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218 results for “Aquaculture”
Data from: Effects of Nile tilapia (Oreochromis niloticus) cage aquaculture on water quality in the world’s largest tropical lake
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Data from: Impacts on microbial communities in sediment by aquaculture farming during one salmon cycle
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The vulnerability of shellfish aquaculture to climate change and ocean acidification– a global assessment
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Data from: Salmon behavioural response to robots in an aquaculture sea cage
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Depth-based preventions in aquaculture exert selection on salmon louse behaviour
<p>Model outputs from a biological-hydrodynamic dispersal model, summarising the horizontal and vertical dispersion of salmon louse (Lepeophtheirus salmonis) larvae through the Hardangerfjord region, Norway.</p>
Data from: Genetic evidence for the uncoupling of local aquaculture activities and a population of an invasive species – a case study of Pacific oysters (Crassostrea gigas)
Human-mediated introduction of non-native species into coastal areas via aquaculture is one of the main pathways that can lead to biological invasions. To develop strategies to counteract invasions it is critical to determine whether populations establishing in the wild are self-sustaining or based on repeated introductions. Invasions by the Pacific oyster (Crassostrea gigas) have been associated with the growing oyster aquaculture industry worldwide. In this study, temporal genetic variability of farmed and wild oysters from the largest enclosed bay in Ireland was assessed to reconstruct the recent biological history of the feral populations using seven anonymous and seven microsatellites linked to expressed sequence tags (ESTs). There was no evidence of EST-linked markers showing footprints of selection. Allelic richness was higher in feral than in aquaculture samples (p=0.003, paired t-test). Significant deviations from Hardy-Weinberg equilibrium (HWE) due to heterozygote deficiencies were detected for almost all loci and samples, most likely explained by the presence of null-alleles. Relatively high genetic differentiation was found between aquaculture and feral oysters (largest pairwise multilocus FST 0.074, p < 0.01) and between year classes of oysters from aquaculture (largest pairwise multilocus FST 0.073, p < 0.01), which was also confirmed by the strong separation of aquaculture and wild samples using Bayesian clustering approaches. A ten-fold higher effective population size (Ne) – and a high number of private alleles – in wild oysters suggest an established self-sustaining feral population. The wild oyster population studied appears demographically independent from the current aquaculture activities in the estuary and alternative scenarios of introduction pathways are discussed.
Data from: Contrasting genetic metrics and patterns among naturalized rainbow trout (Oncorhynchus mykiss) in two Patagonian lakes differentially impacted by trout aquaculture
Different pathways of propagation and dispersal of non-native species into new environments may have contrasting demographic and genetic impacts on established populations. Repeated introductions of rainbow trout (Oncorhynchus mykiss) to Chile in South America, initially through stocking and later through aquaculture escapes, provide a unique setting to contrast these two pathways. Using a panel of single nucleotide polymorphisms, we found contrasting genetic metrics and patterns among naturalized trout in Lake Llanquihue, Chile's largest producer of salmonid smolts for nearly 50 years, and Lake Todos Los Santos (TLS), a reference lake where aquaculture has been prohibited by law. Trout from Lake Llanquihue showed higher genetic diversity, weaker genetic structure and larger estimates for the effective number of breeders (Nb) than trout from Lake TLS. Trout from Lake TLS were divergent from Lake Llanquihue, and showed marked genetic structure and a significant isolation-by-distance pattern consistent with secondary contact between documented and undocumented stocking events in opposite shores of the lake. Multiple factors, including differences in propagule pressure, origin of donor populations, lake geomorphology, and habitat quality or quantity, may concomitantly explain contrasting genetic metrics and patterns for trout between lakes. We also discussed violations of assumptions that may lead to overestimating Nb . We contend that high propagule pressure from aquaculture may not only increase genetic diversity and Nb via demographic effects and admixture, but also may impact the evolution of genetic structure and increase gene flow, consistent with findings from artificially propagated salmonid populations in their native and naturalized ranges.
