A5010935061- Plant and animal studies
- Plant and Fungal Species Descriptions
- Plant Diversity and Evolution
- Plant Pathogens and Fungal Diseases
- Genomics and Phylogenetic Studies
- Identification and Quantification in Food
- Environmental DNA in Biodiversity Studies
- Plant Parasitism and Resistance
- Biological and pharmacological studies of plants
- Genetic diversity and population structure
- Plant Reproductive Biology
- Ecology and Vegetation Dynamics Studies
- Flowering Plant Growth and Cultivation
- Plant Taxonomy and Phylogenetics
- Botany, Ecology, and Taxonomy Studies
- Species Distribution and Climate Change
- Microbial Community Ecology and Physiology
- Plant Molecular Biology Research
- Wood and Agarwood Research
- Plant Physiology and Cultivation Studies
- Geology and Paleoclimatology Research
- Ecology and Conservation Studies
- Diatoms and Algae Research
- Plant Disease Resistance and Genetics
- Insect behavior and control techniques
Radboud University Nijmegen
2020-2025
Radboud Institute for Molecular Life Sciences
2021-2025
Radboud University Medical Center
2021-2025
Naturalis Biodiversity Center
2016-2025
Leiden University
2015-2024
Wageningen University & Research
2010-2022
University of Applied Sciences Leiden
2012-2021
KWR Water Research Institute
2020
University of Oslo
2019
Utrecht University
2019
Genetic variation in the tomato clade was explored by sequencing a selection of 84 accessions and related wild species representative for Lycopersicon, Arcanum, Eriopersicon, Neolycopersicon groups. We present reconstruction three new reference genomes support our comparative genome analyses. Sequence diversity commercial breeding lines appears extremely low, indicating dramatic genetic erosion crop tomatoes. This is reflected SNP count which can exceed 10 million i.e. 20 fold higher than...
Necklace orchids (Coelogyninae, Epidendroideae) have been used in traditional medicine practices for centuries. Previous studies on a subset of unrelated orchid species utilized these revealed they possessed antimicrobial, anti-inflammatory, and anti-oxidant activity, providing experimental proof their medicinal properties. To date however none investigated ethno-botanically phylogenetic context. This study carried out comparative bioprospecting group wild using EBDCS (the Economic Botany...
Abstract During the COVID-19 pandemic, Personal Protective Equipment (PPE) is massively used, resulting in a new wave of litter: protective face masks and gloves. Here we present first case fish entrapped medical glove, encountered during canal clean-up Leiden, The Netherlands. We also report cases birds using as nesting material, which were found Dutch canals. To place these findings context, collected online reported interactions animals with PPE litter, since start pandemic. This resulted...
Orchids constitute one of the most spectacular radiations flowering plants. However, their origin, spread across globe, and hotspots speciation remain uncertain due to lack an up-to-date phylogeographic analysis. We present a new Orchidaceae phylogeny based on combined high-throughput Sanger sequencing data, covering all five subfamilies, 17/22 tribes, 40/49 subtribes, 285/736 genera, c. 7% (1921) 29 524 accepted species, use it infer geographic range evolution, diversity, patterns by adding...
Epiphytes are a characteristic component of tropical rainforests. Out the 25,000 orchid species currently known to science, more than 70% live in tree canopies. Understanding when and how these orchids diversified is vital understanding history epiphytic biomes. We investigated whether managed radiate so explosively owing their predominantly habit and/or specialized pollinator systems by testing hypotheses from statistical phylogenetic standpoint. For first approach, numbers 100 randomly...
Invasive individuals from the pest species Jacobaea vulgaris show different allocation patterns in defence and growth compared with native individuals. To examine if these changes are caused by fast evolution, it is necessary to identify source populations compare invasive populations. For this purpose, we need of intraspecific polymorphic markers. We therefore sequenced complete chloroplast genomes 12 5 J. next generation sequencing discovered single-nucleotide polymorphisms (SNPs)...
Herbarium genomics is proving promising as next-generation sequencing approaches are well suited to deal with the usually fragmented nature of archival DNA. We show that routine assembly partial plastome sequences from herbarium specimens feasible, total DNA extracts and up 146 years old. use genome skimming an automated pipeline, Iterative Organelle Genome Assembly, assembles paired-end reads into a series candidate assemblies, best one which selected based on likelihood estimation. used 93...
Abstract Background Wild orchids are illegally harvested and traded in Nepal for use local traditional medicine, horticulture, international trade. This study aims to: 1) identify the diversity of species wild trade Nepal; 2) chain commercialization from collector to client and/or export; 3) map knowledge medicinal orchids; 4) integrate collected data propose a more sustainable approach orchid conservation Nepal. Methods Trade, diversity, wild-harvested were documented during field surveys...
