Background and current projects
I am a PhD student in the group of prof. dr. Frank Bruggeman, as part of the Systems Bioinformatics group of the Teusink lab. At the VU, I obtained my bachelor in Biology in 2009 and my master in Biomolecular Sciences in 2012, with specializations in Systems Biology and Cell Biology.
I am currently working on the VIDI project of Bruggeman that focusses on the link between molecular interactions and evolutionary fitness using E. coli as a model organism. As the specific growth rate (i.e. fitness) of a microorganism depends on the identity and level of expressed proteins, it is important for cells to balance the costs and benefits of protein production (see for example Berkhout et al, Genetics, 2013). In this project, we will explore several aspects of this phenomenon: How does fitness depend on costs and benefits of proteins? Does the optimal expression level vary across environments? Is wildtype E. coli always able to reach this optimal level?
In addition I am working on experimental evolution of high yield phenotypes of L. lactis and E. coli, through the use of a novel emulsion culturing method developed by Bachmann et al (PNAS, 2013). What metabolic changes lead to an increase in biomass yield? And which mutations underlie these changes? Does the yield/rate trade-off exist?
Through a combination of modeling and experiments, we hope to shed new light on these questions.
Attended conferences and courses
Supervision of students
|Tim van Wagensveld||BSc.||March 2013 - June 2013||Experimental evolution of increased efficiency through serial propagation in emulsion|
|Marit Hoffmeyer (together with Anne Schwabe)||MSc.||August 2013 - December 2013||Does E. coli express its H+-ATPase to an optimal level?|
|Wouter W. Woud||MSc.||September 2013 - March 2014||Experimental evolution of increased efficiency through serial propagation in emulsion|
|Rebeca Alba||BSc.||January 2014 - June 2014||Does E. coli express its H+-ATPase to an optimal level?|
|Emmeline Malari (together with Anne Schwabe)||BSc.||March 2014 - June 2014||Why is the electron transport chain of E. coli branched?|
|Mirella Kalafati||MSc.||August 2014 - December 2014||Construction of a promoter library in E. coli|
|Azize Buyuk||BSc.||October 2014 - May 2015||Does E. coli express its H+-ATPase to an optimal level?|
Supervision of practicals in courses
Vrije Universiteit Amsterdam
room O|2 01W57
De Boelelaan 1108
1081 HZ Amsterdam