title: Identification of cell cycle-regulated genes in fission yeast.
abstract: Cell cycle progression is both regulated and accompanied by periodic changes in the expression levels of a large number of genes. To investigate cell cycle-regulated transcriptional programs in the fission yeast Schizosaccharomyces pombe, we developed a whole-genome oligonucleotide-based DNA microarray. Microarray analysis of both wild-type and cdc25 mutant cell cultures was performed to identify transcripts whose levels oscillated during the cell cycle. Using an unsupervised algorithm, we identified 747 genes that met the criteria for cell cycle-regulated expression. Peaks of gene expression were found to be distributed throughout the entire cell cycle. Furthermore, we found that four promoter motifs exhibited strong association with cell cycle phase-specific expression. Examination of the regulation of MCB motif-containing genes through the perturbation of DNA synthesis control/MCB-binding factor (DSC/MBF)-mediated transcription in arrested synchronous cdc10 mutant cell cultures revealed a subset of functional targets of the DSC/MBF transcription factor complex, as well as certain gene promoter requirements. Finally, we compared our data with those for the budding yeast Saccharomyces cerevisiae and found approximately 140 genes that are cell cycle regulated in both yeasts, suggesting that these genes may play an evolutionarily conserved role in regulation of cell cycle-specific processes. Our complete data sets are available at http://giscompute.gis.a-star.edu.sg/~gisljh/CDC.
authors.affiliation: Genome Institute of Singapore, Singapore 138672, Singapore.
authors.forename: Xu
authors.initials: X
authors.lastname: Peng
authors.forename: R Krishna Murthy
authors.initials: RK
authors.lastname: Karuturi
authors.forename: Lance D
authors.initials: LD
authors.lastname: Miller
authors.forename: Kui
authors.initials: K
authors.lastname: Lin
authors.forename: Yonghui
authors.initials: Y
authors.lastname: Jia
authors.forename: Pinar
authors.initials: P
authors.lastname: Kondu
authors.forename: Long
authors.initials: L
authors.lastname: Wang
authors.forename: Lim-Soon
authors.initials: LS
authors.lastname: Wong
authors.forename: Edison T
authors.initials: ET
authors.lastname: Liu
authors.forename: Mohan K
authors.initials: MK
authors.lastname: Balasubramanian
authors.forename: Jianhua
authors.initials: J
authors.lastname: Liu
mesh_terms: D000465:Algorithms; D020816:Amino Acid Motifs; D002453:Cell Cycle; D018797:Cell Cycle Proteins / Q000235:genetics*; D002467:Cell Nucleus / Q000378:metabolism; D002469:Cell Separation; D016000:Cluster Analysis; D019295:Computational Biology / Q000379:methods; D004247:DNA / Q000378:metabolism; D018076:DNA, Complementary / Q000378:metabolism; D005434:Flow Cytometry; D005656:Fungal Proteins / Q000235:genetics; D016193:G1 Phase; D016195:G2 Phase; D015966:Gene Expression Regulation, Fungal; D016681:Genome, Fungal; D005838:Genotype; D020407:Internet; D015233:Models, Statistical; D016011:Normal Distribution; D020411:Oligonucleotide Array Sequence Analysis; D011401:Promoter Regions, Genetic; D012333:RNA, Messenger / Q000378:metabolism; D016196:S Phase; D012441:Saccharomyces cerevisiae / Q000235:genetics; D012568:Schizosaccharomyces / Q000235:genetics* / Q000378:metabolism*; D013045:Species Specificity; D013696:Temperature; D014158:Transcription, Genetic; D020666:ras-GRF1 / Q000235:genetics
chemical_list: D018797:Cell Cycle Proteins; D018076:DNA, Complementary; D005656:Fungal Proteins; D012333:RNA, Messenger; D020666:ras-GRF1; D004247:DNA