Lab News

Iraes Rabbers got her first 1st author paper

Iraes wrote a very concise and clear review on Metabolism at Evolutionary Optimal States Abstract Metabolism is generally required for cellular maintenance and for the generation of offspring under conditions that support growth. The rates, yields (efficiencies), adaptation time and robustness of metabolism are therefore key determinants of cellular fitness. For biotechnological applications and our

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New paper out by Jurgen Haanstra

Biogenesis, maintenance and dynamics of glycosomes in trypanosomatid parasites Highlights • Glycosomes are specialized peroxisomes in protists of the taxon Kinetoplastea • Glycosomes compartmentalize enzymes of glycolysis and some other metabolic processes • Compartmentation compensates for a lack of feedback regulation of glycolytic enzymes • Glycosome turnover and dynamics play important roles in remodelling of

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We produced a success story in Systems Biology

The ISBE consortium, an ESFRI roadmap initiative for an Infrastructure for Systems Biology Europe has produced a booklet with success stories of Systems Biology applications. Work from our group is being described. See http://issuu.com/systemsbiologyireland/docs/isbe_case_studies_full_final_july15

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Success with grant proposals: vacancies!

Our lab has been rather successful lately with grants. Frank obtained a new EraSysApp grant for yeast systems biology (PD for 2 years), Bas got a STW proposal funded (1 PhD still open) for developing methods to select for product yield using our water-in-oil emulsion system (see Bachmann PNAS 2013). Bas is still looking for a

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Coco van Boxtel wins STAR PhD project

Coco van Boxtel wins the NWO-STAR Master student competition (together with three others) for her proposal on scheduling antibiotic drugs to fight microbial infections. STAR is an initiative of NWO, the Dutch funding agency, from which our Institute (AIMMS) obtained a grant to support 4 PhD projects on antimicrobial research.

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Visit to Eric van Nimwegen in Basel

four of us (Frank, Bas, Johan and Coco) have visited the lab of Eric van Nimwegen in Basel to see the “Mother Machine” in action and to discuss single-cell growth, regulation of gene expression and many more things. Very useful and enjoyable!

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A new paper by us about metabolic optimality!

In this PLoS Comp Bio paper, we study how metabolic constraints and optimisation objectives influence optimal states of metabolism and how those optimal states can be expressed in terms of metabolic routes. Optimal states are often represented by optimal-solution spaces, which are mathematical objects that cannot be readily interpreted. We express such solution spaces in terms of

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Evert Bosdriesz defended his thesis with success

On April the 13th, Evert defended his thesis in front of a committee with Ron Milo for Weizmann, Jack Pronk from TU Delft, Lodewijk Wessels from NKI, Pieter Rein Tenwolde from Amolf, Joost Teixeira de Mattos from the Univ of Amsterdam, and Hans Westerhoff from VU, UvA and Univ of Manchester. Douwe and Frank were

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Titisee conference on metabolisme and disease was a great success

Bas was invited at this  rather exclusive -by invitation only- meeting of about 60 PIs and explained the role of heterogeneity and dynamics in metabolism. It was very well received, even though the work was about yeast.

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The lab has already had a productive 2015

Curious which papers the lab produced? Try this pubmed query. You will find our new work on: Integrative Omics analysis of L lactis at different growth rates in the chemostat Microbial community modelling Solution spaces of genome-scale models Optimality principles of nutrient-uptake and growth rate Single-cell measurement of single RNA molecules  

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