Web page: http://www.wur.nl/
6708 PB Wageningen
I am assistant professor at the Laboratory of Microbiology and my interest is in the area of molecular microbiology. Research focuses on the analysis of the metabolism of anaerobic fermentative bacteria and archaea, especially with respect to biofuel production (hydrogen, butanol). Within SysMo our tasks concern the effect of butanol stress, using metabolomics and transcriptomics.
Projects: HUMET Startup
Institutions: Wageningen University & Researchhttps://orcid.org/0000-0003-4488-7734
Dr. Sander Kersten received his PhD in Nutritional Biochemistry from Cornell University in 1997. After a postdoctoral stay in the laboratory of Dr. Walter Wahli at the University of Lausanne, Switzerland, he moved to Wageningen in 2000, initially as a fellow of the Royal Netherlands Academy of Arts and Sciences and later as Associate Professor. Since 2011 he is Full Professor in Molecular Nutrition and since 2014 chair of the Nutrition, Metabolism and Genomics group. His current research interests
Expertise: Clostridium, carbon metabolism, bacterial metabolism, Metabolic Engineering, Anaerobic Microbiology, Synthetic Biology, Clostridial Genetics, Systems Biology, Molecular Biology, Genetics, Microbiology
I'm an experimentalist 'Pre-doc' (I still have to finish my PhD thesis) and my work on the COSMIC project will focus on setting up a metabolomic analysis method for Clostridium acetobutylicum.
In the past I have worked on metabolic engineering of the same organism by disrupting genes to asses their impact on acid and solvent formation.
I'm looking forward to joining the COSMIC web-community. It hopefully will all us to stay in touch and update each other on advances in the (computer)lab.
Projects: PSYSMO, DigiSal, GenoSysFat, HUMET Startup, EmPowerPutida, MycoSynVac - Engineering Mycoplasma pneumoniae as a broad-spectrum animal vaccine, SAFE-Aqua, INDIE - Biotechnological production of sustainable indole
Roles: Project Coordinator
Tools: computational platform development, metabolic netwlrk visualization, reverse engineering, microbiology techniques, Metabolic Engineering, Computational Systems Biology, Microarray analysis, Fermentation, Proteomics, Genetic modification, Bioinformatics
My research activities has been to use mathematical models and Computational Biology to answer biological questions, intertwining in silico and experimental methods at all stages. I have a strong interest in exploring the interfaces between Fundamental Biology and bona fide Engineering, specifically in the realm of environmental and industrial problems. The research goals of my group are to contribute to the elucidation of mechanisms underlying basic cellular processes, evolution and ecological
Tools: Material balance based modeling, SQL, Mathematica, Matlab, Copasi, JWS Online, Linear equations, Algebraic equations, ODE, Partial differential equations, SBML, Metabolomics, Model organisms, Cell biology, Computational and theoretical biology, Molecular Biology
I'm a modeller, specialized in kinetic modeling of biochemical networks. My focus in the SysMO-LAB consortium is on creating models of Lactococcus lactis glycolysis and couple this to other related lactic acid bacteria like Streptococcus pyogenes and Enterococcus faecalis. Besides kinetic modeling, I'm also interested in combining various modeling techniques (genome-scale modeling, qualitative modeling).
This is a sandbox where DigiSal members can learn to use the SEEK.
Tutorial document: http://tinyurl.com/seek-ds17
The SEEK is a web interface to a database of research "assets" organised in a hierarchical "ISA structure" (investigation-study-assay) .
These are further organised into projects and programmes.
* Programme = Overarching research theme (The Digital Salmon)
* Project = Research grant (DigiSal, GenoSysFat)
* Investigation = a particular biological process, phenomenon or thing
Salmon farmed on modern feeds contains less of the healthy, long-chain fatty acids (EPA and DHA) than before. Up until the turn of the millennium, farmed salmon were fed fish oil as a replacement for their omega-3 rich natural prey. However, fish oil is now a scarce resource, and more than half of the fat in modern feeds comes from plant oils that are inexpensive, but devoid of long-chain omega-3 fatty acids. How can we increase the omega-3 content of salmon on sustainable feeds?
One option is
Towards the Digital Salmon: From a reactive to a pre-emptive research strategy in aquaculture (DigiSal)
Salmon farming in the future must navigate conflicting and shifting demands of sustainability, shifting feed prices, disease, and product quality. The industry needs to develop a flexible, integrated basis of knowledge for rapid response to new challenges. Project DigiSal will lay the foundations for a Digital Salmon: an ensemble of mathematical descriptions of salmon physiology, combining
Exploiting native endowments by re-factoring, re-programming and implementing novel control loops in Pseudomonas putida for bespoke biocatalysis. The EmPowerPutida project aims to engineer the lifestyle of Pseudomonas putida to generate a tailored, re-factored chassis for the production of so far non-accessible biological compounds. Pseudomonas putida is a bacterium with a highly versatile metabolism, including the capability to degrade or produce organic chemicals.
Our world is changing fast! Key global trends are rapid urbanisation, growing and ageing populations, and increased prosperity. This results in depletion of natural and petrochemical resources and climate change, which affects the quality of the environment and people's lives. Therefore, developing a bio-based economy is key to sustain our planet in the long term. Raw materials will have to be recruited from renewable sources.
Industrial biotechnology is potentially a very powerful technology in
Sustainable co-production is the short form of the research project “Tobacco as sustainable production platform of the natural biopolymer cyanophycin as co-product to oil and protein”. It combines plant and industrial biotechnology to increase the value of commercially grown tobacco with products that can sustainably substitute fossil raw materials. We aim to establish a new economically feasible production system for the biopolymer cyanophycin (CGP) as a by-product of tobacco without relevant
Programme: Era CoBioTech
Public web page: Not specified
Organisms: Not specified
SAFE-Aqua (SustainAble Farming for Effective Aquaculture) is an international consortium research project, consisting of a group of multidisciplinary experts from leading research institutes in France, UK, Thailand and a private-company in Spain.
The MycoSynVac project AIMS at using cutting-edge synthetic biology methodologies to engineer Mycoplasma pneumoniae as a universal chassis for vaccination.
Designing a universal Mycoplasma chassis that can be deployed as single- or multi-vaccine in a range of animal hosts. Annually, infections caused by Mycoplasma species in poultry, cows, and pigs result in multimillion Euro losses in the USA and Europe.
There is no effective vaccination against many Mycoplasmas that infect pets, humans and farm