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.
76
datasets available to search
ShareScore release 0.9.0
Dataset results
76 results for “Squalius”
Dataset and supplementary files - Behavioral response of chub (Squalius cephalus), barbel (Barbus barbus) and brown trout (Salmo trutta) to pulsed direct current electric fields and resulting optimal waveform for use at electrified bar racks
<p><strong>Behavior Library.zip: </strong>For each species and behavior observed during the experiments an exemplary video is provided. </p><p><strong>Behavior_all.pdf: </strong>Additional plots showing the thresholds for the first time each individual behavior was observed for all fish species and tested waveforms</p><p><strong>Species.pdf: </strong>Additional plot allowing direct comparison of observed thresholds for the tested species when subjected to different waveforms. </p><p><strong>data.csv:</strong> All data necessary to reevaluate the conducted experiments. The dataset consists of</p><ul><li>Experiment ID</li><li>waveform - indicating the set of electrical parameters used</li><li>fish species and fish id </li><li>behavior - observed behavior</li><li>time from and time to - time in s after the start of the experiment that a behavior was started and ended respectively</li><li>type - point or interval referring to whether a behavior is considered instantaneous or continuous</li><li>voltage - applied voltage at the start of the given behavior</li><li>experiment_timestamp - date and time of the start of the experiment</li><li>breathing rate start - breathing rate at the start of the experiment</li><li>water conductivity - water conductivity at a reference temperature of 25°C [muS/cm]</li><li>water temperature [°C]</li><li>breathing rate end - breathing rate at the end of the experiment</li><li>meta behavior - assigned category of meta behavior based on the observe behavior category</li><li>standard length, total length and height - standard length, total length and height of the tested fish in [mm]</li><li>volume - calculated fish volume based on the measured length and height and an assumed elliptical form of the fish</li><li>Fangdatum - Date of catch</li><li>t.Pulse - pulse length of the tested waveform [ms]</li><li>Frequency - Frequency of the tested waveform</li><li>N.Pulses.Group - Number of pulses per group of pulses for the waveform pattern</li><li>t.Gap - time between two pulses within a group of pulses [ms]</li><li>DutyCycle - Percentage of time current is flowing for a given waveform. Calculated based on the waveform parameters</li><li>usage - first, second or third time a fish was used in the experiments. </li><li>field strength - field strength at the time of this behavior calculated based on the applied voltage</li><li>c_w ambient water conductivity [muS/cm]</li><li>p_d - power density calculated based on the field strength and the ambient water conductivity</li><li>p_t - power transferred to the fish calculated based on the field strength, the ambient water conductivity and an assumed conductivity of the fish of 115 muS/cm</li></ul><p> </p><p> </p>
Figure 5 in A histopathological study on the freshwater fish species chub (Squalius cephalus) in the Karasu River, Turkey
Figure 5. Photomicrograph of normal liver of the fish from Site S. Central vein (*), hepatocyte (arrow head), and sinusoid (arrow).
Figure 4 in A histopathological study on the freshwater fish species chub (Squalius cephalus) in the Karasu River, Turkey
Figure 4. Photomicrograph of pathologically abnormal gills of the fish from Site A. A Lamellar disorganization (arrows), B Blood congestion in secondary lamellae and the lamellar vascular axis (asterisks), C Partial fusion of some lamellae (arrows), D Aneurysm in lamellar vascular axis (arrows).
Figure 3 in A histopathological study on the freshwater fish species chub (Squalius cephalus) in the Karasu River, Turkey
Figure 3. Photomicrograph of pathologically abnormal gills of the fish from Site A. A Hypertrophy of the lamellar epithelium (arrows); B High severity of filamentary epithelium, hyperplasia that induced complete lamellar fusion (arrows), and vasodilatation of the central venous (*); C Lifting of lamellar epithelium (arrows) and cartilage tissue (arrow heads); D Lamellae shortening (arrows).
