Plant associate projects

The plant associate partner for NMC is the Centre for Biosystems Genomics (CBSG). CBSG was established in 2003 and has a strong focus on two crops: tomato and potato. 

The Plant Associate (PA) theme within the NMC program, involves two research projects financed by NMC. The first project started in  2008 and deals with high-level data fusion and statistical modelling of data sets of various origins, including metabolomics. The extensive data sets used by this project all originate from the CBSG tomato fruit quality cluster, in which a large series of 94 tomato cultivars was screened over a three year period for variation in both phenotypic traits, fruit metabolite composition and genetic variation. The main aim of this tomato research is to elucidate which metabolites and related biosynthetic pathways determine tomato fruit sensory quality and to identify genetic loci underlying differential fruit quality characteristics. It has delivered a new protocol to statistically determine the amount of redundancy and supplementary information derived from different metabolite profiling platforms, and to pinpoint those metabolites that are the key to a specific sensory trait. In addition, methods have been developed that can statistically link these key metabolites to genetic markers used in marker-assisted plant breeding. The second project will start in 2011 and will be focussed upon plant-microbe interactions and developing bioinformatics tools, specifically related to plant metabolomics and plant metabolite databases. 

Theme leader

Profile picture of Ric de Vos
Ric de Vos
Organisation:
Netherlands Metabolomics Centre

E-mail
ric.devos@wur.nl
Ric de Vos
A Role for Differential Glycoconjugation in the Emission of Phenylpropanoid Volatiles from Tomato Fruit Discovered Using a Metabolic Data Fusion Approach
Accurate mass error correction in liquid chromatography time-of-flight mass spectrometry based metabolomics
Antioxidants, Phenolic Compounds, and Nutritional Quality of Different Strawberry Genotypes
Automated procedure for candidate compound selection in GC-MS metabolomics based on prediction of Kovats retention index
Bayesian Markov Random Field Analysis for Protein Function Prediction Based on Network Data
Biochemical and Molecular Analysis of Pink Tomatoes: Deregulated Expression of the Gene Encoding Transcription Factor S1MYB12 Leads to Pink Tomato Fruit Color
Biology of plant metabolomics.
Boosting beneficial phytochemicals in vegetable crop plants
Bootstrap Confidence Intervals for Principal Response Curves
C3?H Isolation and mapping of a C3'H gene (CYP98A49) from globe artichoke, and its expression upon UV-C stress.
Carotenoid and Fatty Acid Metabolism in Light-Stressed Dunaliella salina
Changes in Antioxidant and Metabolite Profiles during Production of Tomato Paste
Characterization of rhamnosidases from Lactobacillus plantarum and Lactobacillus acidophilus
Coffee chemometrics as a new concept: Untargeted metabolic profiling of coffee
Crops and tasty, nutrtious food-How can metabolomics help?
Developmental, genetic and environmental factors affect the expression of flavonoid genes, enzymes and metabolites in strawberry fruits
Enrichment of tomato fruit with health-promoting anthocyanins by expression of select transcription factors
Exploring and exploiting carotenoid accumulation in Dunaliella salina for cell-factory applications
Extensive metabolic cross-talk in melon fruit revealed by spatial and developmental combinatorial metabolomics
Flavour metabolomics - Holistic versus targeted profiling in flavour research
From QTL to candidate gene: Genetical genomics of simple and complex traits in potato using a pooling strategy
Fruit-Surface Flavonoid Accumulation in Tomato Is Controlled by a SlMYB12-Regulated Transcriptional Network
Gene Regulatory Networks from Multifactorial Perturbations Using Graphical Lasso: Application to the DREAM4 Challenge
Genome-wide computational function prediction of Arabidopsis thaliana proteins by integration of multiple data sources.
Identification of a quality marker of the fermented off-note in coffee by a non-targeted chemometric approach
Measuring plant volatiles.
Metabolomic and genetic analyses of flavonol synthesis in Arabidopsis thaliana support the in vivo involvement of leucoanthocyanidin dioxygenase
More than a grain of rice: the quest for quality
Plant Metabolomics and its potential for human nutrition
Plant metabolomics and its potential for human nutrition
Plant metabolomics applications in the Brassicaceae: added value for science and industry
Plant metabolomics, Methods and Protocols
Plant molecular stress responses face climate change
Predicting and understanding transcription factor interactions based on sequence level determinants of combinatorial control
Predicting sub-Golgi localization of type ii membrane proteins
Procyanidins in fruit from Sour cherry (Prunus cerasus) differ strongly in chainlength from those in Laurel cherry (Prunus lauracerasus) and Cornelian cherry (Cornus mas)
Production of novel antioxidative phenolic amides through heterologous expression of the plant's chlorogenic acid biosynthesis genes in yeast
Production of novel antioxidative phenolic amides through heterologous expression of the plant?s chlorogenic acid biosynthesis genes in yeast
Regression by L1 regularization of smart contrasts and sums (ROSCAS) beats PLS and elastic net in latent variable model
Strategies to optimise the flavonoid content of tomato fruit
Stress-induced biosynthesis of dicaffeoylquinic acids in globe artichoke
System-wide molecular evidence for phenotypic buffering in Arabidopsis
The Effect of Industrial Food Processing on Potentially Health-Beneficial Tomato Antioxidants
The impact of the absence of aliphatic glucosinolates on insect herbivory in Arabidopsis.
Tomato strigolactones are derived from carotenoids and their biosynthesis is promoted by phosphate starvation