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90 results for “migratory fishes”
Data and Code for: MFishBT: A global database of biogeochemical tags in migratory fish
<p>All data and code related to the paper: "MFishBT: A global database of biogeochemical tags in migratory fish" by Ding et al.</p> <p>The DataS1.zip includes the following files:</p> <p><strong>Checklist</strong></p> <p>Appendix_Table_S1_v1.csv</p> <p><strong>Final_Data</strong></p> <p>(1) MFishBT_tags_v1.csv</p> <p>(2) MFishBT_geographical_records_v1.csv</p> <p>(3) MFishBT_biological_archives_core_v1.csv</p> <p>(4) MFishBT_biological_archives_edge_v1.csv</p> <p>(5) MFishBT_biological_archives_core_edge_transects_v1</p> <p><strong>MFishBT_shiny</strong></p> <p>R shiny app code</p> <p><strong>MFishBTdat</strong></p> <p>R MFishBTdat package</p> <p><strong>Microsoft_Excel _VB_screening_button</strong></p> <p>Example.xlsm</p> <p><strong>Remove_outliers_demo</strong></p> <p>R code about remove outliers (remove_outliers.R)</p> <p> </p>
Data from: Partial migration: growth varies between resident and migratory fish
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Genomic evidence of past and future climate-linked loss in a migratory Arctic fish
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Data from: Adoption of alternative migratory tactics: a view from the ultimate mechanism and threshold trait changes in a salmonid fish
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Genotype data for: Population genetics reveals divergent lineages and ongoing hybridization in a declining migratory fish species complex
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Data from: Genes predict long distance migration and large body size in a migratory fish, Pacific lamprey
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Data from: Genetic evaluation of migratory fish: implications for conservation and stocking programs
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Fig. 3 in Movement and longitudinal distribution of a migratory fish (Salminus brasiliensis) in a small reservoir in southern Brazil
Fig. 3. Observed values of individual net displacement for Salminus brasiliensis in the Monjolinho reservoir. Each dot represents a displacement event; more than one record from the same individual may appear in the plot. a) The individual moved a large distance in a very short time, b) the individual moved a small distance in a short time, c) the individual position moved at least 20 km within 60 days and d) the individual may have moved only a small distance in a 60-day period. Note: net displacement based on large time intervals (e.g., events c and d) ignore multiple movements that may have occurred within the time interval (see main text).
Fig. 4 in Movement and longitudinal distribution of a migratory fish (Salminus brasiliensis) in a small reservoir in southern Brazil
Fig. 4. Net displacement of dourados (Salminus brasiliensis) in the Monjolinho reservoir. The numbers above the plots represent the number of individuals. The letters above the plots represent differences or similarities according to Tukey's test, which was performed after a linear mixed effect model (F= 23.57). Circles represent outlier values; the heavy horizontal line crossing the box is the median; the bottom and top of the box are the lower and upper quartiles, respectively; and the whiskers are the minimum and maximum values.
Fig. 1 in Movement and longitudinal distribution of a migratory fish (Salminus brasiliensis) in a small reservoir in southern Brazil
Fig. 1. Map of the study area in the Uruguay river basin located in southern Brazil. Stars = cities; triangles = natural barriers; squares = positions of fixed radio telemetry stations; line with dottes = duct that takes water from the Passo Fundo power house into the Monjolinho reservoir. The confluences of the Passo Fundo and Erechim rivers and of the Passo Fundo and Uruguay rivers have been flooded by the Monjolinho and Foz do Chapecó reservoirs. Dark gray represents the area that was monitored in this study.
Fig. 5. a in Movement and longitudinal distribution of a migratory fish (Salminus brasiliensis) in a small reservoir in southern Brazil
Fig. 5. a. Distance traveled by dourados (Salminus brasiliensis) from the dam in the study area. Numbers above the plots are the number of individuals. Letters above the plots represent differences or similarities according to Tukey's test, which was performed after a linear mixed effect model (F = 16.5; p<0.0001). Circles represent outlier values; the heavy horizontal line crossing the box is the median; the bottom and top of the box are the lower and upper quartiles, respectively; and the whiskers are the minimum and maximum values. b. Inflow (m³/s) and water temperature (°C) in the Monjolinho reservoir during the study period (January to December 2012). c. Rainfall (mm) in the study area, showing measurements taken between January and December 2012 and historical rainfall patterns (1961-1990).