Figure 7 in A histopathological study on the freshwater fish species chub (Squalius cephalus) in the Karasu River, Turkey
Figure 7. Photomicrograph of abnormal liver of the fish from Site A. A Congestion of central vein (*), B Blood congestion in hepatic parenchyma (asterisks), C Epithelial degeneration of central vein (arrows), D Hepatic tissue showing necrosis areas (asterisks) and hepatocytes with pyknotic nucleus (arrows), E Hepatic granuloma (black arrow) consisting of melanomacrophage aggregates (white arrows) with lightly pigmented cytoplasm.
Figure 2 in A histopathological study on the freshwater fish species chub (Squalius cephalus) in the Karasu River, Turkey
Figure 2. Photomicrograph of normal gills of the fish from Site S. Normal aspect of the gill, showing secondary lamella (1), primary lamella (2), filament (F).
Figure 6 in A histopathological study on the freshwater fish species chub (Squalius cephalus) in the Karasu River, Turkey
Figure 6. Photomicrograph of abnormal liver of the fish from Site A. A Proliferation of the hepatopancreas (arrow); B Nonhomogeneous parenchyma tissue (colored dark and light hepatocytes); C Increasing melanomacrophage aggregates (arrows); D Sinusoidal dilatation (arrow head), hepatocyte hypertrophy (arrows), and necrosis (circle).
Figure 4 in Development of empirical standard weight equation for Pursak chub Squalius pursakensis, an endemic cyprinid species of Northwest Anatolia
Figure 4. Plots showing the distribution of the residuals (a) and the results of the application of the empirical quartiles (EmpQ) method (b) used to investigate potential length bias in the standard mass (W s) equation for Squalius pursakensis. Residuals = standardized residuals of the regression; fitted values = values obtained by the model fit; standardized 75th percentile mean W = standardized 75th percentile mean weights calculated by W equation.
Figure 1 in A histopathological study on the freshwater fish species chub (Squalius cephalus) in the Karasu River, Turkey
Figure 1. Map of Erzurum city and the basin of the Karasu River showing the three sampling sites.
Figure 2 in Development of empirical standard weight equation for Pursak chub Squalius pursakensis, an endemic cyprinid species of Northwest Anatolia
Figure 2. Area of distribution of Squalius pursakensis (dark gray area).
Figure 1 in Development of empirical standard weight equation for Pursak chub Squalius pursakensis, an endemic cyprinid species of Northwest Anatolia
Figure 1. Squalius pursakensis from Seydi Suyu in Sakarya Basin (445 mm TL).
Data from: "Characterization of two Iberian freshwater fish transcriptomes, Squalius carolitertii and Squalius torgalensis, living in distinct environmental conditions" in Genomic Resources Notes Accepted 1 April 2015 to 31 May 2015
The advance of NGS technologies opened exciting research avenues, as for example expanding the study of the mechanisms underlying adaptation from model organisms to natural systems. We used NGS technologies to sequence 12 RNA-seq libraries, and provide the first transcriptomes of two endemic Iberian Cyprinids. The species Squalius carolitertii and S. torgalensis inhabit different regions of Portugal with distinct climate types, Atlantic in the North and Mediterranean in the South, respectively. While northern regions present mild temperatures, in southern regions fish are often under harsh temperatures and droughts. Herein, we sequenced the transcriptome from three tissues (skeletal muscle, liver and fins) in an Illumina HiSeq2000 of fish exposed to different temperatures: 18ºC (control) and 30ºC (test). Around 200 million raw reads were generated for each species, with similar number of reads per library (approximately 30 million), rendering de novo assemblies with a total of 145975 and 137303 contigs, for S. carolitertii and S. torgalensis, respectively. Gene ontology showed that around 60% of the annotated genes belonged to four biological processes and approximately 75% to two molecular functions. Besides, this study provides, for the first time, the transcriptome characterization of two endemic fish from Iberian freshwater basins, S. carolitertii and S. torgalensis, and constitutes a valuable resource for understanding environmental adaptations of Iberian Cyprinids.
