A5040324996- Genomics and Chromatin Dynamics
- Bioinformatics and Genomic Networks
- Fungal and yeast genetics research
- Plant Stress Responses and Tolerance
- RNA Research and Splicing
- Plant responses to water stress
- Plant Molecular Biology Research
- Monoclonal and Polyclonal Antibodies Research
- Photosynthetic Processes and Mechanisms
- RNA modifications and cancer
- Gene Regulatory Network Analysis
- Antimicrobial Resistance in Staphylococcus
- Plant nutrient uptake and metabolism
- Gene expression and cancer classification
- RNA and protein synthesis mechanisms
- Chemical Synthesis and Analysis
- Algal biology and biofuel production
- Mass Spectrometry Techniques and Applications
- Glycosylation and Glycoproteins Research
- Bacterial biofilms and quorum sensing
- Autoimmune Bullous Skin Diseases
- Plant-Microbe Interactions and Immunity
- Click Chemistry and Applications
- Cancer-related gene regulation
- HIV Research and Treatment
University Medical Center Utrecht
2010-2022
Pepscan (Netherlands)
2013-2020
Princess Máxima Center
2019
Utrecht University
1998-2008
Agilent Technologies (United States)
2008
Hewlett-Packard (Netherlands)
2008
Rothamsted Research
2006
Swedish University of Agricultural Sciences
2004
Umeå Plant Science Centre
2004
Perception of general elicitors by plant cells initiates signal transduction cascades that are regulated protein phosphorylation. The earliest signaling events occur within minutes and include ion fluxes across the plasma membrane, activation MAPKs, formation reactive oxygen species. phosphorylation regulate these largely unknown. Here we present a mass spectrometry-based quantitative phosphoproteomics approach identified differentially phosphorylated sites in response proteins from...
Histone H3 di- and trimethylation on lysine 4 are major chromatin marks that correlate with active transcription. The influence of these modifications transcription itself is, however, poorly understood. We have investigated the roles H3K4 methylation in Saccharomyces cerevisiae by determining genome-wide expression-profiles mutants Set1 complex, COMPASS, lays down marks. Loss has virtually no effect steady-state or dynamically-changing mRNA levels. Combined loss tri- dimethylation results...
Complete submergence of flooding-tolerant Rumex palustris plants strongly stimulates petiole elongation. This escape response is initiated by the accumulation ethylene inside submerged tissue. In contrast, petioles flooding-intolerant acetosa do not increase their elongation rate under water even though also accumulates when they are submerged. Abscisic acid (ABA) was found to be a negative regulator enhanced growth in both species. R. palustris, accumulated stimulated inhibiting...
Rumex palustris responds to complete submergence with upward movement of the younger petioles. This so-called hyponastic response, in combination stimulated petiole elongation, brings leaf blade above water surface and restores contact atmosphere. We made a detailed study this differential growth process, encompassing range known signal transduction pathway: from cellular localization growth, hormonal regulation, possible involvement cell wall loosening protein (expansin) as downstream...
Summary The semi‐aquatic dicot Rumex palustris responds to complete submergence by enhanced elongation of young petioles. This petiole cells brings leaf blades above the water surface, thus reinstating gas exchange with atmosphere and increasing survival in flood‐prone environments. We already know that an internal level gaseous hormone ethylene is primary signal for underwater escape R. . Further downstream, concentration changes abscisic acid (ABA), gibberellin (GA) auxin are required gain...
Abstract Rumex palustris (polygonceae) responds to complete submergence with enhanced elongation of its youngest petioles. This process requires the presence gibberellin (GA) and is associated an increase in concentration GA1 elongating We have examined how GA biosynthesis was regulated submerged plants. Therefore, cDNAs encoding GA-biosynthetic enzymes 20-oxidase 3-oxidase, GA-deactivating enzyme 2-oxidase were cloned from R. kinetics transcription corresponding genes determined during a 24...
