Serial regulation of transcriptional regulators in the yeast cell cycle.

By Itamar Simon, J. Barnett, N. Hannett, Christopher T. Harbison, Nicola J. Rinaldi, T. Volkert, John J. Wyrick, J. Zeitlinger, David K. Gifford, Tommi S. Jaakkola and 1 more. Cell, 2001

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Genome-wide location analysis was used to determine how the yeast cell cycle gene expression program is regulated by each of the nine known cell cycle transcriptional activators. We found that cell cycle transcriptional activators that function during one stage of the cell cycle regulate transcriptional activators that function during the next stage. This serial regulation of transcriptional activators forms a connected regulatory network that is itself a cycle. Our results also reveal how the nine transcriptional regulators coordinately regulate global gene expression and diverse stage-specific functions to produce a continuous cycle of cellular events. This information forms the foundation for a complete map of the transcriptional regulatory network that controls the cell cycle.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/50379a112eaf00c3c51bcdaaf67216debe979ed3

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Citations in the corpus

Integrative analysis of cell cycle control in budding yeast. (2004, background): “Cdc20 transcription is activated in G2/M phases by the transcription factor complex Mcm1/Fkh2/Ndd1 (Spellman et al., 1998; Zhu et al., 2000; Simon et al., 2001), which is activated in turn by Clb1,2 kinase activity.”
A new dynamic Bayesian network (DBN) approach for identifying gene regulatory networks from time course microarray data (2005, methodology): “In addition, the yeast cell cycle has many previously established gene regulatory relationships (Simon et al., 2001), allowing ready confirmation of the accuracy of our algorithm-derived gene–gene relationships.”
Genomic targets of the human c-Myc protein. (2003, background): “A complete picture of transcription factor-binding sites has been achieved in the yeast genome by hybridizing DNA recovered by ChIP onto DNA microarrays (Ren et al. 2000; Iyer et al. 2001; Lieb et al. 2001; Simon et al. 2001).”
Mapping of genetic and epigenetic regulatory networks using microarrays (2005, methodology): “Such an analysis was done for the set of nine transcription factors known to regulate the cell cycle in yeas”
Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE (2006, methodology): “However, genomescale, quantitative measurements of TF occupancies of intergenic regions are now available due to the advent of in vivo chromatin immunoprecipitation microarrays (Ren et al., 2000; Iyer et al., 2001; Lieb et al., 2001; Simon et al., 2001; Lee et al., 2002; Harbison et al., 2004), in v”
Studying and modelling dynamic biological processes using time-series gene expression data (2012, background): “Indeed, for the yeast cell cycle it was shown that the cyclic behaviour is controlled by a cascade of transcription factors; the expression level of each factor peaks at a different stage of the cell cycle and this regulates the expression of transcription factors of the next stage 58 .”
Computational prediction of transcription-factor binding site locations (2003, methodology): “This approach has been used to characterize a number of TFs in the yeast Saccharomyces cerevisiae [9,11-15] and, more recently, to identify genomic targets in mammalian cells [16-18].”
E2F integrates cell cycle progression with DNA repair, replication, and G(2)/M checkpoints. (2002, background): “Such studies in yeast have begun to reveal the transcriptional networks that regulate the cell cycle and the response to nutrients (Ren et al. 2000; Iyer et al. 2001; Simon et al. 2001) and have identified origins of DNA replication throughout the genome (Wyrick et al. 2001).”
Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors (2003, methodology): “First, we used genome-wide studies of binding sites of 113 known or predicted transcription factor”