Data from: "De novo assembled transcriptome of organs involved in reproduction in an endangered endemic Iberian cyprinid fish (Squalius pyrenaicus)" in Genomic Resources Notes Accepted 1 June 2015 to 31 July 2015
Sex determination systems are diverse, especially among fish, and include genetic and/or environmental components. Unexpectedly for such a basic aspect of development, sex determination systems change rapidly during evolution and gonadal fate is not ultimate, being actively maintained lifelong. Here, sequences of expressed genes involved in maintenance of gonad identity and reproduction processes were obtained through transcriptome assembly of the brain-gonadal axis tissues of a freshwater fish inhabiting highly variable environments, the gonochoristic Iberian fish Squalius pyrenaicus. Through Illumina total RNA-sequencing, male and female transcriptomes of brain and gonad tissues were assembled with Trans-ABySS software and merged to produce a more comprehensive S. pyrenaicus transcriptome. Coding sequences (CDS) predicted by TransDecoder were annotated using blastx. By means of read mapping against the reference transcriptome and CDS datasets, using Bowtie2, the accuracy of read mapping was assessed. This first endemic Iberian cyprinid transcriptome of organs involved in reproduction processes may serve as a valuable genomic resource for studying sexual mechanisms and other aspects of evolution, such as speciation and responses to environmental changes, and may be a useful tool for conservation studies since S. pyrenaicus is an endangered species.
FIGURE 4 in Squalius kottelati, a new cyprinid species (Teleostei: Cyprinidae) from Orontes River, Turkey
FIGURE 4. Plots of coefficients of the first two canonical variables (root 1× root 2) derived from DFA of metric 28 characters in Squalius kottelati, S. anatolicus and S. lepidus.
FIGURE 1. FFR 1991 in Squalius kottelati, a new cyprinid species (Teleostei: Cyprinidae) from Orontes River, Turkey
FIGURE 1. FFR 1991, Squalius kottelati, holotype, 126 mm SL, Turkey: Gaziantep Prov.: Orontes River drainage, Tahtaköprü Reservoir.
FIGURE 3 in Squalius kottelati, a new cyprinid species (Teleostei: Cyprinidae) from Orontes River, Turkey
FIGURE 3. Lateral view of head of: a, S. lepidus, FFR 1570, 221 mm SL; b, S. kottelati, FFR 1567, 203 mm SL, paratype; c, S. anatolicus, FFR 3810, 230 mm SL.
FIGURE 6 in Two new species of Squalius, S. adanaensis and S. seyhanensis (Teleostei: Cyprinidae), from the Seyhan River in Turkey
FIGURE 6. Lateral view of head of: Squalius seyhanensis, a, FFR 1993, 236 mm SL, male; b, FFR 00707, 222 mm SL, female.
FIGURE 5 in Two new species of Squalius, S. adanaensis and S. seyhanensis (Teleostei: Cyprinidae), from the Seyhan River in Turkey
FIGURE 5. Squalius seyhanensis, holotype, FFR 1992, 150 mm SL, Turkey: Kayseri Prov.: Seyhan River drainage.
FIGURE 4 in Two new species of Squalius, S. adanaensis and S. seyhanensis (Teleostei: Cyprinidae), from the Seyhan River in Turkey
FIGURE 4. Distribution of the species of Squalius of Anatolia, based on examined material and in part on Özuluġ & Freyhof (2011): S. adanaensis (), S. seyhanensis (), S. berak), S. orientalis (), S. turcicus), S. kottelati), S. lepidus (▲), S. anatolicus (), S. kosswigi), S. fellowesii), S. aristotelis), S. cii (n), S. cephaloides (), S. pursakensis (), S. recurvirostris (), S. carinus (), S. cappadocicus ().
FIGURE 1 in Two new species of Squalius, S. adanaensis and S. seyhanensis (Teleostei: Cyprinidae), from the Seyhan River in Turkey
FIGURE 1. Ventral view of head of Squalius seyhanensis, FFR 00707, 215 mm SL, female; a, length of mouth gape, b, width of mouth gape.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.