Supplementary Materials

Supplementary Materials for:

Phosphoproteomic analysis identifies proteins involved in transcriptioncoupled mRNA decay as targets of Snf1 signaling

Katherine A. Braun, Stefania Vaga, Kenneth M. Dombek, Fang Fang, Salvator Palmisano, Ruedi Aebersold, Elton T. Young*

*Corresponding author. E-mail: ety@uw.edu

This PDF file includes:

  • Fig. S1. Experimental design of Snf1 phosphoproteomics study.
  • Fig. S2. Comparison of phosphopeptides increased by glucose depletion and decreased by inhibition of Snf1as.
  • Fig. S3. Summary of phosphoproteomics data for known Snf1-substrate proteins.
  • Fig. S4. Comparison of the Snf1-dependent phosphoproteome and transcriptome.
  • Fig. S5. Groups of consensus sequences identified by MDDLogo.
  • Fig. S6. Glucose-induced ADH2 mRNA decay in yeast with deletions of genes involved in mRNA metabolism.
  • Fig. S7. Snf1-dependent transcript abundance and decay in the absence of Xrn1 activity.
  • Fig. S8. Snf1 activation in vivo in xrn1Δ yeast and Snf1 kinase activity in xrn1Δ extracts.
  • Fig. S9. Comparison of Snf1-dependent phosphorylated proteins to published Snf1-dependent phosphoproteomics data sets.
  • Fig. S10. Comparison of Snf1-dependent phosphorylated proteins to published Snf1-dependent phosphoproteomics data sets.
  • Fig. S11. Comparison of Snf1-dependent phosphorylated proteins to published Snf1-dependent phosphoproteomics data sets.
  • Fig. S12. Comparison of Snf1-dependent phosphorylated proteins to published Snf1-dependent phosphoproteomics data sets.
  • Fig. S13. Comparison of Snf1-dependent phosphorylated proteins to published Snf1-dependent phosphoproteomics data sets.
  • Fig. S14. Metabolic, cell signaling, and other pathways containing multiple Snf1-dependent phosphoproteins.
  • Table S5. Abundance of Snf1-target genes in yeast with deletions of genes involved in mRNA metabolism.
  • Table S6. Yeast strains used in this study.
  • Table S7. Plasmids used in this study.
  • Table S8. qPCR primers used in this study.

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Other Supplementary Material for this manuscript includes the following:

  • Table S1 (Microsoft Excel format). Phosphopeptide abundance in snf1 mutant yeast and Snf1as yeast exposed to 2NM-PP1 for 30 min.
  • Table S2 (Microsoft Excel format). Summary of the characteristics of Snf1-dependent phosphorylated proteins.
  • Table S3 (Microsoft Excel format). Time course of phosphopeptide abundance in Snf1as yeast during glucose depletion and exposure to 2NM-PP1.
  • Table S4 (Microsoft Excel format). GO categories of Snf1-dependent phosphorylated proteins.
  • File S1 (.PDF format) Graphs of the abundances of Snf1-dependent phosphopeptides.

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Citation: K. A. Braun, S. Vaga, K. M. Dombek, F. Fang, S. Palmisano, R. Aebersold, E. T. Young, Phosphoproteomic analysis identifies proteins involved in transcriptioncoupled mRNA decay as targets of Snf1 signaling. Sci. Signal. 7, ra64 (2014).

© 2014 American Association for the Advancement of Science