The transcriptional network activated by Cln3 cyclin at the G1-to-S transition of the yeast cell cycle
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Background: The G1-to-S transition of the cell cycle in the yeast Saccharomyces cerevisiae involves an extensive transcriptional program driven by transcription factors SBF (Swi4-Swi6) and MBF (Mbp1-Swi6). Activation of these factors ultimately depends on the G1 cyclin Cln3. Results: To determine the transcriptional targets of Cln3 and their dependence on SBF or MBF, we first have used DNA microarrays to interrogate gene expression upon Cln3 overexpression in synchronized cultures of strains lacking components of SBF and/or MBF. Secondly, we have integrated this expression dataset together with other heterogeneous data sources into a single probabilistic model based on Bayesian statistics. Our analysis has produced more than 200 transcription factor-target assignments, validated by ChIP assays and by functional enrichment. Our predictions show higher internal coherence and predictive power than previous classifications. Our results support a model whereby SBF and MBF may be differentially activated by Cln3. Conclusions: Integration of heterogeneous genome-wide datasets is key to building accurate transcriptional networks. By such integration, we provide here a reliable transcriptional network at the G1-to-S transition in the budding yeast cell cycle. Our results suggest that to improve the reliability of predictions we need to feed our models with more informative experimental data.
Is part ofGenome Biology, 2010, vol. 11, núm. R67, p. 1-18
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Except where otherwise noted, this item's license is described as cc-by, (c) Ferrezuelo et al., 2010
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Colomina i Gabarrella, Neus; Ferrezuelo, Francisco; Vergés, Emili; Aldea, Martí; Garí Marsol, Eloi (Landes Bioscience, 2009)The Whi3 protein is associated with the endoplasmic reticulum, interacts with Cdc28, the budding-yeast Cdk, binds the mRNA of cyclin CLN3 and prevents accumulation of the Cdc28-Cln3 in the nucleus until late G1. Besides ...
Whi3, a developmental regulator of budding yeast, binds a large set of mRNAs functionally related to the endoplasmic reticulum Colomina i Gabarrella, Neus; Ferrezuelo, Francisco; Wang, Hongyin; Aldea, Martí; Garí Marsol, Eloi (American Society for Biochemistry and Molecular Biology, 2008)Whi3 is an RNA-binding protein associated with the endoplasmic reticulum (ER) that binds the CLN3 mRNA and plays a key role in the efficient retention of cyclin Cln3 at the ER. In the present work, we have identified new ...
Ferrezuelo, Francisco; Aldea, Martí; Futcher, Bruce (Landes Bioscience, 2009)During the cell division cycle of the yeast Saccharomyces cerevisiae, the G1-to-S transition depends upon the activation of two transcription factors (SBF and MBF), which are responsible for the cell cycle-regulated ...