Find research datasets worth reusing

Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.

223

datasets available to search

ShareScore release 0.7.1

Dataset results

223 results for “Danio rerio”

Learn how ShareScore rates datasets ↗

dryad32/100

Data from: Thyroid hormone receptor beta mutations alter photoreceptor development and function in Danio rerio (zebrafish)

We investigate mutations in trβ2, a splice variant of thrb, identifying changes in function, structure, and behavior in larval and adult zebrafish retinas. Two N-terminus CRISPR mutants were identified. The first is a 6BP+1 insertion deletion frameshift resulting in a truncated protein. The second is a 3BP in frame deletion with intact binding domains. ERG recordings of isolated cone signals showed that the 6BP+1 mutants did not respond to red wavelengths of light while the 3BP mutants did respond. 6BP+1 mutants lacked optomotor and optokinetic responses to red/black and green/black contrasts. Both larval and adult 6BP+1 mutants exhibit a loss of red-cone contribution to the ERG and an increase in UV-cone contribution. Transgenic reporters show loss of cone trβ2 activation in the 6BP+1 mutant but increase in the density of cones with active blue, green, and UV opsin genes. Antibody reactivity for red-cone LWS1 and LWS2 opsin was absent in the 6BP+1 mutant, as was reactivity for arrestin3a. Our results confirm a critical role for trβ2 in long-wavelength cone development.

opencc-zeroJul 2020View details →

dryad32/100

Data from: Density and group size influence shoal cohesion, but not coordination in zebrafish (Danio rerio)

The formations made by gregarious animals can range from loose aggregates to highly synchronized and ordered structures. For very large, coordinated groups, both physical and social environments are important for determining the physical arrangement of individuals in the group. Here we tested whether physical and social factors are also important in determining the structure of small, loosely coordinated groups of zebrafish. We found that even though our fish were not crowded and did not use most of the available space, the distance between individual fish was explained primarily by the amount of available space (i.e., density). Zebrafish in a larger space spread out more and the total dimensions of the shoal were an additive function also of group size. We, however, did not find any impact of social or physical environment on the orientation of individual fish or shoal. Thus, both physical and social factors were important for shoal spatial arrangements, but not individual orientation and shoal alignment.

opencc-zeroDec 2013View details →

dryad32/100

Data from: Ultraviolet B radiation alters movement and thermal selection of zebrafish (Danio rerio)

Temperature and ultraviolet B (UV-B) interact in causing cellular damage and impairing locomotor performance. Here, we test the hypothesis that movement and thermal selection of zebrafish (Danio rerio) change in the presence of UV-B, and in particular, that fish which were chronically exposed to UV-B avoid high and low temperature extremes to maximize activities of antioxidant enzymes. Fish chronically (two to three weeks) exposed to UV-B had increased reactive oxygen species (ROS)-induced damage to proteins and membranes, and reduced swimming performance at high (more than 26°C) temperatures. In an open field arena with a thermal gradient, chronically exposed fish avoided high and low temperature extremes compared with control fish. Additionally, both control and chronically exposed fish showed slower voluntary swimming speeds in the presence of UV-B. We suggest that in the presence of UV-B fish may reduce muscular activity to minimize intrinsic ROS production. Our data show that the interaction between UV-B and temperature determines movement and microhabitat selection of fish, which is therefore of ecological importance particularly in anthropogenically modified environments.

opencc-zeroDec 2015View details →

zenodo32/100

Common molecular targets of a quinolone based bumped ki-nase inhibitor in Neospora caninum and Danio rerio

Supplementary files for paper submitted to IJMS

opencc-by-4.0Feb 2022View details →

dryad32/100

Data for Rates of warming impact oxidative stress in zebrafish (Danio rerio)

