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34 results for “English Channel”

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zenodo48/100

Macroscopic, histological and stereological image dataset of the Striped red mullet (Mullus surmuletus) ovaries from the English Channel (ICES area 27.7.d) stock

<p><strong>Contents: </strong></p> <p>This dataset can be completed with the : <strong>Macroscopic, histological and stereological image dataset of the Striped red mullet (<em>Mullus surmuletus</em>) ovaries from the Bay of Biscay (ICES area 27.7.g,j &amp; 27.8.a-c) stock</strong>, which can also be found on the Zenodo repository.</p> <p>This dataset contains the macroscopic and histological images of the ovaries of 214 Striped red mullet (female, <em>Mullus surmuletus</em>, Linnaeus 1758) collected from the English Channel stock (ICES area 27.7.d) in February 2021 (n=20), March 2021 (n=13), April 2021 (n=12), May 2021 (n=15), August 2021 (n=15), September 2021 (n=15), October 2021 (n=41), November 2021 (n=10), December 2021 (n=14), January 2022 (n=30), February 2022 (n=15) and August 2022 (n=14).</p> <p>&nbsp;</p> <p><strong>Images:</strong></p> <ul> <li><strong>Macroscopic_pictures.zip: </strong>archive in zip format of 621 pictures (.JPG; 2Mo-8Mo; JPG; 350pp) from 211 female Striped red mullets dissected during this study. Each photo was taken with a digital camera (no flash). For each individual, up to three pictures were taken when possible (Le Meleder <em>et al.</em>, 2022) with : <ul> <li>one picture of the entire fish with its abdominal cavity open with the ovaries in view</li> <li>one picture of the whole fish with the ovaries outside of the abdominal cavity</li> <li>one picture of the ovaries</li> <li>the name of the picture is the same as the fish&rsquo;s ID number.</li> </ul> </li> </ul> <ul> <li><strong>Histology_slides.zip :</strong> archive in zip format containing the ovarian histological slides digitized using an Olympus V120 slide scanner, x20 lens. The pictures (.vsi from the OlympusVSI format) are of the 484 histological slides acquired during this study.</li> <li>Data was split for smaller size downloads : <ul> <li><strong>Histology_slides_1of5 :</strong> histological sections for individuals numbered 001 to 045</li> <li><strong>Histology_slides_2of5 :</strong> histological sections for individuals numbered 046 to 138</li> <li><strong>Histology_slides_3of5 :</strong> histological sections for individuals numbered 154 to 180</li> <li><strong>Histology_slides_4of5 :</strong> histological sections for individuals numbered 196 to 270</li> <li><strong>Histology_slides_5of5 :</strong> histological sections for individuals numbered 271 to 334</li> </ul> </li> </ul> <p>&nbsp;</p> <p><strong>Data:</strong></p> <ul> <li><strong>Readings.zip :</strong> archive in zip format containing the stereology reading results of the ovarian histological slides. In this folder, three directories are available. <ul> <li><strong>Calibration</strong> : Reading results of 4 different agents, with the first and last readings, as well as the Qupath scripts used.</li> <li><strong>Homogeneity</strong> : Reading results for 96 histological slides used to check the cellular homogeneity inter- and intra-gonad. These 96 slides belong to 16 fish, with three histological samples taken in the anterior (1), median (2) and posterior (3) sections of the left (G) and right (D) ovaries. A QuPath folder is also present, containing the scripts used.</li> <li><strong>Total </strong>: Reading results for 214 ovarian histological slides of the median position of either the left or right ovary. One median slide was read per sampled fish. A QuPath folder is also present, containing the scripts used.</li> </ul> </li> </ul> <ul> <li><strong>Macro_MULL_read_me.txt</strong> : a text file (.txt) listing the acronyms used in the <strong>Macro_MULL.xlsx</strong> file, as well as their meaning.</li> <li><strong>Macro_MULL.xlsx</strong> : Excel file (.xlsx) containing measurements of macroscopic parameters for all 214 fish sampled during this study. The information contained in this table is as follows: <ul> <li>Fish_id: identification of the fish. This id is identical to the name given to the pictures of the full ovaries (<strong>Macroscopic_pictures_Data</strong>)</li> <li>ICES _Division: International Council for the Exploration of the Sea (ICES) division where the fish was sampled in the Food and agricultural Organization of the United nations (FAO) fishing area 27</li> <li>ICES_statistical_rectangle : Statistical rectangle where the fish was sampled within the FAO fishing area 27</li> <li>Date: date the fish was caught (dd/mm/yyyy)</li> <li>Total_fish_length: total length of the fish (cm)</li> <li>Ungutted_fish_weight: total weight of the fish (g)</li> <li>Otolith_ID: unique identification number given to each sampled fish through the Imagine (Ellebode <em>et al.</em>, 2022) software used by IFREMER</li> <li>Parasite: presence (Y) or absence (N) of parasite in or on the fish</li> <li>age: age (in years) of the fish after analysis of the fish&rsquo;s otolith. The IFREMER laboratory of Boulogne-sur-Mer (FRANCE) executed this analysis</li> <li>Visual_maturity : visually estimated maturity, after observation macroscopic criteria of the fish&rsquo;s gonad with the naked eye, following the WKASMSF (ICES, 2018) scale</li> <li>Liver_weight: liver weight (g)</li> <li>Droite_gonad_weight : gonad weight (g) of right ovary</li> <li>Gauche_gonad_weight : gonad weight (g) of left ovary</li> <li>Sections: number of cross sections sampled for the individual</li> </ul> </li> </ul> <ul> <li><strong>Stereo_MULL_read_me.txt</strong> : a text file (.txt) listing the acronyms used in the <strong>Stereo_MULL.csv</strong> file, as well as their meaning.</li> <li><strong>Stereo_MULL.csv</strong> : a text data file (.csv) of the stereology count results of 294 slides read during this study. Among these slides, 96 were read to test the homogeneity distribution of different cell types found throughout each ovary (16 fish with 6 histological sections : a median, an anterior and a posterior histological section, for both ovaries), slides were read by multiple agents for calibration purposes (see <strong>Calibration</strong> folder for reading results of the 4 agents). Finally, 214 median histological ovarian slides were read. The information contained in this table is as follows: <ul> <li>cell_type: structure identified for one sample point (for the abbreviations, see Heude-Berthelin <em>et al.</em> 2023)</li> <li>idpt: identification number of the sampling point</li> <li>id: unique complex identification number of the sampling point generated by combining the x and y coordinates</li> <li>x: x coordinate of the sampling point</li> <li>y: y coordinate of the sampling point</li> <li>reading: Indicates if the reading data was used to test cellular homogeneity (Homogeneity) or to the sexual maturity phase</li> <li>slideid: identification number of the digitized histological slide that was used for the stereological count. Shares the same 12 first characters with <strong>Fish_id</strong></li> </ul> </li> </ul>

