A5000437533- Aquaculture disease management and microbiota
- Reproductive biology and impacts on aquatic species
- Aquaculture Nutrition and Growth
- Genomics and Phylogenetic Studies
- Alkaloids: synthesis and pharmacology
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Parasite Biology and Host Interactions
- Heat shock proteins research
- Identification and Quantification in Food
- Connexins and lens biology
- Fish Ecology and Management Studies
- Physiological and biochemical adaptations
- Molecular Biology Techniques and Applications
- Sperm and Testicular Function
- Zebrafish Biomedical Research Applications
- CRISPR and Genetic Engineering
- Insect symbiosis and bacterial influences
- interferon and immune responses
- Genetics, Aging, and Longevity in Model Organisms
- Berberine and alkaloids research
- Fish Biology and Ecology Studies
- Animal Genetics and Reproduction
- Invertebrate Immune Response Mechanisms
- Ichthyology and Marine Biology
- Phytochemical Studies and Bioactivities
Flevoziekenhuis
2024
ZF Screens (Netherlands)
2012-2024
Cancer Genomics Centre
2018-2024
Leiden University
2012-2016
Radboud University Nijmegen
1993-2011
Institute of Animal Physiology of the Slovak Academy of Sciences
2007
University of Wisconsin–Madison
2001
Significance Snake venoms are toxic protein cocktails used for prey capture. To investigate the evolution of these complex biological weapon systems, we sequenced genome a venomous snake, king cobra, and assessed composition venom gland expressed genes, small RNAs, secreted proteins. We show that regulatory components secretory system may have evolved from pancreatic origin toxin genes were co-opted by distinct genomic mechanisms. After co-option, important capture massively expanded gene...
The Madagascar periwinkle, Catharanthus roseus, belongs to the Apocynaceae family.This medicinal plant, endemic Madagascar, produces many important drugs including monoterpene indole alkaloids (MIA) vincristine and vinblastine used treat cancer worldwide.Here, we provide a new version of C. roseus genome sequence obtained through combination Oxford Nanopore Technologies long-reads Illumina short-reads.This more contiguous assembly consists 173 scaffolds with total length 581.128Mb an N50...
Accurate species phylogenies are a prerequisite for all evolutionary research. Teleosts the largest and most diversified group of extant vertebrates, but relationships among their three oldest lineages remain unresolved. On basis seven high-quality new genome assemblies in Elopomorpha (tarpons, eels), we revisited topology deepest branches teleost phylogeny using independent gene sequence chromosomal rearrangement phylogenomic approaches. These analyses converged to single scenario that...
The enigmatic life cycle and elongated body of the European eel (Anguilla anguilla L., 1758) have long motivated scientific enquiry. Recently, research has gained in urgency, as population dwindled to point critical endangerment. We assembled a draft genome order facilitate advances all provinces biology. Here, we use investigate eel's complement Hox developmental transcription factors. show that unlike any other teleost fish, retains fully populated, duplicate clusters, which originated at...
One-third of the world population is infected with Mycobacterium tuberculosis and multi-drug resistant strains are rapidly evolving. The noticeable absence a whole organism high-throughput screening system for studying progression fast becoming bottleneck in research. We successfully developed such using zebrafish marinum infection model, which well-characterized model biomedical significance, mimicking hallmarks human pathology. Importantly, we demonstrate suitability our to directly study...
We have sequenced the genome of endangered European eel using MinION by Oxford Nanopore, and assembled these data a novel algorithm specifically designed for large eukaryotic genomes. For this 860 Mbp genome, entire computational process takes two days on single CPU. The resulting assembly significantly improves previous draft based short reads only, both in terms contiguity (N50 1.2 Mbp) structural quality. This combination affordable nanopore sequencing light weight promises to make...
Several hypotheses explain the prevalence of undifferentiated sex chromosomes in poikilothermic vertebrates. Turnovers change master determination gene, chromosome or system (e.g. XY to WZ). Jumping genes stay main triggers but translocate other chromosomes. Occasional recombination sex-reversed females) prevents degeneration. Recent research has uncovered conserved heteromorphic even homomorphic several clades non-avian and non-mammalian Sex sturgeons (Acipenseridae) been a long-standing...
Abstract Monoterpene indole alkaloids (MIAs) are a structurally diverse family of specialized metabolites mainly produced in Gentianales to cope with environmental challenges. Due their pharmacological properties, the biosynthetic modalities several MIA types have been elucidated but not that yohimbanes. Here, we combine metabolomics, proteomics, transcriptomics and genome sequencing Rauvolfia tetraphylla machine learning discover unexpected multiple actors this natural product synthesis. We...
The Japanese eel is a much appreciated research object and very important for Asian aquaculture; however, its genomic resources are still limited. We have used streamlined bioinformatics pipeline the de novo assembly of genome sequence from raw Illumina reads. total assembled has size 1.15 Gbp, which divided over 323,776 scaffolds with an N50 52,849 bp, minimum scaffold 200 bp maximum 1.14 Mbp. Direct comparison representative set revealed that all Hox genes their intergenic distances almost...