Potentially negative effects of thermal variation on physiological functions may be modulated by compensatory responses, but their efficacy depends on the timescale of phenotypic adjustment relative to the rate of temperature change. Increasing temperatures in particular can affect mitochondrial bioenergetics and rates of reactive oxygen species (ROS) production. Our aim was to test whether different rates of temperature increase impact mitochondrial bioenergetics and modulate oxidative stress. We exposed zebrafish (Danio rerio) to warming from 20 to 28°C over 3, 6, 24, or 48 h, and compared these to a control group that was kept at constant 20°C. Fish exposed to the fastest (3 h) and slowest (48 h) rates of warming had significantly higher rates of H2O2 production relative to the control treatment, and the proportion of O2 converted to H2O2 (H2O2/O2 ratio) was significantly greater in these groups. However, ROS production was not paralleled by differences in mitochondrial substrate oxidation rates, leak respiration rates, or coupling (respiratory control ratios). Increased rates of ROS production did not lead to damage of proteins or membranes, which may be explained by a moderate increase in catalase activity at the fastest, but not the slowest rate of warming. The increase in ROS production at the slowest rate of heating indicates that even seemingly benign environments may be stressful. Understanding how animals respond to different rates of temperature change is important, because the rate determines the time period for phenotypic adjustments and it also alters the environmental thermal signal that triggers compensatory pathways.

opencc-zeroFeb 2022View details →

dryad32/100

Diet and temperature modify the relationship between energy use and ATP production to influence behaviour in zebrafish (Danio rerio)

Food availability and temperature influence energetics of animals, and can alter behavioural responses such as foraging and spontaneous activity. Food availability, however, is not necessarily a good indictator of energy (ATP) available for cellular processes. The efficiency of energy transduction from food-derived substrate to ATP in mitochondria can change with environmental context. Our aim was to determine whether the interaction between food availability and temperature affects mitochondrial efficiency and behaviour in zebrafish (Danio rerio). We conducted a fully factorial experiment to test the effects of feeding frequency, acclimation temperature (three weeks to 18 or 28°C), and acute test temperature (18 and 28°C) on whole-animal oxygen consumption, mitochondrial bioenergetics and efficiency (ADP consumed per oxygen atom; P:O ratio), and behaviour (boldness and exploration). We show that infrequently fed (once per day on four days per week) zebrafish have greater mitochondrial efficiency than frequently fed (three times per day on five days er week) animals, particularly when warm-acclimated. The interaction between temperature and feeding frequency influenced exploration of a novel environment, but not boldness. Both resting rate of producing ATP and scope for increasing it were positively correlated with time spent exploring and distance moved in standardised trials. In contrast, behaviour was not associated with whole-animal aerobic (oxygen consumption) scope, but exploration was positively correlated with resting oxygen consumption rates. We highlight the importance of variation in both metabolic (oxygen consumption) rate and efficiency of producing ATP in determining animal performance and behaviour. Oxygen consumption represents energy use, and P:O ratio is a variable that determines how much of that energy is allocated to ATP production. Our results emphasise the need to integrate whole-animal responses with subcellular traits to evaluate the impact of environmental conditions on behaviour and movement. --

opencc-zeroJun 2022View details →

dryad32/100

The effects of exploratory behavior on physical activity in a common animal model of human disease, zebrafish (Danio rerio)

Zebrafish (Danio rerio) are widely accepted as a multidisciplinary vertebrate model for neurobehavioral and clinical studies, and more recently have become established as a model for exercise physiology and behavior. Individual differences in activity level (e.g., exploration) have been characterized in zebrafish, however, how different levels of exploration correspond to differences in motivation to engage in swimming behavior has not yet been explored. We screened individual zebrafish in two tests of exploration: the open field and novel tank diving tests. The fish were then exposed to a tank in which they could choose to enter a compartment with a flow of water (as a means of testing voluntary motivation to exercise). After a 2-day habituation period, behavioral observations were conducted. We used correlative analyses to investigate the robustness of the different exploration tests. Due to the complexity of dependent behavioral variables, we used machine learning to determine the personality variables that were best at predicting swimming behavior. Our results show that contrary to our predictions, the correlation between novel tank diving test variables and open field test variables was relatively weak. Novel tank diving variables were more correlated with themselves than open field variables were to each other. Males exhibited stronger relationships between behavioral variables than did females. In terms of swimming behavior, fish that spent more time in the swimming zone spent more time actively swimming, however, swimming behavior was inconsistent across the time of the study. All relationships between swimming variables and exploration tests were relatively weak, though novel tank diving test variables had stronger correlations. Machine learning showed that three novel tank diving variables (entries top/bottom, movement rate, average top entry duration) and one open field variable (proportion of time spent frozen) were the best predictors of swimming behavior, demonstrating that the novel tank diving test is a powerful tool to investigate exploration. Increased knowledge about how individual differences in exploration may play a role in swimming behavior in zebrafish is fundamental to their utility as a model of exercise physiology and behavior.