opencc-by-4.0Jun 2023View details →
zenodo44/100

Water Body Checklists 2019: English Channel Species List

Species checklists created using effechecka and modified polygons from IHO. The polygons were reduced in resolution.<p></p>List of species collected from the English Channel using effechecka and a modified polygon from the International Hydrographic Association. A filter was applied (based on data from WoRMS) to remove all non-marine taxa.

opencc-by-4.0Aug 2024View details →
zenodo44/100

Water Body Checklists: English Channel Species List

Species checklists created using effechecka and modified polygons from IHO. The polygons were reduced in resolution.<p></p>List of species collected from the English Channel using effechecka and a modified polygon from the International Hydrographic Association. A filter was applied (based on data from WoRMS) to remove all non-marine taxa.

opencc-zeroAug 2024View details →
zenodo40/100

Fig. 4 in Morphological and molecular identification of Cryptocotyle lingua metacercariae isolated from Atlantic cod (Gadus morhua) from Danish seas and whiting (Merlangius merlangus) from the English Channel

Fig. 4 Phylogenetic trees based on cox1 mtDNA (left tree) and ITS rDNA (right tree) sequences using the ML method with 1000 bootstraps

opencc-by-4.0Aug 2021View details →
zenodo40/100

Fig. 3 in Morphological and molecular identification of Cryptocotyle lingua metacercariae isolated from Atlantic cod (Gadus morhua) from Danish seas and whiting (Merlangius merlangus) from the English Channel

Fig. 3 Excysted Cryptocotyle lingua metacercariae at different degrees of contraction a in whiting from the English Channel, b in cod from Danish waters

opencc-by-4.0Aug 2021View details →
zenodo40/100

Fig. 2 in Morphological and molecular identification of Cryptocotyle lingua metacercariae isolated from Atlantic cod (Gadus morhua) from Danish seas and whiting (Merlangius merlangus) from the English Channel

Fig. 2 Morphology of excysted Cryptocotyle lingua metacercariae (ventral view) from Gadus morhua and Merlangius merlangius. Abbreviations: bi.i, bifurcation of intestine; e, oesophagus; ex.c, excretory canal; ex.p, excretory pore; ic, intestinal caecum; pp, prepharynx; ph, pharynx; ov, ovary; os, oral sucker; s.r, seminal receptacle; t, testis; vg.c, ventrogenital complex; vi, vitellaria; ① distance from oral sucker to end of pharynx; ② distance from oral sucker to intestinal branches; ③ width 1; ④ width 2; ⑤ oral sucker diameter; ⑥ ventrogenital complex diameter; ⑦ total length

opencc-by-4.0Aug 2021View details →
zenodo40/100

Fig. 1 in Morphological and molecular identification of Cryptocotyle lingua metacercariae isolated from Atlantic cod (Gadus morhua) from Danish seas and whiting (Merlangius merlangus) from the English Channel