The increasing use of zebrafish larvae for biomedical research applications is resulting in versatile models a variety human diseases. These exploit the optical transparency and availability large genetic tool box. Here we present detailed protocols robotic injection embryos at very high accuracy with speed up to 2000 per hour. are benchmarked several applications: (1) DNA obtaining transgenic animals, (2) antisense morpholinos that can be used gene knock-down, (3) microbes studying...
Research on common carp, Cyprinus carpio, is beneficial for zebrafish research because of resources available owing to its large body size, such as the availability sufficient organ material transcriptomics, proteomics, and metabolomics. Here we describe shot gun sequencing a clonal double-haploid carp line. The assembly consists 511891 scaffolds with an N50 17 kb, predicting total genome size 1.4–1.5 Gb. A detailed analysis ten largest indicates that has considerably lower repeat coverage...
BDNF contributes to the activity-dependent establishment and refinement of visual connectivity. In Xenopus , applications in optic tectum influence retinal ganglion cell (RGC) axon branching promote synapse formation stabilization. The expression patterns TrkB suggest that specifically regulates maturation RGC axons at target. It is possible, however, modulates retinotectal synaptic connectivity by differentially influencing presynaptic postsynaptic tectal cells. Here, we combined...
ABSTRACT The translational value of zebrafish high-throughput screens can be improved when more knowledge is available on uptake characteristics potential drugs. We investigated reference antibiotics and 15 preclinical compounds in a zebrafish-rodent screening system for tuberculosis. As major advance, we have developed new tool testing drug the model. This important, because despite many applications assessing efficacy research, current methods measuring using mass spectrometry do not take...
The common carp (Cyprinus carpio) is the oldest, most domesticated and one of cultured fish species for food consumption. Besides its economic importance, also highly suitable comparative physiological disease studies in combination with animal model zebrafish (Danio rerio). They are genetically closely related but offer complementary benefits fundamental research, large body mass presenting possibilities obtaining sufficient cell material advanced transcriptome proteome studies.Here we have...
Evasion of apoptosis is critical for the development and growth tumors. The pro-survival protein myeloid cell leukemia 1 (Mcl-1) an antiapoptotic member Bcl-2 family, associated with tumor aggressiveness, poor survival, drug resistance. Development Mcl-1 inhibitors implies blocking protein-protein interactions, generally requiring a lengthy optimization process large, complex molecules. Herein, we describe use DNA-encoded chemical library synthesis screening to directly generate complex, yet...
Lung epithelial permeability was measured in five normal, asthmatic, and smoking subjects by quantifying removal from the lung accumulation blood of an inhaled radiolabeled low-molecular-weight substance, technetium-99m-labeled diethyleneaminepentaacetate (99mTc-DTPA). Measurements on 2 control days were highly reproducible. Nonspecific bronchial responsiveness to histamine determined all a 3rd day, results expressed as provocation concentration producing fall forced expiratory volume 1 s...
Deorphanization of GPR54 receptor a decade ago led to the characterization kisspeptin (Kissr) in mammals and discovery its major role brain control reproduction. While single gene encodes for Kissr eutherian including human, other vertebrates present variable number genes, from none birds, one or two teleosts, three an amphibian, xenopus. In order get more insight into evolution family, we investigated presence osteichthyans key-phylogenetical positions: coelacanth, representative early...
Monogenean flatworms are the main fish ectoparasites inflicting serious economic losses in aquaculture. The polyopisthocotylean Sparicotyle chrysophrii parasitizes gills of gilthead sea bream (GSB, Sparus aurata) causing anaemia, lamellae fusion and sloughing epithelial cells, with consequent hypoxia, emaciation, lethargy mortality. Currently no preventive or curative measures against this disease exist therefore information on host-parasite interaction is crucial to find mitigation...
A longer on-land rearing period of Gilthead seabream Sparus aurata before transfer to sea-cages would allow the farmer benefit from exercise-enhanced growth, resilience, and robustness as induced by increasing water flow in tanks. In this study, physiological effects flow-conditioning were investigated subjecting large groups experimental fish minimal or regimes inducing swimming exercise at 1 2 body length (BL) s −1 for a 8 months (February–October) 1,500 L Fish representing three treatment...
Since its discovery in mammals as a key-hormone reproduction and metabolism, leptin has been identified an increasing number of tetrapods teleosts. Tetrapods possess only one gene, while most teleosts two genes, result the teleost third whole genome duplication event (3R). Leptin acts through specific receptor (LEPR). In European Japanese eels, we for first time vertebrates, LEPR genes. Synteny analyses indicated that eel LEPRa LEPRb from 3R. seems to have lost lineage shortly after...