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result(s) for
"de Groot, Peter"
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High-Temperature-Induced Defects in Tomato (Solanum lycopersicum) Anther and Pollen Development Are Associated with Reduced Expression of B-Class Floral Patterning Genes
by
de Groot, Peter F. M.
,
Kristensen, Lieke
,
Jansma, Stuart Y.
in
Agricultural production
,
Analysis
,
Anthers
2016
Sexual reproduction is a critical process in the life-cycle of plants and very sensitive to environmental perturbations. To better understand the effect of high temperature on plant reproduction, we cultivated tomato (Solanum lycopersicum) plants in continuous mild heat. Under this condition we observed a simultaneous reduction in pollen viability and appearance of anthers with pistil-like structures, while in a more thermotolerant genotype, both traits were improved. Ectopic expression of two pistil-specific genes, TRANSMITTING TISSUE SPECIFIC and TOMATO AGAMOUS LIKE11, in the anthers confirmed that the anthers had gained partial pistil identity. Concomitantly, expression of the B-class genes TOMATO APETALA3, TOMATO MADS BOX GENE6 (TM6) and LePISTILLATA was reduced in anthers under continuous mild heat. Plants in which TM6 was partially silenced reacted hypersensitively to temperature elevation with regard to the frequency of pistilloid anthers, pollen viability and pollen quantity. Taken together, these results suggest that high-temperature-induced down-regulation of tomato B-class genes contributes to anther deformations and reduced male fertility. Improving our understanding of how temperature perturbs the molecular mechanisms of anther and pollen development will be important in the view of maintaining agricultural output under current climate changes.
Journal Article
A new multiplexed magnetic capture—Droplet digital PCR tool for monitoring wildlife population health and pathogen surveillance
by
Dyck, Markus
,
Sun, Zhengxin
,
V. C. de Groot, Peter
in
Animal health
,
Animal populations
,
Anthropogenic factors
2023
Anthropogenic stressors are exacerbating the emergence and spread of pathogens worldwide. In regions like the Arctic, where ecosystems are particularly susceptible, marked changes are predicted in regional diversity, intensity, and patterns of infectious diseases. To understand such rapidly changing host‐pathogen dynamics and mitigate the impacts of novel pathogens, we need sensitive disease surveillance tools. We developed and validated a novel multiplexed, magnetic capture, and ddPCR tool for the surveillance of multiple pathogens in polar bears, a sentinel species that is considered susceptible to climate change and other stressors with a pan‐Arctic distribution. Through sequence‐specific magnetic capture, we concentrated five target template sequences from three zoonotic bacteria (Erysipelothrix rhusiopathiae, Francisella tularensis, and Mycobacterium tuberculosis complex) and two parasitic (Toxoplasma gondii and Trichinella spp.) pathogens from large quantities (<100 g) of host tissue. We then designed and validated two multiplexed probe‐based ddPCR assays for the amplification and detection of the low‐concentration target DNA. Validations used 48 polar bear tissues (muscle and liver). We detected 14, 1, 3, 4, and 22 tissue positives for E. rhusiopathiae, F. tularensis, M. tuberculosis complex, T. gondii, and Trichinella spp., respectively. These multiplexed assays offer a rapid, specific tool for quantifying and monitoring the changing geographical and host distributions of pathogens relevant to human and animal health. Climate change is altering the distributions of many species, including pathogens and their hosts. We have developed new magnetic capture and multiplexed digital droplet PCR assays to detect the presence of three bacterial pathogens and two parasites in polar bear tissues from across the Canadian Arctic. We validate our assays and suggest how these new powerful assays can meaningfully contribute to community‐based monitoring of pathogens in polar bears and other wildlife.
