A key question in microbial ecology is what the driving forces behind the persistence of large biodiversity in natural environments are. We studied a microbial community with more than 100 different types of species which evolved in a 15-years old bioreactor with benzene as the main carbon and energy source and nitrate as the electron
Lab News
Abstract Microbial community profiling using high-throughput sequencing relies in part on the preservation of the DNA and the effectiveness of the DNA extraction method. This study aimed at understanding to what extent these parameters affect the profiling. We obtained samples treated with and without a preservation solution. Also, we compared DNA extraction kits from Qiagen
Abstract Fine-tuning cellular physiology in response to intracellular and environmental cues requires precise temporal and spatial control of gene expression. High-resolution imaging technologies to detect mRNAs and their translation state have revealed that all living organisms localize mRNAs in subcellular compartments and create translation hotspots, enabling cells to tune gene expression locally. Therefore, mRNA localization
Julius Battjes will work on the ZeroYeast project together with Chr Hansen, and make a proteome-constrained model of Pichia kluyveri with the aim to transfer knowledge from S cerevisiae to another industrial yeast.
When Bas Teusink and Douwe Molenaar came to the VU University, about a decade ago, they had just published a thought-provoking paper on how microbial physiology can result from optimal allocation of biosynthetic resources, such as ribosomes, RNA polymerases, amino acids, energy, etc., in order to maximise growth rate (https://doi.org/10.1038/msb.2009.82). Roughly at the same time,
Brett and Bas are co-authors on a new paper in Molecular Systems Biology describing the latest developments in model encoding in systems biology. Bas enthusiastically supports the use of standards in systems biology while Brett has been active in the SBML field for 15 years as a community member, specification writer, package coordinator (FBC), libSBML
Zoom Celebration at SysBioLab. Rinke has a tenure track position in Delft, Bas got a new project granted, and Frank published a massive paper in Current Biology together with Johan, all on the same (Mon)day. With such good news it is time to celebrate! Lets open the bottle (that will be delivered to you today)
Biphasic Cell-Size and Growth-Rate Homeostasis by Single Bacillus subtilis Cells Abstract The growth rate of single bacterial cells is continuously disturbed by random fluctuations in biosynthesis rates and by deterministic cell-cycle events, such as division, genome duplication, and septum formation. It is not understood whether, and how, bacteria reject these growth-rate disturbances. Here, we quantified
Growing cells in constant conditions at a fixed exponential growth rate in a shake flask — balanced growth — is arguably the most basic experiment in microbiology. We are so used to it that we sometimes forget to realise that this is not at all so obvious. Not only the average growth rate remains fixed,
Jurgen Haanstra and Bas Teusink collaborated with several research groups on interdisciplinary research combining wetlab experiments with computational models. Haanstra and Teusink collaborated with research groups in Gothenburg (Sweden), Groningen and Heidelberg (Germany). Their work on a quantitative analysis of amino acid metabolism in liver cancer, with Jurgen as co-first author, was just published in
Lab news
- Publication by Chrats: High biodiversity in a benzene-degrading nitrate-reducing culture is sustained by a few primary consumers.
- Article published by Paul : Effects of DNA preservation solution and DNA extraction methods on microbial community profiling of soil
- Nature review article by Evelina : Intracellular mRNA transport and localized translation.
- Welkom Julius
- We reviewed more than a decade of research on the search for principles of microbial physiology