title: Transcript analysis of 1003 novel yeast genes using high-throughput northern hybridizations.
abstract: The expression of 1008 open reading frames (ORFs) from the yeast Saccharomyces cerevisiae has been examined under eight different physiological conditions, using classical northern analysis. These northern data have been compared with publicly available data from a microarray analysis of the diauxic transition in S.cerevisiae. The results demonstrate the importance of comparing biologically equivalent situations and of the standardization of data normalization procedures. We have also used our northern data to identify co-regulated gene clusters and define the putative target sites of transcriptional activators responsible for their control. Clusters containing genes of known function identify target sites of known activators. In contrast, clusters comprised solely of genes of unknown function usually define novel putative target sites. Finally, we have examined possible global controls on gene expression. It was discovered that ORFs that are highly expressed following a nutritional upshift tend to employ favoured codons, whereas those overexpressed in starvation conditions do not. These results are interpreted in terms of a model in which competition between mRNA molecules for translational capacity selects for codons translated by abundant tRNAs.
authors.affiliation: Department of Molecular and Cell Biology, University of Aberdeen, Institute of Medical Sciences, Foresterhill, Aberdeen AB25 2ZD.
authors.forename: A J
authors.initials: AJ
authors.lastname: Brown
authors.forename: R J
authors.initials: RJ
authors.lastname: Planta
authors.forename: F
authors.initials: F
authors.lastname: Restuhadi
authors.forename: D A
authors.initials: DA
authors.lastname: Bailey
authors.forename: P R
authors.initials: PR
authors.lastname: Butler
authors.forename: J L
authors.initials: JL
authors.lastname: Cadahia
authors.forename: M E
authors.initials: ME
authors.lastname: Cerdan
authors.forename: M
authors.initials: M
authors.lastname: De Jonge
authors.forename: D C
authors.initials: DC
authors.lastname: Gardner
authors.forename: M E
authors.initials: ME
authors.lastname: Gent
authors.forename: A
authors.initials: A
authors.lastname: Hayes
authors.forename: C P
authors.initials: CP
authors.lastname: Kolen
authors.forename: L J
authors.initials: LJ
authors.lastname: Lombardia
authors.forename: A M
authors.initials: AM
authors.lastname: Murad
authors.forename: R A
authors.initials: RA
authors.lastname: Oliver
authors.forename: M
authors.initials: M
authors.lastname: Sefton
authors.forename: J M
authors.initials: JM
authors.lastname: Thevelein
authors.forename: H
authors.initials: H
authors.lastname: Tournu
authors.forename: Y J
authors.initials: YJ
authors.lastname: van Delft
authors.forename: D J
authors.initials: DJ
authors.lastname: Verbart
authors.forename: J
authors.initials: J
authors.lastname: Winderickx
authors.forename: S G
authors.initials: SG
authors.lastname: Oliver
mesh_terms: D015152:Blotting, Northern; D003062:Codon; D020869:Gene Expression Profiling; D005800:Genes, Fungal; D005810:Multigene Family; D020411:Oligonucleotide Array Sequence Analysis; D016366:Open Reading Frames; D012331:RNA, Fungal; D012333:RNA, Messenger; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D014158:Transcription, Genetic
chemical_list: D003062:Codon; D012331:RNA, Fungal; D012333:RNA, Messenger