A genome-wide view of posttranscriptional processes
A typical yeast cell contains around 40,000 molecules of messenger RNA (mRNA), whereas a typical mammalian cell more than 100,000. All these mRNAs need to be processed, exported to the nucleus to the cytoplasm, translated, and eventually degraded. This means that even in a simple eukaryotic cell - such as yeast – there are thousands of posttranscriptional events taking place simultaneously at any given time. We are interested in how these posttranscriptional events are coordinated with each other and with transcriptional control.
We use the fission yeast Schizosaccharomyces pombe to study these questions, and address them with state-of-the-art genomic methods, classical and molecular genetics, and cell biological approaches. There are available projects in the areas of the ’peptidome’ of fission yeast and genome-wide translational control. We are studying translation using both single-gene approaches as well as genome-wide methods (such as RNA-seq ribosome profiling). A PhD project could involve a combination of both approaches to study translational control in response to environmental signals.
Our current model system is fission yeast, but we are starting to use the apicomplexan parasite Toxoplasma for our experiments. Both model systems would be available for PhD projects.
I am a member of the BBSRC DTP Programme (View Website), which offers fully-funded fellowships. Other competitive studentships may be available. Self-funded students will also be considered.
1. Duncan C, Rodriguez-Lopez M, Ruis P, Bahler J and Mata J (2018) General amino acid control in fission yeast is regulated by a nonconserved transcription factor, with functions analogous to Gcn4/Atf4. PNAS doi:10.1073/pnas.1713991115
2. Duncan C and Mata J (2017) Effects of cycloheximide on the interpretation of ribosome profiling experiments in Schizosaccharomyces pombe. Scientific reports 7:10331
3. Hasan A, Cotobal C, Duncan C and Mata J (2014) Systematic analysis of the role of RNA-binding proteins in the regulation of RNA stability. PLoS Genet 10 (11): e1004684
4. Duncan C and Mata J (2014) The translational landscape of fission yeast meiosis and sporulation. Nat Mol Struct Biol doi:10.1038/nsmb.2843
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FTE Category A staff submitted: 189.63
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