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A gonad photographs dataset for fish of commercial interest
<p>This dataset was established during a one year project under the IFREMER (Institut Français de Recherche pour l’Exploitation de la Mer) for the harmonisation of maturity data acquisition methods for bony fish of commercial interest, with the help of scientific campaign CGFS, EVHOE, IBTS and ACCOBIOM (Auber et al., 2021, Laffargue et al.,1987, Le Roy et al., 1988).</p> <p>This dataset contains 4133 standardised gonad’s macroscopic photos of 61 species of fish of commercial interests collected along the European coastal water and the Caribbean Sea. The scale used throughout this project is the ICES maturity scale “WKASMSF” (ICES, 2018). To have more details about the photography process used for photos in this database, check the “Fish gonads’ photography protocol” from Le Meleder et al. (2022).</p> <p>This dataset is associated with a GitHub page hosting tools to generate maturity identification forms for fish of commercial interest. To have more detail about identification forms files and have the latest update, check the GitHub page “MaturityScaleTools” (<a href="https://github.com/LM-Anna/MaturityScaleTools">LM-Anna/MaturityScaleTools: Maturity scale tools to identify visual maturity phases (github.com)</a>).</p> <p>This dataset is meant to be enriched with time. Photos may be added to complete the missing maturity phases for every species of the world. To have more details about the dataset or to add new photos, please contact annalemeleder@orange.fr or <a href="mailto:laurent.dubroca@ifremer.fr">laurent.dubroca@ifremer.fr</a>.</p> <p> </p> <p><strong>Images:</strong></p> <ul> <li> <p><strong>Photo_MATURITY.zip</strong> : archive in zip format of 4133 macroscopic photographs of gonads (.JPG; 2Mo-6Mo; sRGB; 1080p). Each photo was taken with the same camera (OLYMPUS / Tough F2.0), on the same white background, with homogeneous lighting to avoid glints from overexposure. Since there are no duplicated photos’ names because all photos were taken with the same camera, names correspond to the one generated by the camera. Photos are sorted under three levels of directories :</p> <ul> <li> <p><strong>First level :<em> species’ scientific name</em></strong> (Example : <em>Dicentrarchus labrax</em>) : there are currently 61 different species listed</p> </li> <li> <p><strong>Second level :<em> F or M</em> </strong>: the sex, with F from females and M for male</p> </li> <li> <p><strong>Third level : <em>A, B, C, D, E or F</em> </strong>: the maturity phases of the ICES 2018 scale. In each folder are assigned the corresponding gonadic photos.</p> </li> </ul> </li> </ul> <p> </p> <p><strong>Data frames:</strong></p> <ul> <li> <p><strong>photo_mat.xlsx</strong> (13 columns / 4133 rows): data table (Excel format) listing all photos in the Photo_MATURITY database, as well as the data associated with the photos. The data table is presented as followed, for each photo :</p> <ul> <li> <p>Name : Name of the photo</p> </li> <li> <p>Type : Type of gonad photo (INT = inside without organs, INT ORG = inside with organs, EXT = outside, EXT OUV = outside and open, FLUANT = fluent)</p> </li> <li> <p>sppeng : English vernacular name of the species or species group established for identification forms</p> </li> <li> <p>Species : Scientific name of the species or species group established for identification guides</p> </li> <li> <p>Sex : Sex of the fish (M = male, F = female)</p> </li> <li> <p>phase ID : visually estimated maturity phase (ICES WKASMSF scale : A, B, C, D, E or F)</p> </li> <li> <p>Link : Link to the photo, to change depending on your path to the downloaded dataset =LIEN_HYPERTEXTE(« (Your path to the dataset)\Photo_MATURITE\« &H<sub>n</sub>& »\« &E<sub>n</sub>& »\« &F<sub>n</sub>& »\« &A<sub>n</sub>& ».JPG »)*</p> </li> <li> <p>spplatTRUE : Scientific name of the species without taking species groups into account</p> </li> <li> <p>sppengTRUE : English vernacular name of the species without taking species groups into account</p> </li> <li> <p>Date : Date the photo was added to the dataset (the year correspond to the year the photo was took)</p> </li> <li> <p>Campaign : Survey during which the photo was taken</p> </li> <li> <p>Area : Geographical area (ICES or not) where the scientific survey occurred (Caribbean sea = Caribbean waters area, IVb-c = ICES area for the IBTS campaign, NA = unknown area, VIId = ICES area for NourManche campaign, VIId/VIIe = ICES area for CGFS campaign, VIIg/VIIj/VIIh/VIIIa-b = ICES area for EVHOE campaign)</p> </li> <li> <p>Commentary : Comments about the photo.</p> </li> </ul> </li> </ul> <p> </p> <p><strong>CAUTION</strong> : When using this database, please make sure to modify the link to the photos in the “Link” column with the link where you downloaded the Photo_MATURITY.zip file, and to check if it works by clicking it.</p> <p> </p> <p>*<sub>n</sub> = row number</p>
Fig. 3 in Mercury bioaccumulation in fish of commercial importance from different trophic categories in an Amazon floodplain lake
Fig. 3. Bioconcentration factor (Bf) among trophic categories in the Lago Grande de Manacapuru, in the Amazon floodplain. DET, Detritivores; HER/FRU, Herbivores/Frugivores; ONI, Omnivores; ONI/FRU, Omnivores/Frugivores; ONI/INS, Omnivores/Insectivores; PLA, Planktivores; CAR/PIS, Carnivores/Piscivores; PIS, Piscivores; CAR/NEC, Carnivores/Necrophagous.