Journal Article
The Meaning and Measure of Vertical Resolution in Optical Surface Topography Measurement
2017
Vertical resolution is the most widely quoted and most frequently misunderstood performance specification for equipment that measures surface topography. Here I propose to use internationally standardized terms and definitions for measurement noise and surface topography repeatability as more meaningful quantifiers for measurement performance. A specific example is an interference microscope operating with a 100 Hz, 1 k × 1 k pixel camera, and a sinusoidal phase modulation to convert intensity data to a height map. The measurement noise is found experimentally to be 0.072 nm for a 1 s data acquisition using a surface topography repeatability test, which determines the random height-equivalent noise level for an individual pixel in the areal surface topography map. Under ideal conditions, the measured noise is equivalent to the instrument noise that may be published in a performance specification in place of the more common, but poorly defined, vertical resolution specification.
Journal Article
Maternal influences on population dynamics: evidence from an exploited freshwater fish
by
Boag, Peter T.
,
Casselman, John M.
,
van Coeverden de Groot, Peter J.
in
adults
,
Age structure
,
Animal and plant ecology
2010
We used a field experiment, population modeling, and an analysis of 30 years of data from walleye (
Sander vitreus
; a freshwater fish) in Lake Erie to show that maternal influences on offspring survival can affect population dynamics. We first demonstrate experimentally that the survival of juvenile walleye increases with egg size (and, to a lesser degree, female energy reserves). Because egg size in this species tends to increase with maternal age, we then model these maternal influences on offspring survival as a function of maternal age to show that adult age structure can affect the maximum rate at which a population can produce new adults. Consistent with this hypothesis, we present empirical evidence that the maximum reproductive rate of an exploited population of walleye was approximately twice as high when older females were abundant as compared to when they were relatively scarce. Taken together, these results indicate that age- or size-based maternal influences on offspring survival can be an important mechanism driving population dynamics and that exploited populations could benefit from management strategies that protect, rather than target, reproductively valuable individuals.
Journal Article
Long-Term Mild Heat Causes Post-Mitotic Pollen Abortion Through a Local Effect on Flowers
2022
Crop reproductive success is significantly challenged by heatwaves, which are increasing in frequency and severity globally. Heat-induced male sterility is mainly due to aborted pollen development, but it is not clear whether this is through direct or systemic effects. Here, long-term mild heat (LTMH) treatment, mimicking a heatwave, was applied locally to tomato flowers or whole plants and followed up by cytological, transcriptomic, and biochemical analyses. By analyzing pollen viability, LTMH was shown to act directly on the flowers and not via effects on other plant tissue. The meiosis to early microspore stage of pollen development was the most sensitive to LTMH and 3 days of exposure around this period was sufficient to significantly reduce pollen viability at the flower anthesis stage. Extensive cytological analysis showed that abnormalities in pollen development could first be observed after pollen mitosis I, while no deviations in tapetum development were observed. Transcriptomic and biochemical analyses suggested that pollen development suffered from tapetal ER stress and that there was a limited role for oxidative stress. Our results provide the first evidence that heat acts directly on flowers to induce pollen sterility, and that the molecular-physiological responses of developing anthers to the LTMH are different from those to severe heat shock.