opencc-zeroAug 2022View details →

zenodo32/100

Datasets for the manuscript: "Metabolic disruption of zebrafish (Danio rerio) embryos by bisphenol A. An integrated metabolomic and transcriptomic approach"

<h1>Metabolomics datasets for the manuscript: Metabolic disruption of zebrafish (Danio rerio) embryos by bisphenol A. An integrated metabolomic and transcriptomic approach</h1> <h2>Instrumental conditions</h2> LC-MS analyses were carried out using an Agilent Infinity 1200 series LC system coupled with an orthogonal G1385-44300 interface (Agilent Technologies, Waldbronn, Germany) to a 6220 oa-TOF LC/MS mass spectrometer (Agilent Technologies). LC control and separation data acquisition were performed using ChemStation software (Agilent Technologies) that was running in combination with the MassHunter workstation software (Agilent Technologies) for control and data acquisition of the TOF mass spectrometer. For the chromatographic separations, an HILIC TSK Gel Amide-80 column (250 mm length, 2.1 mm inner diameter and 5 μm particle size, Tosoh Bioscience, Tokyo, Japan) was used at 25 °C with gradient elution at a flow rate of 0.15 mL·min−1. Elution gradient was performed using solvent A (acetonitrile) and solvent B (5 mM of ammonium acetate adjusted to pH 5.5 with acetic acid) as follows: 0–8 min, linear gradient from 25 to 30% B; 8–12 min, from 30 to 60% B; 12–17 min, 60% B; 17–20 min, back linearly from 60% to 25% B; and from 20 to 27 min, 25% B. Solvents were degassed for 15 min by sonication before use. Sample injection was performed with an autosampler at 4 °C, and the injection volume was 5 μL. All samples (six replicates per treatment: control, 4.4 μM BPA, 8.8 μM BPA and 17.5 μM BPA) were randomly injected. Several blank samples and calibration standards were also randomly injected to further assess the stability of the instrument among runs. The TOF mass spectrometer operated both in positive and negative mode using the following parameters: capillary voltage 4000 V, drying gas temperature 350 °C, drying gas flow rate 8 L·min−1, nebulizer gas 32 psi, fragmentor voltage 150 V, skimmer voltage 65 V and OCT 1 RF Vpp voltage 300 V. Data were collected in profile mode at 1 spectrum/s (approximately 10 000 transients/spectrum) with an m/z range of 85–1000 working in the extended dynamic range mode (2 GHz) with the mass range set to standard. <h2>List of files</h2> <h3>Negative ionization</h3> <ul> <li>Control x 12 samples - 6 x 2 replicates</li> <li>BPA 1 ppm x 12 samples - 6 x 2 replicates</li> <li>BPA 2 ppm x 12 samples - 6 x 2 replicates</li> <li>BPA 4 ppm x 12 samples - 6 x 2 replicates</li> </ul> <h3>Positive ionization</h3> <ul> <li>Control x 12 samples - 6 x 2 replicates</li> <li>BPA 1 ppm x 12 samples - 6 x 2 replicates</li> <li>BPA 2 ppm x 12 samples - 6 x 2 replicates</li> <li>BPA 4 ppm x 12 samples - 6 x 2 replicates</li> </ul>

opencc-by-4.0Jul 2024View details →

zenodo32/100

dataset for paper entitled "Effect of Moringa Oleifera Leaf Extract On Body Length, Malondialadehyd and Interleukin-6 Levels in Zebrafish Larvae (Danio Rerio) Induced Stunting Model with Rotenone"

The dataset consist of: 1. Appendices of tools and material used for laboratory research 2. Certificate of ethical test  3. Data of moringa oleifera controls 4. Data of zebrafish growth

opencc-by-4.0Aug 2023View details →

dryad32/100