Model organism proteomics and protein regulation
Protein level and protein activity are not solely determined by their respective mRNA levels, but regulation occurs also through regulation of mRNA transcription and stability, through different rates of translation, and through post-translational modifications influencing protein function, stability and localisation, as well as targeting to the proteasome and protein degradation. Our research is aimed at understanding how proteins, their levels and their activity are regulated, and how this is related to their function and their localisation inside the cell and the plant.
The main technology we are employing in our work is quantitative mass spectrometry and for comprehensive analysis of the proteome data we had developed the pep2pro database. The capacity of that database has been demonstrated with the genome-scale organ-specific proteome maps of Arabidopsis thaliana (available at www.pep2pro.ethz.ch) providing expression evidence for more than 50% of all predicted proteins and new datasets are continually added and made available through the pep2pro website in which we also provide a proteogenomic mapping of the peptides to the genome sequence.
- Quantitative proteomics
- Post-translational modifications
- Protein degradation
- Integrative analysis of different datasets
- Leaf growth
- Proteome databases
- Analysis of large-scale datasets
- Stress response