Journal Article
New Insights on Polar Bear (Ursus maritimus) Diet from Faeces based on Next-Generation Sequencing Technologies
2021
Practical tools to quantify range-wide dietary choices of the polar bear have not been well developed, thus impeding the monitoring of this species in a changing climate. Here we describe our steps toward non-invasive polar bear diet determination with the optimization of 454 pyrosequencing of a 136 base pair (bp) mitochondrial cytochrome b (cytb) fragment amplified from the extracts of captive and wild polar bear faeces. We first determine the efficacy, reliability, and accuracy of our method using five faecal samples from a captive polar bear fed a known diet at the Canadian Polar Bear Habitat in Cochrane, Ontario, Canada; 19 samples from three polar bears at the Metro Toronto Zoo, Toronto, Ontario, Canada; and seven samples from seven wild (unfed) polar bears from a holding facility in Churchill, Manitoba, Canada. We report 91% overall success in amplifying a 136 bp cytb amplicon from the faeces of polar bears. Our DNA analyses accurately recovered the vertebrate diet profiles of captive bears fed known diets. We then characterized multiyear vertebrate prey diet choices from free-ranging polar bears from the sea ice of the M’Clintock Channel polar bear management unit, Nunavut, Canada (n = 117 from an unknown number of bears). These data point to a diet unsurprisingly dominated by ringed seal (Pusa hispida) while including evidence of bearded seal (Erignathus barbatus), harbour seal (Phoca vitulina), muskox (Ovibos moschatus ssp.), Arctic fox (Vulpes lagopus), wolf (Canis lupus), Herring Gull (Larus argentatus), and Willow Ptarmigan (Lagopus lagopus). We found low levels of contamination (< 3% of sequences when present) and suggest specific process improvements to reduce contamination in range-wide studies. Together, these findings indicate that next-generation sequencing-based diet assessments show great promise in monitoring free-ranging polar bears in this time of climate change.
La réduction de la calotte glaciaire arctique suite au changement climatique risque d’avoir un effet direct sur la capacité des ours polaires à capturer les phoques, leurs principales sources de nourriture. Une surveillance précise des changements alimentaires des ours polaires s’avère ainsi essentielle pour mieux cerner l’impact des changements climatiques sur la survie de cette espèce. Nous détaillons dans cette étude, l’optimisation d’une méthode non invasive basée sur le séquençage de dernière génération (next generation sequencing - NGS) d’un fragment du gène mitochondrial cytochrome b (cytB) de 136 bp à partir de fèces d’ours polaires sauvages collectées en milieu naturel. Pour déterminer l’efficacité, la fiabilité et l’exactitude de notre méthode, nous avons analysé des fèces d›ours polaires en captivité dont le régime alimentaire était connu (Zoo Cochrane (n = 5), Toronto (Ontario, Canada) (n = 17) et des fèces d’ours polaires sauvages provenant de la ville de Churchill (Manitoba, Canada) (n= 7)) ainsi que de la région située au niveau du détroit de M’Clintock (Nunavut, Canada)(n= 117). Ces dernières fèces ont été analysées pour mieux cerner les choix alimentaires pluriannuels des ours polaires sauvages. Les profils alimentaires des ours captifs nourris avec des aliments connus ont été estimés avec précision et ont validé notre méthode. Notre étude sur les ours polaires sauvages du détroit de M’Clintock a révélé que même si le phoque annelé (Phoca hispidia) constituait la majorité de leur régime alimentaire, le phoque barbu (Erignathus barbatus), le phoque commun (Phoca vitulina), le boeuf musqué (Ovibos spp.), le renard arctique (Vulpes lagopus), le loup (Canis lupus), le goéland argenté (Larus argentatus) et le lagopède alpin (Lagopus lagopus) constituaient également des proies. Les risques de contaminations lors de l’utilisation de ces technologies NGS sont également discutés. De faibles degrés de contamination ont été observés (< 3 % des séquences lorsque la contamination était présente). Différentes stratégies sont proposées pour diminuer encore ces risques de contaminations. En conclusion notre étude démontre que les techniques de séquençage de dernière génération s’avèrent trés prometteuses pour l’étude de l’impact du changement climatique sur le régime alimentaire des ours polaires sauvages.
Journal Article
Non-invasive biomonitoring of polar bear feces can be used to estimate concentrations of metals of concern in traditional food
by
Langlois, Valérie S.
