Limits...
Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.

Vaga S, Bernardo-Faura M, Cokelaer T, Maiolica A, Barnes CA, Gillet LC, Hegemann B, van Drogen F, Sharifian H, Klipp E, Peter M, Saez-Rodriguez J, Aebersold R - Mol. Syst. Biol. (2014)

Bottom Line: We observed a pheromone-induced down-regulation of Hog1 phosphorylation due to Gpd1, Ste20, Ptp2, Pbs2, and Ptc1.Distinct Ste20 and Pbs2 phosphosites responded differently to the two stimuli, suggesting these proteins as key mediators of the information exchange.Our results show that the integration of the response to different stimuli requires complex interconnections between signaling pathways.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Institute of Molecular Systems Biology ETH Zürich, Zürich, Switzerland.

No MeSH data available.


Related in: MedlinePlus

Quantification of the NaCl- and the pheromone-induced influence on each phosphopeptide
© Copyright Policy - open-access
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4300490&req=5

fig06: Quantification of the NaCl- and the pheromone-induced influence on each phosphopeptide

Mentions: To better understand how and to what extent each stimulus affected each specific P-pep both within the known pathways and from the opposite stimulus, we computed the specificity for each stimulus and each peptide (Schaber et al, 2006). In this context, the term specificity is defined as the ratio between the response of a P-pep to Stimulus_1 alone (i.e. the time-resolved dynamic of a P-pep when only Stimulus_1 is being applied) and the response of the same P-pep to the combination of Stimulus_1 and Stimulus_2. A specificity ratio below 1 indicates that Stimulus_2 amplifies the effect of Stimulus_1. A ratio above 1 indicates that Stimulus_2 inhibits the effect of Stimulus_1. If the ratio is around 1, then Stimulus_2 has no significant influence on the effect of Stimulus_1 (Fig6A). For each P-pep, we therefore computed two specificity matrixes, one for each stimulus (Fig6B.1). We then collapsed the specificity matrixes by computing the averages of the specificity measures column-wise, thus obtaining 2 specificity vectors for each stimulus (Fig6B.2). The specificity for NaCl (S_NaCl) measures the effect of NaCl over a pheromone-induced response, while the specificity for pheromone (S_Phe) measures the effect of pheromone over a NaCl-induced response. As specificity vectors retain the main information provided by the specificity matrices, we chose to report all the most significant results in Fig6C as specificity vectors, while all specificity matrices are reported in Supplementary Table S3.


Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.

Vaga S, Bernardo-Faura M, Cokelaer T, Maiolica A, Barnes CA, Gillet LC, Hegemann B, van Drogen F, Sharifian H, Klipp E, Peter M, Saez-Rodriguez J, Aebersold R - Mol. Syst. Biol. (2014)

Quantification of the NaCl- and the pheromone-induced influence on each phosphopeptide
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4300490&req=5

fig06: Quantification of the NaCl- and the pheromone-induced influence on each phosphopeptide
Mentions: To better understand how and to what extent each stimulus affected each specific P-pep both within the known pathways and from the opposite stimulus, we computed the specificity for each stimulus and each peptide (Schaber et al, 2006). In this context, the term specificity is defined as the ratio between the response of a P-pep to Stimulus_1 alone (i.e. the time-resolved dynamic of a P-pep when only Stimulus_1 is being applied) and the response of the same P-pep to the combination of Stimulus_1 and Stimulus_2. A specificity ratio below 1 indicates that Stimulus_2 amplifies the effect of Stimulus_1. A ratio above 1 indicates that Stimulus_2 inhibits the effect of Stimulus_1. If the ratio is around 1, then Stimulus_2 has no significant influence on the effect of Stimulus_1 (Fig6A). For each P-pep, we therefore computed two specificity matrixes, one for each stimulus (Fig6B.1). We then collapsed the specificity matrixes by computing the averages of the specificity measures column-wise, thus obtaining 2 specificity vectors for each stimulus (Fig6B.2). The specificity for NaCl (S_NaCl) measures the effect of NaCl over a pheromone-induced response, while the specificity for pheromone (S_Phe) measures the effect of pheromone over a NaCl-induced response. As specificity vectors retain the main information provided by the specificity matrices, we chose to report all the most significant results in Fig6C as specificity vectors, while all specificity matrices are reported in Supplementary Table S3.

Bottom Line: We observed a pheromone-induced down-regulation of Hog1 phosphorylation due to Gpd1, Ste20, Ptp2, Pbs2, and Ptc1.Distinct Ste20 and Pbs2 phosphosites responded differently to the two stimuli, suggesting these proteins as key mediators of the information exchange.Our results show that the integration of the response to different stimuli requires complex interconnections between signaling pathways.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Institute of Molecular Systems Biology ETH Zürich, Zürich, Switzerland.

No MeSH data available.


Related in: MedlinePlus