Functional Studies of the Yeast Med5, Med15 and Med16 Mediator Tail Subunits

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Abstract

The yeast Mediator complex can be divided into three modules, designated Head, Middle and Tail. Tail comprises the Med2, Med3, Med5, Med15 and Med16 protein subunits, which are all encoded by genes that are individually non-essential for viability. In cells lacking Med16, Tail is displaced from Head and Middle. However, inactivation of MED5/MED15 and MED15/MED16 are synthetically lethal, indicating that Tail performs essential functions as a separate complex even when it is not bound to Middle and Head. We have used the N-Degron method to create temperature-sensitive (ts) mutants in the Mediator tail subunits Med5, Med15 and Med16 to study the immediate effects on global gene expression when each subunit is individually inactivated, and when Med5/15 or Med15/16 are inactivated together. We identify 25 genes in each double mutant that show a significant change in expression when compared to the corresponding single mutants and to the wild type strain. Importantly, 13 of the 25 identified genes are common for both double mutants. We also find that all strains in which MED15 is inactivated show down-regulation of genes that have been identified as targets for the Ace2 transcriptional activator protein, which is important for progression through the G1 phase of the cell cycle. Supporting this observation, we demonstrate that loss of Med15 leads to a G1 arrest phenotype. Collectively, these findings provide insight into the function of the Mediator Tail module. © 2013 Larsson et al.

Figures

  • Figure 1. Confirmation of expression and specific, induced degradation of the MED5, MED15 and MED16 Degron constructs. (A) Crude protein extracts isolated from the wild type strain and each of the med5, med15, and med16 Degron strains, grown at the permissive conditions (24uC/YPD/0.1 mM CuSO4), were separated on 10% SDSPAGE, transferred to PVDF membranes and blotted with a-Med5, aMed15 and a-Med16 antibodies, respectively. (B) Crude protein extracts were isolated from the wild type strain and each of the med5, med15 and med16 Degron strains at the permissive conditions (uninduced, u.i.) and 45 minutes after switching to the non-permissive growth conditions. The extracts were separated on 10% SDS-PAGE, transferred to PVDF membranes and blotted with anti c-myc antibodies (specific for the Degron-tag). (C) Specific degradation of Degron-tagged MED5. Crude protein extracts were isolated from the wild type strain, the med5 Degron strain, and the med15 Degron strain 45 minutes after switching to the restrictive growth conditions. Proteins were separated on 10% SDS-PAGE, transferred to PVDF-membranes and blotted with a-Med5 antibodies. doi:10.1371/journal.pone.0073137.g001
  • Figure 2. Double deletions of yeast MED5/MED15 and MED15/ MED16 are synthetically lethal. (A) The strains indicated to the left were plated as 10-fold serial dilutions, 5 ml spots at permissive conditions (24uC, Cu++, glucose) and restrictive conditions (37uC, no Cu++, galactose) respectively. (B) The strains indicated to the right were grown in liquid media, at restrictive conditions, for 24 hours. OD600 was measured at the indicated time points. OD600 at 0 hours was set to 1 and the other values where normalized against time = 0 min. The graphs represent the mean of two separate experiments. The graphs represent the mean of two separate experiments, and the error bars represent the standard deviation. doi:10.1371/journal.pone.0073137.g002
  • Table 1. Genes whose expression is changed 1.5-fold or more in the med5/med15 double Degron strain compared to either of the wild type, med5 or med 15 and in the med15/med16 double Degron strains compared to either of the wild type, med15 or med 16 strain grown at the restrictive conditions.
  • Figure 3. Transcription profile analysis using AffymetrixsYeast Genome 2.0 Array. 25 genes were differently regulated in both of the double-Degron strains (med5/med15 (A) and med15/med16 (B)), 45 minutes after induction of degradation, compared to the single Degron (med5, med15 and med16) and wild type (Wt) strains, as shown in the Venn diagrams (FDR,0.05 and FC.abs(log2(1.5)). doi:10.1371/journal.pone.0073137.g003
  • Table 2. Changes in expression levels of genes that are identified as target genes for the transcription factor Ace2 in the med5/ med15, med15/med16 and med15 Degron strains relative to wild type cells.
  • Figure 4. Confirmation of Ace2 target genes. mRNA levels of the genes CTS1, EXG1 and YHB1 from WT and Degron-strains were measured using qPCR and normalized against the WT level. qPCR levels are compared to the levels determined in the corresponding microarray assays. The experiments were performed in biological
  • Figure 5. Flow cytometry analyses of Degron constructs. DNA content of cells carrying the indicated Degron constructs was analyzed by flow cytometry at 3 hours after switching from the permissive to the restrictive growth conditions. Numbers below each histogram indicate the percentage of cells in the G1-, the S-, and the G2+M-phases, respectively. doi:10.1371/journal.pone.0073137.g005

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Larsson, M., Uvell, H., Sandström, J., Rydén, P., Selth, L. A., & Björklund, S. (2013). Functional Studies of the Yeast Med5, Med15 and Med16 Mediator Tail Subunits. PLoS ONE, 8(8). https://doi.org/10.1371/journal.pone.0073137

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