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Nucleic Acids Research, 2002, Vol. 30, No. 24 5347-5359
© 2002 Oxford University Press

Characterization of the fission yeast ribosomal DNA binding factor: components share homology with Upstream Activating Factor and with SWI/SNF subunits

Meilin Liu, Ailan Guo, Boris Boukhgalter, Kaitlin Van Den Heuvel1, Matthew Tripp1 and Louise Pape*,1

Department of Chemistry, New York University, New York, NY 10003, USA and 1 Department of Genetics and Biotechnology Center, 445 Henry Mall, University of Wisconsin-Madison, Madison, WI 53706, USA

*To whom correspondence should be addressed. Tel: +1 608 265 7935; Fax +1 608 262 2976; Email: lpape{at}facstaff.wisc.edu
Present addresses:
Meilin Liu, Imclone, New York, NY, USA
Ailan Guo, Consensus Pharmaceuticals, Inc., Medford, MA, USA
Boris Boukhgalter, Whitehead Institute, Cambridge, MA, USA
Matthew Tripp, Stanford University, Palo Alto, CA, USA

A ribosomal DNA (rDNA) binding activity was previously characterized in fission yeast that recognized the upstream ribosomal RNA (rRNA) gene promoter in a sequence specific manner and which stimulated rRNA synthesis. It was found to share characteristics with Saccharomyces cerevisiae’s Upstream Activating Factor (UAF), an RNA polymerase I (pol I) specific transcription stimulatory factor. Putative fission yeast homologs of the S.cerevisiae UAF subunits, Rrn5p and Rrn10p, were identified. The Schizosaccharomyces pombe rDNA binding activity/transcriptional stimulatory activity was found to co-fractionate with both SpRrn5h and SpRrn10h. Analysis of polypeptides interacting with SpRrn10h uncovered a 27 kDa polypeptide (Spp27) homologous to a SWI/SNF component (now known to be homologous to Uaf30p). The contributions of the S.pombe and S.cerevisiae upstream rDNA promoter domains were assessed in cross-species transcriptional assays. Furthermore, comparative genomic analysis revealed putative Rrn5p, Rrn10p, Rrn9p and p27 homologs in multiple non-vertebrates. The S.pombe rDNA binding activity is proposed to be an RNA pol I specific SWI/SNF type factor.


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