Comparative genomics of transcriptional regulation in yeasts and its application to identification of a candidate alpha-isopropylmalate transporter.
Conservation rates in non-protein-coding regions of five yeast genomes of the genus Saccharomyces were analyzed using multiple whole-genome alignments. This analysis confirmed previously shown decrease in conservation rates observed immediately upstream of the translation start point and downstream of the stop-codon. Further, there was a sharp conservation peak in the upstream regions likely related to the core promoter (-35 bp to +35 bp around TSS) and a conservation peak downstream of the stop-codon whose function is not yet clear. Regulation of leucine and methionine biosynthesis controlled by the global regulator Gcn4p and pathway-specific regulators was analyzed in detail. A candidate alpha-isopropylmalate carrier, YOR271cp, was identified based on conservation of Leu3p binding sites, analysis of ChIP-chip data, protein localization and sequence similarity.
Kovaleva
Galina Yu
GY
Department of Bioengineering and Bioinformatics, Moscow State University, Moscow, Russia. kovaleva@iitp.ru
Bazykin
Georgii A
GA
Brudno
Michael
M
Gelfand
Mikhail S
MS
D002874:Chromosome Mapping / Q000379:methods*; D005786:Gene Expression Regulation / Q000235:genetics*; D016681:Genome, Fungal / Q000235:genetics*; D027361:Organic Anion Transporters / Q000235:genetics*; D012441:Saccharomyces cerevisiae / Q000145:classification / Q000235:genetics*; D029701:Saccharomyces cerevisiae Proteins / Q000235:genetics*; D013045:Species Specificity; D014158:Transcription, Genetic / Q000235:genetics*
C516720:FSF1 protein, S cerevisiae; D027361:Organic Anion Transporters; D029701:Saccharomyces cerevisiae Proteins