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Published 22 July 2002. doi:10.1083/jcb.200204059
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© The Rockefeller University Press, 0021-9525/2002/7/259 $5.00
The Journal of Cell Biology, Volume 158, Number 2, July 22, 2002 259-271

Article

 Transcriptome profiling to identify genes involved in peroxisome assembly and function

Jennifer J. Smith1, Marcello Marelli1, Rowan H. Christmas1, Franco J. Vizeacoumar2, David J. Dilworth1, Trey Ideker1, Timothy Galitski1, Krassen Dimitrov1, Richard A. Rachubinski2 and John D. Aitchison1,2

1 The Institute for Systems Biology, Seattle, WA 98103
2 Department of Cell Biology, University of Alberta, Edmonton, Alberta, T6G 2H7

Address correspondence to John D. Aitchison, Institute for Systems Biology, 1441 N. 34th St. Seattle, WA 98103-8904. Tel.: (206) 732-1344. Fax: (206) 732-1299. E-mail: jaitchison{at}systemsbiology.org

Yeast cells were induced to proliferate peroxisomes, and microarray transcriptional profiling was used to identify PEX genes encoding peroxins involved in peroxisome assembly and genes involved in peroxisome function. Clustering algorithms identified 224 genes with expression profiles similar to those of genes encoding peroxisomal proteins and genes involved in peroxisome biogenesis. Several previously uncharacterized genes were identified, two of which, YPL112c and YOR084w, encode proteins of the peroxisomal membrane and matrix, respectively. Ypl112p, renamed Pex25p, is a novel peroxin required for the regulation of peroxisome size and maintenance. These studies demonstrate the utility of comparative gene profiling as an alternative to functional assays to identify genes with roles in peroxisome biogenesis.

Key Words: microarray; clustering algorithms; peroxin; PEX25; PEX11


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