. According to these data, some target genes are directly regulated by Pdr1p and Pdr3p or by Yrr1p, whereas some genes are indirectly regulated by the activation of Yrr1p. Some genes, such as YOR1, SNQ2, and FLR1, are clearly directly controlled by both classes of transcription factor, suggesting an important role for the corresponding membrane proteins.

* Corresponding author. Mailing address: Laboratoire de Génétique Moléculaire (CNRS UMR 8541), Ecole Normale Supérieure, 46 rue d'Ulm, 75230 Paris Cedex 05, France. Phone: 33 1 44 32 35 46. Fax: 33 1 44 32 37 30. E-mail: jacq{at}biologie.ens.fr.

Molecular and Cellular Biology, April 2002, p. 2642-2649, Vol. 22, No. 8
0022-538X/02/$04.00+0     DOI: 10.1128/MCB.22.8.2642-2649.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.



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