Part of a large male woolly mammoth ( Mammuthus primigenius ) was preserved in permafrost northern Yakutia. It radiocarbon dated to ca. 18,500 14 C yr BP (ca. 22,500 cal BP). Dung from the lower intestine subjected multiproxy array microscopic, chemical, and molecular techniques reconstruct diet, season death, paleoenvironment. Pollen plant macro-remains showed that grasses sedges were main food, with considerable amounts dwarf willow twigs variety herbs mosses. Analyses 110-bp fragments...
Western European coastal sand dunes are highly important for nature conservation. Communities of the creeping willow (Salix repens) represent one most characteristic and diverse vegetation types in dunes. We report here results first kingdom-wide fungal diversity assessment S. repens dune vegetation. carried out massively parallel pyrosequencing ITS rDNA from soil samples taken at ten sites an extended area joined reserves located along North Sea coast Netherlands, representing habitats with...
Whole genome duplication (WGD) events are common in many plant lineages, but the ploidy status and possible occurrence of intraspecific variation is unknown for most species. Standard methods determination chromosome counting flow cytometry approaches. While approaches typically use fresh tissue, an increasing number studies have shown that recently dried specimens can be used to yield data. Recent started explore whether high-throughput sequencing (HTS) data assess levels by analysing...
PREMISE The inference of evolutionary relationships in the species‐rich family Orchidaceae has hitherto relied heavily on plastid DNA sequences and limited taxon sampling. Previous studies have provided a robust phylogenetic framework, which was used to classify orchids investigate drivers orchid diversification. However, extent based genome is congruent with nuclear been only poorly assessed. METHODS We inferred higher‐level likelihood ASTRAL analyses 294 low‐copy genes sequenced using...
The molecular phylogeny of Senecio sect. Jacobaea (Asteraceae; Senecioneae) was studied to clarify species composition and interspecific relationships Jacobaea. This information is necessary for studies seeking explanations the evolutionary success Senecio, in terms high numbers evolution chemical defense mechanisms. Parsimony analyses with 60 tribe Senecioneae, representing 23 genera 11 sections based on DNA sequence data plastid genome (the trnT-L intergenic spacer, trnL intron, two parts...
The tribe Miliuseae (Annonaceae) comprises six genera distributed in Asia: Alphonsea , Mezzettia Miliusa Orophea Platymitra and Phoenicanthus . A phylogenetic study to investigate the putative monophyly of intergeneric relationships is presented here. Nucleotide sequences plastid gene rbcL, trnL intron, ‐ trnF intergenic spacer were analyzed from 114 Annonaceae taxa, including 24 species two outgroups using maximum parsimony Bayesian inference. data sets ( rbcL regions) separately...
Abstract In several eastern Mediterranean countries orchids are collected from the wild for production of salep, a beverage made dried orchid tubers. The drivers this collection and trade have changed over time. We investigated which genera species harvested salep production, whether any cultivation takes place, chain commercialization, economic value tuber collection. Fieldwork interviews in north-western Greece included 25 collectors street vendors, owners two companies, one herbal shop....
In eastern Mediterranean countries orchids continue to be collected from the wild for production of salep, a beverage made dried orchid tubers. this study we used nrITS1 and nrITS2 DNA metabarcoding identify other plant species present in 55 commercial salep products purchased Iran, Turkey, Greece Germany. Thirty samples yielded total 161 taxa, 13 (43%) contained these belonged 10 terrestrial with tuberous roots. Another 70% substitute ingredient Cyamopsis tetraganoloba (Guar). using...
Background and Aims Partially mycoheterotrophic plants are enriched in 13C 15N compared to autotrophic plants. Here, it is hypothesized that the type of mycorrhizal fungi found orchid roots responsible for variation enrichment leaf tissue partially orchids. Methods The genus Epipactis was used as a case study carbon nitrogen isotope abundances eight species, fungal sporocarps four Tuber species references were measured. Mycorrhizal identified using molecular methods. Stable data six...
We developed a target enrichment panel for phylogenomic studies of Dioscorea, an economically important genus with incompletely resolved relationships.Our bait comprises 260 low- to single-copy nuclear genes targeted work in assessed here using preliminary taxon sampling that includes both distantly and closely related taxa, including several yam crops potential crop wild relatives. applied coalescent-based maximum likelihood inference approaches the pilot set, incorporating new published...
Airborne pollen monitoring is of global socio-economic importance as it provides information on presence and prevalence allergenic in ambient air. Traditionally, this task has been performed by microscopic investigation, but novel techniques are being developed to automate process. Among these, DNA metabarcoding the highest potential increasing taxonomic resolution, uncertainty exists about whether results can be used quantify abundance. In study, shown that using trnL nrITS2 highly improved...