Fig. 6 in Movement and longitudinal distribution of a migratory fish (Salminus brasiliensis) in a small reservoir in southern Brazil
Fig. 6. Line density results showing the movement patterns of dourados (Salminus brasiliensis) in the Monjolinho reservoir. Summer = January to March; Autumn = April to June; Winter = July to September; and Spring = October to December.
Fig. 3 in Plasticity in the shape and growth pattern of asteriscus otolith of black prochilodus Prochilodus nigricans (Teleostei: Characiformes: Prochilodontidae) freshwater Neotropical migratory fish
Fig. 3. Cluster analysis based on the euclidean distances of the wavelet functions by shape analysis of asteriscus otoliths Prochilodus nigricans between rivers. S (Solimões); J (Japurá) and N (Negro).
Fig. 2 in Plasticity in the shape and growth pattern of asteriscus otolith of black prochilodus Prochilodus nigricans (Teleostei: Characiformes: Prochilodontidae) freshwater Neotropical migratory fish
Fig. 2. Canonical variate analysis of the first 5 PC compo- nents and fish length data of the Prochilodus nigricans for all localities, with 95% confidence. Solimões (blue); Japurá (red) and Negro (green).
Fig. 7.a. Relationship between fish standard length and otolith radius for Brachyplatystoma rousseauxii below 80 in Age and growth of the Amazonian migratory catfish Brachyplatystoma rousseauxii in the Madeira River basin before the construction of dams
Fig. 7.a. Relationship between fish standard length and otolith radius for Brachyplatystoma rousseauxii below 80 cm (black circles, black line: y = 0.031x + 0.209, r² = 0.805, P <0.001) and above 80 cm (white triangles, broken line: y = 0.034x – 0.223, r² = 0.328, P <0.001); and b. relationship between fish age and otolith radius for B. rousseauxii below 80 cm (black circles, black line: y = 0.887ln(x) + 1.567, r² = 0.879, P <0.001) and above 80 cm (white triangles, broken line: y = 0.209ln(x) + 2.055, r² = 0.822, P <0.001), both in Madeira River basin.
Capacity for freshwater acclimation and differences in the transcription of ion transporter genes underlying different migratory life histories of Takifugu fish
<p>The genus<i> Takifugu </i>is a group of approximately 20 species of puffer fishes living in a wide range of salinity environments around East Asian countries. This group presents a broad spectrum of evolutionary stages adapted to anadromy as a result of speciation that occurred a short time (2–5 million years) ago on an evolutionary timescale. This group thus can be considered as a model for studying the evolutionary mechanisms of anadromy. We firstly conducted a transfer experiment from seawater to low-salinity waters on five <i>Takifugu</i> species: two anadromous species <i>T. obscurus</i> and <i>T. ocellatus</i>, two euryhaline wanderer marine species <i>T. rubripes</i> and <i>T. niphobles</i>, and a strictly marine species <i>T. snyderi</i>,<i> </i>and confirmed that the capacity for acclimation to hypotonic environments was associated with their life history strategies. Next, transcriptomes of the gill and intestine of these species in hypotonic condition were compared to those under hypertonic condition for each species using RNA-Sequencing so as to determine possible candidate transporters playing an important role on freshwater adaptation. As this analysis suggested that <i>cftr</i>, encoding an important ion transporter for seawater acclimation in the gill, and <i>ncc</i>, encoding a transporter that is suggested to play important osmoregulatory roles in the intestine, are important candidates, their expression was validated by quantitative real-time PCR analysis. Expression of<i> cftr</i> was downregulated in the gills of the four euryhaline species under the hypotonic condition, but no change was detected in the gill of stenohaline <i>T. snyderi</i>, which may be one reason for the poor hypotonic acclimation capacity of <i>T. snyderi</i>. Expression of <i>ncc</i> was clearly upregulated in the intestines of the two anadromous species under the hypotonic condition, but not in other three species.<b> </b>Different ion transporter expression patterns between the five species indicate that the transcriptional regulation of <i>cftr</i> in the gill and <i>ncc</i> in the intestine may be important for the improvement of hypotonic acclimation capacity and evolution of anadromy in the <i>Takifugu</i> species.</p>
Habitat use by juvenile salmon, other migratory fish, and resident fish species underscores the importance of estuarine habitat mosaics