Fig. 2 in Mercury bioaccumulation in fish of commercial importance from different trophic categories in an Amazon floodplain lake
Fig. 2. Mean levels of total mercury in fish from different trophic categories in the Lago Grande de Manacapuru, in the Amazon floodplain. DET, Detritivores; HER/FRU, Herbivores/ Frugivores; ONI, Omnivores; ONI/FRU, Omnivores/ Frugivores; ONI/INS, Omnivores/Insectivores; PLA, Planktivores; CAR/PIS, Carnivores/Piscivores; PIS, Piscivores; CAR/NEC, Carnivores/Necrophagous.
Global nutrient cycling by commercially targeted marine fish (Le Mézo et al., 2022, Biogeosciences)
<p>Model outputs and code used for the study "Global nutrient cycling by commercially targeted marine fish" published in <em>Biogeosciences</em> (Le Mézo et al., 2022). </p> <ul> <li>composite4b_cycling_MCV3_PotH_LME_2010_R2_2010_fNPP7_ks24_p50_c7_newFNPP_Online_nruns_31 = model outputs with <ul> <li><strong>composite.maps</strong> contains the 2D fields</li> <li><strong>y200</strong> refers to fields at the pristine state and <strong>yglo</strong> to fields at the global peak catch.</li> <li><strong>dfish</strong> is the fish biomass in wet weight per gram (size class)</li> <li><strong>resp5</strong> is the cycling rate that was used in the paper (defined in the Methods section)</li> </ul> </li> <li><a href="https://zenodo.org/api/files/72a2b98c-e4e5-4282-9ffa-0a7a1717e009/01_Mean_and_uncertainty_commercial_fish.mlx">Main_script.mlx</a> = main code used to compute the nutrient content and cycling of fish and the comparisons with other fields</li> <li><a href="https://zenodo.org/api/files/72a2b98c-e4e5-4282-9ffa-0a7a1717e009/size_bins_width.m">size_bins_width.m</a> = code used to compute the model size bin width</li> <li>data_annual.mat = NO3, PO4, NPP, C export fields</li> <li>composite_MCV3_PotH_LME_2010_R2_2010_fNPP7_ks24_p50_c7_newFNPP_Online_nruns_31.mat is the model outputs with <ul> <li>cyc.composite.maps.yglo.mean.harvest being the catch field at global peak catch</li> </ul> </li> <li>solublefraction_Mahowald2009_360x180.nc is the Fe deposition field</li> <li> Brahneyetal2015_nitrogenandphosphorus2x2annualdep_360x180.nc is the N deposition field</li> <li>mask_LME.mat is the mask of LME areas</li> <li>ocean_topaz_tracers.timmean.BOATS_grid_fed.nc is the modeled dissolved Fe concentrations in seawater by the TOPAZ model</li> <li>zeu_lee_modis_aqua_average_2002-2019.nc is the euphotic depth field used to compute the nutrient concentrations</li> <li><a href="https://zenodo.org/api/files/72a2b98c-e4e5-4282-9ffa-0a7a1717e009/woa05_nitrate_month.nc">woa05_nitrate_month.nc</a> is the NO3 field used to make the spatial interpolations of the Fe:C stoichiometric ratios.</li> <li><a href="https://zenodo.org/api/files/72a2b98c-e4e5-4282-9ffa-0a7a1717e009/mass_50sizes_boats.mat">mass_50sizes_boats.mat</a> is the mass of each size class of the BOATS model</li> <li><a href="https://zenodo.org/api/files/72a2b98c-e4e5-4282-9ffa-0a7a1717e009/Tables%20S2%20and%20S3.xlsx">Tables S2 and S3.xlsx</a> litterature compilation of values for N and P in fish and zooplankton</li> <li>Galbraith et al (2019) SI.pdf is the supplement to Galbraith et al. (2019) in which the data compilation for the Fe content of fish, zooplankton and phytoplankton can be found.</li> </ul>
Fig. 1 in Identification of the Commercially Important Oreosomatid Fish (Zeiformes: Teleostei) of the Emperor Seamounts, with Comments on Diagnostic Characters of the Species
Fig. 1. Lateral view of oreosomatids. A, Allocyttus folletti from the Emperor Seamounts, SNFR 22402, 289.8 mm SL; B, Allocyttus verrucosus from New Zealand, NSMT-P 41168, 187.2 mm SL; caudal peduncle of A. folletti; C, SNFR 10560, 293.4 mm SL, Emperor Seamounts, and that of A. verrucosus; D, NSMT-P 41168, 187.2 mm SL, New Zealand; nasal of oreosomatids; E, A. folletti, SNFR 10561, 347 mm SL, Emperor Seamounts; F, A. verrucosus, NSMT-P 113107, 238.4 mm SL, west coast of Australia. Abbreviations: NA, nasal; PN, posterior nostril.