,
Branigan, Marsha
,
van Coeverden de Groot, Peter
in
Analysis
,
Animals
,
Aquatic mammals
2024
The Arctic faces increasing exposure to environmental chemicals such as metals, posing health risks to humans and wildlife. Biomonitoring of polar bears ( Ursus maritimus ) can be used to quantify chemicals in the environment and in traditional foods consumed by the Inuit. However, typically, these samples are collected through invasive or terminal methods. The biomonitoring of feces could be a useful alternative to the current metal monitoring method within the Arctic. Here, we aim to 1) quantify the relationship between concentrations of metals in the feces and tissues (muscle, liver, and fat) of polar bears using predictive modeling, 2) develop an easy-to-use conversion tool for use in community-based monitoring programs to non-invasively estimate contaminant concentrations in polar bears tissues and 3) demonstrate the application of these models by examining potential exposure risk for humans from consumption of polar bear muscle. Fecal, muscle, liver, and fat samples were harvested from 49 polar bears through a community-based monitoring program. The samples were analyzed for 32 metals. Exploratory analysis indicated that mean metal concentrations generally did not vary by age or sex, and many of the metals measured in feces were positively correlated with the internal tissue concentration. We developed predictive linear regression models between internal (muscle, liver, fat) and external (feces) metal concentrations and further explored the mercury and methylmercury relationships for utility risk screening. Using the cross-validated regression coefficients, we developed a conversion tool that contributes to the One Health approach by understanding the interrelated health of humans, wildlife, and the environment in the Arctic. The findings support using feces as a biomonitoring tool for assessing contaminants in polar bears. Further research is needed to validate the developed models for other regions in the Arctic and assess the impact of environmental weathering on fecal metal concentrations.
Journal Article
Canadian polar bear population structure using genome‐wide markers
by
Groot, Peter V. C.
,
Jensen, Evelyn L.
,
Branigan, Marsha
in
Animal populations
,
Aquatic mammals
,
Arctic
2020
Predicting the consequences of environmental changes, including human‐mediated climate change on species, requires that we quantify range‐wide patterns of genetic diversity and identify the ecological, environmental, and historical factors that have contributed to it. Here, we generate baseline data on polar bear population structure across most Canadian subpopulations (n = 358) using 13,488 genome‐wide single nucleotide polymorphisms (SNPs) identified with double‐digest restriction site‐associated DNA sequencing (ddRAD). Our ddRAD dataset showed three genetic clusters in the sampled Canadian range, congruent with previous studies based on microsatellites across the same regions; however, due to a lack of sampling in Norwegian Bay, we were unable to confirm the existence of a unique cluster in that subpopulation. These data on the genetic structure of polar bears using SNPs provide a detailed baseline against which future shifts in population structure can be assessed, and opportunities to develop new noninvasive tools for monitoring polar bears across their range. With ongoing rapid sea ice loss and environmental change in the Arctic, there is the potential for rapid changes in polar bear population structure. Here, we generated baseline data on polar bear population structure across 12 of 13 Canadian subpopulations using genome‐wide SNPs. These data on the genetic structure of polar bears using SNPs provide a detailed baseline against which future shifts in population structure can be assessed, and opportunities to develop new noninvasive tools for monitoring polar bears across their range.
Journal Article
Giant magnetic modulation of a planar, hybrid metamolecule resonance
by
Zheludev, Nikolay I
,
Bowden, Graham J
,
de Groot, Peter A J
in
78.67.Pt (Multilayers; superlattices, photonic structures, metamaterials)
,
84.40.Az (Waveguides, transmission lines, striplines)
,
Arrays
2014
Coupling magnetic elements to metamaterial structures creates hybrid metamolecules with new opportunities. Here we report on the magnetic control of a metamolecule resonance, by utilizing the interaction between a single split ring resonator (SRR) and a magnetic thin film of permalloy. To suppress eddy current shielding, the permalloy films are patterned into arrays of 30-500 m diameter discs. Strong hybridized resonances were observed at the anticrossing between the split ring resonance and the ferromagnetic resonance (FMR) of the permalloy. In particular, it is possible to achieve 40 dB modulation of the electric (symmetric) mode of the SRR on sweeping the applied magnetic field through the SRR FMR anticrossing. The results open the way to the design of planar metamaterials, with potential applications in nonlinear metamaterials, tunable metamaterials and spintronics.
Journal Article