<p>Interfacing with land and sea, estuaries support a mosaic of habitats that underpin the production of many coastal fisheries. These ecosystems are threatened by multiple stressors, including habitat loss and climate change, but the relative importance of estuarine habitat types for different fish species remains poorly understood since direct habitat comparisons are rare. This knowledge gap is exemplified in temperate estuaries by salmon—ecologically and commercially important species that use estuaries during their migrations to and from the ocean. Here, we tested for species-specific habitat use by sampling fishes in 3 interconnected estuarine habitats (brackish marsh, eelgrass, and sand flat), across seasons and temperature regimes. We quantified fish species richness, community distinctness, and catches (of Chinook and chum salmon, other migratory fishes, and resident fishes) in the Pacific Northwest’s heavily urbanized Fraser River estuary, the terminus of what was once the world’s most productive salmon basin. Overall, eelgrass habitat supported the greatest fish species richness (n = 37) and catches (37402 fish), exceeding that of both the marsh (19 species, 7154 fish) and sand flat (22 species, 6697 fish). However, the majority of salmon were caught in the marsh (61%). These differences, coupled with our finding that at least one unique fish species inhabited each habitat (eelgrass = 15, marsh = 8, sand flat = 1), demonstrate species-specific habitat use and underscore the importance of connected seascapes for biodiversity conservation.</p>
Data from: Shape up or ship out: migratory behaviour predicts morphology across spatial scale in a freshwater fish
1. Migration is a widespread phenomenon, with powerful ecological and evolutionary consequences. Morphological adaptations to reduce the energetic costs associated with migratory transport are commonly documented for migratory species. However, few studies have investigated whether variation in body morphology can be explained by variation in migratory strategy within a species. 2. We address this question in roach Rutilus rutilus, a partially migratory freshwater fish that migrates from lakes into streams during winter. We both compare body shape between populations that differ in migratory opportunity (open vs. closed lakes), and between individuals from a single population that vary in migratory propensity (migrants and residents from a partially migratory population). Following hydrodynamic theory, we posit that migrants should have a more shallow body depth, to reduce the costs associated with migrating into streams with higher flow conditions than the lakes the residents occupy all year round. 3. We find evidence both across and within populations to support our prediction, with individuals from open lakes and migrants from the partially migratory population having a more slender, shallow-bodied morphology than fish from closed lakes and all-year residents. 4. Our data suggest that a shallow body morphology is beneficial to migratory individuals and our study is one of the first to link migratory strategy and intraspecific variation in body shape.
Data from: Evaluating adaptive divergence between migratory and non-migratory ecotypes of a salmonid fish, Oncorhynchus mykiss
Next generation sequencing and the application of population genomic and association approaches have made it possible to detect selection and unravel the genetic basis to variable phenotypic traits. Using the two approaches in parallel is an especially attractive approach in non-models organisms that lack a sequenced and annotated genome, but only works well when population structure is not confounded with the phenotype of interest. Herein, we use population genomics in a non-model fish species, rainbow trout (Oncorhynchus mykiss), to better understand adaptive divergence between migratory and non-migratory ecotype, and to further our understanding about the genetic basis of migration. RAD tag sequencing was used to identify Single Nucleotide Polymorphisms (SNPs) in migrant and resident O. mykiss from two systems, one in Alaska and the other in Oregon, USA. A total of 7,920 and 6,755 SNPs met filtering criteria in the Alaska and Oregon, data sets respectively. Population genetic tests determined that 1,423 SNPs were candidates for selection when loci were compared between resident and migrant samples. Prior linkage mapping studies using RAD tag SNPs were available to determine the position of 1,990 markers. Several significant SNPs are located in genome regions that contain QTL for migratory related traits, reinforcing the importance of these regions in the genetic basis of migration/residency. Annotation of genome regions linked to significant SNPs revealed genes involved in processes known to be important in migration (such as osmoregulatory function). This study adds to our growing knowledge on adaptive divergence between migratory and nonmigratory ecotypes of this species; across studies, this complex trait appears to be controlled by many loci of small effect, with some in common, but many loci not shared between populations studied.
Fig. 2 in Can north american fish passage tools work for South american migratory fishes?
Fig. 2. Comparison of movement of 100 NFS virtual emigrants [A] and 100 passive particles [B] released 700 m upstream of Lower Granite Dam. Virtual emigrant and particle tracks are yellow. Note the pattern of behavior changes as the virtual fish approach the dam (inset plot in [A]). Upstream of the dam, the default behavior B 0 dominates, but the other behaviors become more dominant as the hydrodynamic environment becomes more complex near the dam (inset to [A]).
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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.