Fig. 3 in Identification of the Commercially Important Oreosomatid Fish (Zeiformes: Teleostei) of the Emperor Seamounts, with Comments on Diagnostic Characters of the Species
Fig. 3. Lateral aspect (above) and abdomen (below) of Allocyttus folletti. A, SNFR 10560, 293.4 mm SL, Emperor Seamounts; B, CAS-SU 15377, holotype of Allocyttus folletti, off California, traced from Myers (1960: fig. 1). Arrows indicate the rows of scutes.
Fig. 2 in Identification of the Commercially Important Oreosomatid Fish (Zeiformes: Teleostei) of the Emperor Seamounts, with Comments on Diagnostic Characters of the Species
Fig. 2. Scales on mid-side of body in, (A) Allocyttus folletti, FAKU 72575, 397 mm SL, Emperor Seamounts, and (B) Allocyttus verrucosus, NSMT-P 113107, 238.4 mm SL, Australia; enlarged scales of dorsal-fin base (S-DFB) in (C) A. folletti, SNFR 22403, 289.3 mm SL, Emperor Seamounts, and (D) A. verrucosus, BSKU 48476, 136.5 mm SL, off South Africa.
Fig 2 in A study on some commercial fishes of Nyaw-byin coastal water, Launglone Township, Tanintharyi region, Myanmar
Fig 2(A- J): Commercial fishes: A) Albennes hians, B) Tenualosa ilisha, C) Chirocentrus dorab, D) Mugil cephalus, E) Megalaspis cordyla, F), Scomberoides tala G), Drepane punctate H), Lutjanus lunulatus I), Monodactylus argenteus J) Nibea soldado.
Figure 8 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil
Figure 8. Most preferred places for fishing by commercial fishermen in the municipality of Barcelos, in the middle Negro River basin, Amazonas.
Figure 7 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil
Figure 7. Aquatic environment where commercial fishing takes place in the municipality of Barcelos, in the middle Negro River basin, Amazonas.
Figure 4 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil
Figure 4. Schooling of commercial fishermen in the municipality of Barcelos, in the middle Negro River basin, Amazonas. I.B.E.: incomplete basic education; C.B.E.: complete basic education; I.H.S.: incomplete high school and C.H.S.: complete high school.
Figure 3 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil
Figure 3. Length of residence of commercial fishermen in the municipality of Barcelos, in the middle Negro River basin, Amazonas.
Figure 2 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil
Figure 2. Age range of commercial fishermen in the municipality of Barcelos, in the middle Negro River basin, Amazonas.
Figure 9 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil
Figure 9. Transports used by fishermen in commercial fishing activities in the municipality of Barcelos, in the middle Negro River basin, Amazonas. Table 4. Monitoring of fisheries according to fishers of commercial edible fish in rural and urban areas of the municipality of Barcelos, middle Negro River, Amazonas state, Brazil.
Figure 6 in Socioeconomic aspects and profile of fishing according to fishers of commercial edible fish in the municipality of Barcelos, middle Negro River, Amazonas, Brazil
Figure 6. Fishing instruments used by commercial fishermen in the municipality of Barcelos, in the middle Negro River basin, Amazonas. Harpoon: long instrument, similar to a spear, used in fishing to catch larger fish; Trolling fishing: hook fishing which consists of casting the line while the boat is drifting in the river; Longline fishing: fishing line composed of a main line and secondary lines that are registered at regular intervals with hooks at the ends and Fishing fork (zagaia): harpoon consisting of three to five teeth fixed to a wooden pole.
Figure 2 in Microplastics in commercial fish digestive tracts from freshwater habitats in Northern Thailand
Figure 2. Examples of fish species collected and some of the microplastic items found in these species.
Figure 1 in Microplastics in commercial fish digestive tracts from freshwater habitats in Northern Thailand
Figure 1. Location of fish sampling; upper Ban Tam stream (ST1, 19.218890, 99.752027, 528 m a.s.l.), middle Ban Tam stream (ST2, 19.232346, 99.765564, 481 m a.s.l.), Kwan Phayao reservoir (ST3, 19.120415, 99.946195, 391 m a.s.l.), and Nong Leng Sai reservoir (ST4, 19.391076, 99.819014, 398 m a.s.l.).
Figure 7 in Microplastics in commercial fish digestive tracts from freshwater habitats in Northern Thailand
Figure 7. Comparison of abundance of plastics among fishes from different habit groups (herbivorous, carnivorous, omnivorous, and scavenger).
Figure 6 in Microplastics in commercial fish digestive tracts from freshwater habitats in Northern Thailand
Figure 6. Pearson correlation between fish body weight and length and MP abundance of fish samples (n=166). Linear regression analysis for number of microplastic with fish body weight (a), and body length.
Figure 3 in Microplastics in commercial fish digestive tracts from freshwater habitats in Northern Thailand
Figure 3. Abundance of microplastics in the digestive tract of fish species collected from freshwater habitats in northern Thailand.
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International Brain Laboratory public data
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