Data from: Parallel evolution and adaptation to environmental factors in a marine flatfish: implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus)
Unraveling adaptive genetic variation represents, in addition to the estimate of population demographic parameters, a cornerstone for the management of aquatic natural living resources, which in turn, represent the raw material for breeding programs. The turbot (Scophthalmus maximus) is a marine flatfish of high commercial value living on the European continental shelf. While wild populations are declining, aquaculture is flourishing in Southern Europe. We evaluated the genetic structure of turbot throughout its natural distribution range (672 individuals; 20 populations) by analyzing allele frequency data from 755 Single Nucleotide Polymorphism discovered and genotyped by Double Digest RAD Sequencing. The species was structured into four main regions: Baltic Sea, Atlantic Ocean, Adriatic Sea and Black Sea, with subtle differentiation apparent at the distribution margins of the Atlantic region. Genetic diversity and effective population size estimates were highest in the Atlantic populations, the area of greatest occurrence, while turbot from other regions showed lower levels, reflecting geographical isolation and reduced abundance. Divergent selection was detected within and between the Atlantic Ocean and Baltic Sea regions, and also when comparing these two regions with the Black Sea. Evidence of parallel evolution was detected between the two low salinity regions, the Baltic and Black seas. Correlation between genetic and environmental variation indicated that temperature and salinity were probably the main environmental drivers of selection. Mining around the four genomic regions consistently inferred to be under selection identified candidate genes related to osmoregulation, growth and resistance to diseases. The new insights are useful for the management of turbot fisheries and aquaculture by providing the baseline for evaluating the consequences of turbot releases from restocking and farming.
FIGURE 4 in A new annelid species from whalebones in Greenland and aquaculture sites in Newfoundland: Ophryotrocha cyclops, sp. nov. (Eunicida: Dorvilleidae)
FIGURE 4. Haplotype network from TCS using fifteen COI sequences from the new species, Ophryotrocha cyclops, resulting in twelve haplotypes. Light grey: specimens from the Greenland site; white: specimens from Newfoundland sites A and B; dark grey: specimens from Newfoundland site C.
FIGURE 3 in A new annelid species from whalebones in Greenland and aquaculture sites in Newfoundland: Ophryotrocha cyclops, sp. nov. (Eunicida: Dorvilleidae)
FIGURE 3. Majority rule consensus tree from the Bayesian phylogenetic analyses of a combined dataset with three genes; 16S, COI and H3. Posterior probability values provided at nodes, with asterisks showing mean support values of 95 or higher.
FIGURE 1 in A new annelid species from whalebones in Greenland and aquaculture sites in Newfoundland: Ophryotrocha cyclops, sp. nov. (Eunicida: Dorvilleidae)
FIGURE 1. Ophryotrocha cyclops, sp. nov. (A) Dorsal and (B) ventral view of a whole individual, after preservation in ethanol. (C) Dorsal view of a live specimen, showing light-reflecting, central quasi-fused eye spots (white arrow) and triangular parapodial lobe (black arrow). (D) SEM, K type jaws. (E) SEM, P-type jaws. (F) SEM, P-type maxillae. Scale bars: (A) 1 mm, (C) 500 µm, (B) 1 mm scale interval units, (D) and (E) 200 µm, (F) 50 µm.
FIGURE 2 in A new annelid species from whalebones in Greenland and aquaculture sites in Newfoundland: Ophryotrocha cyclops, sp. nov. (Eunicida: Dorvilleidae)
FIGURE 2. Ophryotrocha cyclops, sp. nov. (A) Light micrograph of parapodium, (B to D) SEM of chaetae. Scale bars: (A) 100 µm, (B) 50 µm, (C) 20 µm, and (D) 100 µm.
