title: Genome-wide analysis of effectors of peroxisome biogenesis.
abstract: Peroxisomes are intracellular organelles that house a number of diverse metabolic processes, notably those required for beta-oxidation of fatty acids. Peroxisomes biogenesis can be induced by the presence of peroxisome proliferators, including fatty acids, which activate complex cellular programs that underlie the induction process. Here, we used multi-parameter quantitative phenotype analyses of an arrayed mutant collection of yeast cells induced to proliferate peroxisomes, to establish a comprehensive inventory of genes required for peroxisome induction and function. The assays employed include growth in the presence of fatty acids, and confocal imaging and flow cytometry through the induction process. In addition to the classical phenotypes associated with loss of peroxisomal functions, these studies identified 169 genes required for robust signaling, transcription, normal peroxisomal development and morphologies, and transmission of peroxisomes to daughter cells. These gene products are localized throughout the cell, and many have indirect connections to peroxisome function. By integration with extant data sets, we present a total of 211 genes linked to peroxisome biogenesis and highlight the complex networks through which information flows during peroxisome biogenesis and function.
authors.affiliation: Institute for Systems Biology, Seattle, Washington, USA.
authors.forename: Ramsey A
authors.initials: RA
authors.lastname: Saleem
authors.forename: Rose
authors.initials: R
authors.lastname: Long-O'Donnell
authors.forename: David J
authors.initials: DJ
authors.lastname: Dilworth
authors.forename: Abraham M
authors.initials: AM
authors.lastname: Armstrong
authors.forename: Arvind P
authors.initials: AP
authors.lastname: Jamakhandi
authors.forename: Yakun
authors.initials: Y
authors.lastname: Wan
authors.forename: Theo A
authors.initials: TA
authors.lastname: Knijnenburg
authors.forename: Antti
authors.initials: A
authors.lastname: Niemistö
authors.forename: John
authors.initials: J
authors.lastname: Boyle
authors.forename: Richard A
authors.initials: RA
authors.lastname: Rachubinski
authors.forename: Ilya
authors.initials: I
authors.lastname: Shmulevich
authors.forename: John D
authors.initials: JD
authors.lastname: Aitchison
mesh_terms: D019295:Computational Biology; D016208:Databases, Factual; D005434:Flow Cytometry; D005656:Fungal Proteins / Q000378:metabolism; D005800:Genes, Fungal / Q000235:genetics; D023281:Genomics; D020675:Peroxisomes / Q000378:metabolism*; D021381:Protein Transport; D012441:Saccharomyces cerevisiae / Q000166:cytology / Q000235:genetics / Q000378:metabolism
chemical_list: D005656:Fungal Proteins