A possible function for the alternative (nonphosphorylating) pathway is to stabilize reduction state of ubiquinone pool (Qr/Qt), thereby avoiding an increase in free radical production. If Qr/Qt were stabilized by pathway, then should be less stable when blocked. increased we exposed roots Poa annua (L.) increasing concentrations KCN (an inhibitor cytochrome pathway). However, salicylhydroxamic acid, was added at same time, significantly more. Therefore, conclude that stabilizes Qr/Qt....
Abstract Ethylene induces enhanced differential growth in petioles of Arabidopsis (Arabidopsis thaliana), resulting an upward movement the leaf blades (hyponastic growth). The amplitude this effect differs between accessions, with Columbia-0 (Col-0) showing a large response, while Landsberg erecta (Ler), hyponastic is minimal. Abscisic acid (ABA) was found to act as inhibitory factor response both but relationship ethylene and ABA differed two; ability inhibit ethylene-induced hyponasty...
Protein phosphorylation may be the most widespread and possibly important post-translational modification (PTM). Considering such a claim, it should no surprise that huge efforts have been made to improve methods allow comprehensive study of cellular events. Nevertheless, identification sites protein is still challenge, best left experienced proteomics experts. Recent advances in HPLC chip manufacturing created an environment automation popular techniques bioanalytical world. One tool would...
The regulation of gene expression is, in large part, mediated by interplay between the general transcription factors (GTFs) that function to bring about many genes and site‐specific DNA‐binding (STFs). Here, quantitative genetic profiling using epistatic miniarray profile (E‐MAP) approach allowed us measure 48 391 pairwise interactions, both negative (aggravating) positive (alleviating), among encoding STFs GTFs Saccharomyces cerevisiae . This reconstruct regulatory models for specific...
Significance Mediator is a megadalton multisubunit molecular switchboard involved in gene regulation eukaryotes and structurally conserved between species. It bridges the general transcription machinery function-specific DNA binding proteins. plays dynamic role regulating wide range of processes, involving, for example, thyroid vitamin D receptors. The appears to be fine tuning activation repression expression many organisms, yet underlying mechanisms how its own function regulated remains...
ABSTRACT Experimental vaccine antigens based upon the HIV-1 envelope glycoproteins (Env) have failed to induce neutralizing antibodies (NAbs) against majority of circulating viral strains as a result antibody evasion mechanisms, including amino acid variability and conformational instability. A potential design strategy is stabilize Env, thereby focusing responses on constitutively exposed, conserved surfaces, such CD4 binding site (CD4bs). Here, we show that largely trimeric form soluble...
Generation of functional antibodies against integral membrane proteins such as the G-protein coupled receptor CXCR2 is technically challenging for several reasons, including limited epitope accessibility, requirement a lipid environment to maintain structure and their existence in dynamic conformational states. Antibodies human were generated by immunization vivo vitro selection methods. Whole cell transgenic mice screening phage display libraries using magnetic proteoliposomes resulted...
Genetic interactions, or non-additive effects between genes, play a crucial role in many cellular processes and disease. Which mechanisms underlie these genetic interactions has hardly been characterized. Understanding the molecular basis of is deciphering pathway organization understanding relationship genotype, phenotype disease.To investigate nature gene-specific transcription factors (GSTFs) Saccharomyces cerevisiae, we systematically analyzed 72 GSTF pairs by gene expression profiling...
The C-terminal domain (CTD) of RNA polymerase II (RNAPII) is composed heptapeptide repeats, which play a key regulatory role in gene expression. Using genetic interaction, chromatin immunoprecipitation followed by microarrays (ChIP-on-chip) and mRNA expression analysis, we found that truncating the CTD resulted distinct changes to cellular function. Truncating altered RNAPII occupancy, leading not only decreases, but also increases levels. latter were largely mediated promoter elements part...
The opportunistic pathogen Staphylococcus aureus has become a major threat for human health and well-being by developing resistance to antibiotics fast evolution into new lineages that rapidly spread within the healthy population. This calls development of active or passive immunization strategies prevent treat acute phase infections. Since no such anti-staphylococcal approaches are available clinical implementation, present studies were aimed at identifying leads their development. For this...