Offshore wind farms low-trophic aquaculture multi-use potential: Figure data
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Pre-Processed Data Sets for Marine Spatial Planning of a Wave-Powered Aquaculture Farm in the Northeast U.S.
<p>These data sets are intended for marine spatial planning applications including the modeling of wave-powered aquaculture farms. They work in tandem with the Python model developed by the SEA Lab to evaluate potential sites for this development in the Northeastern U.S. The code for this model is available on GitHub at <a href=" https://github.com/symbiotic-engineering/aquaculture">https://github.com/symbiotic-engineering/aquaculture</a>, and details about the data and model are discussed in several related publications.</p>
Data from: Immune Transcriptional Response in Head Kidney Primary Cell Cultures Isolated from the Three Most Important Species in Chilean Salmonids Aquaculture.
<p>Data from Immune Transcriptional Response in Head Kidney Primary Cell Cultures Isolated from the Three Most Important Species in Chilean Salmonids Aquaculture. Files in .JBN and .xlsx format</p>
Multimodal Fish Feeding Intensity Assessment in Aquaculture Part 3
<p>Multimodal Fish Feeding Intensity Assessment in Aquaculture (The paper you can find on Arxiv: <a href="https://arxiv.org/pdf/2309.05058.pdf" rel="nofollow">https://arxiv.org/pdf/2309.05058.pdf</a>) </p>
Global Landside Clustering of Aquaculture Ponds Distribution Acquired from Dense Time-Series Sentinel-2 Images by Google Earth Engine
<p>This dataset reveals the global distribution pattern of landside clustering aquaculture ponds (LCAP) from a spatial perspective for the first time. It was derived from 4,015,054 tiles of the 10-m Sentinel-2 time-series images collected throughout 2020. The total area of global LCAP was estimated at 55,337.03 km2. Accuracy verification revealed that the Omission Error and Commission Error of the data is 7.51% and 16.69% respectively. We provide this dataset in <em>ESRI</em> <em>shapefile </em>format (.zip), which can be opened by <em>ArcGIS. </em>We invite you to download and utilize this dataset and recommend citing the following two references.</p>
A consistency evaluation of marine aquaculture with marine spatial planning by remote sensing and GIS
<p>This study used multi-phase satellite remote sensing images of Shandong Province and an automatic extraction algorithm for aquaculture to obtain aquaculture spatial distribution data. GIS spatial overlay analysis technology was used to superimpose marine functional zoning (2010–2020) data for comparative analysis to evaluate implementation effectiveness and existing problems in marine functional zoning. </p>
Assessment domain of existing and emerging Low trophic species aquaculture activities around the Atlantic
<p>The Assessment domain was constructed from a set of characteristics (main aspects/categories, e.g., organism group or production system), each consisting of several pre-determined elements (sub-categories, e.g., bivalves, brown macroalgae or surface systems, bottom culture systems) describing the activities, with each unique combination of characteristics (i.e., of one element per characteristic) resulting in the description of one type of LTS-system. The total of all possible LTS-systems constitutes the domain, providing the boundaries and resolution for the work to come.</p> <p>In this data set, the results from the mapping of existing and emerging LTS aquaculture activities around the Atlantic is reported and summarised. The results are related to FAO production statistics and analysed in terms of recommendations for the WP6 activities. In more general terms, the report may also act as a baseline to explore regional differences in LTS aquaculture diversity as well as diversification of LTS activities over time in the region.</p>
Sea lice (Lepeophtherius salmonis) detection and quantification around aquaculture installations using environmental DNA
<p>Here, we present supplementary material form our study<em> Sea lice (Lepeophtherius salmonis) detection and quantification around aquaculture installations using environmental DNA</em>. In our study, we developed and tested a new <em>L. salmonis</em> specific DNA-based assay (qPCR assay) for detection and quantification from seawater samples using an analytical pipeline compatible with the Environmental Sample Processor (ESP) for autonomous water sample analysis of gene targets.</p>
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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.