Fig. 1 Infected Atlantic cod (Gadus morhua) (a) and microscope observation of encysted metacercariae in caudal fin (b)

opencc-by-4.0Aug 2021View details →
zenodo40/100

Figure S4 in Spatiotemporal patterns in marine fish and cephalopods communities across scales: using an autoregressive spatiotemporal clustering model. A study of fish and cephalopods of the Eastern English Channel

Figure S4. – Spatial-temporal correlation matrix at a 782 km2 (A) and 1043 km2 (B) scale displaying correlation from strongly negative (dark blue) to strongly positive (dark red).

opencc-by-4.0Dec 2020View details →
zenodo40/100

Figure S2 in Spatiotemporal patterns in marine fish and cephalopods communities across scales: using an autoregressive spatiotemporal clustering model. A study of fish and cephalopods of the Eastern English Channel

Figure S2. – Spatial hierarchical clustering at a 782 km2 (A) and 1043 km2 (B) scale. The rectangle outlines the communities that where find statistically significant by ASTEC given the approximately unbiased p-values expressed as proportion (red).

opencc-by-4.0Dec 2020View details →
zenodo40/100

Figure 2 in Spatiotemporal patterns in marine fish and cephalopods communities across scales: using an autoregressive spatiotemporal clustering model. A study of fish and cephalopods of the Eastern English Channel

Figure 2. – Spatial correlation matrix at a 522 km2 scale displaying correlation from strongly negative (dark blue) to strongly positive (dark red).

opencc-by-4.0Dec 2020View details →
zenodo40/100

Figure 11 in Spatiotemporal patterns in marine fish and cephalopods communities across scales: using an autoregressive spatiotemporal clustering model. A study of fish and cephalopods of the Eastern English Channel

Figure 11. – Scophthalmus rhombus from low (blue) to high (red) median densities of numbers/ km2 in log scale for 522 km2 for the Eastern English Channel.

opencc-by-4.0Dec 2020View details →
zenodo40/100

Figure S5 in Spatiotemporal patterns in marine fish and cephalopods communities across scales: using an autoregressive spatiotemporal clustering model. A study of fish and cephalopods of the Eastern English Channel

Figure S5. – Spatial-temporal hierarchical clustering at a 782 km2 (A) and 1043 km2 (B) scale. The rectangle outlines the communities that where find statistically significant by ASTEC given the approximately unbiased p-values expressed as proportion (red).

opencc-by-4.0Dec 2020View details →
zenodo32/100

Figure 11 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 11: (a) Main regions of interest for nonindigenous species dispersion along the coast of Brittany. Main ports with pontoons (circles in shades of red). Dataset from www. portsdebretagne.fr. Main oyster farming areas in blue (Magallana gigas). Dataset "Cadastre conchylicole" obtained on the site geo.data. gouv.fr. Data were updated in 2020 for Finistère and Morbihan, in 2017 for Côtes d'Armor, in 2016 for Ille-et-Vilaine, in 2011 for LoireAtlantique. (b) Main vectors for nonindigenous species along the coast of Brittany. Some presumed examples of dispersion for maritime traffic in light blue (e.g. Symphyocladiella dendroidea), oyster transfer in orange (e.g. Polyopes lancifolius), marginal dispersion in dark blue (e.g. Pachymeniopsis lanceolata or Solieria sp.).

opennotspecifiedApr 2023View details →
zenodo32/100

Figure 10 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 10: Symphyocladiella dendroidea from Brittany: (a) general habit showing alternate branches and ultimate proliferations; (b) dried specimen from Brest marina (Herbarium of the European Institute for Marine Studies); (c) apex with characteristic pyramidal outline aspect; (d) branches bearing cystocarps; (e) series of tetrasporangia in branchlets. Scale bars: (a and b) 500 µm; (c–e) 200 µm.

opennotspecifiedApr 2023View details →
zenodo32/100

Figure 8 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 8: Polysiphonia morrowii from Brittany: (a) dried specimen from Brest marina (Herbarium M. Helias); (b) general habit showing characteristic spike branches; (c) apex with secondary branches giving a spike aspect; (d) transverse section with four pericentral cells; (e) rhizoid with open section; (f) variation in branch tips; (g) tetrasporangia. Scale bars: (a) 5 cm; (b) 500 µm; (c) 100 µm; (d–g) 20 µm.

opennotspecifiedApr 2023View details →
zenodo32/100

Figure 5 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 5: Botryocladia wrightii from Brittany: (a) in situ material from Tréveneuc (picture by F. Gully and M. Cochu); (b) general habit; (c) cortex and subcortex in transverse section; (d) immature cystocarp lacking carpostome in surface view. Scale bars: (a and b) 2 cm; (c and d) 100 µm.

opennotspecifiedApr 2023View details →
zenodo32/100

Figure 6 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 6: Pachymeniopsis lanceolata from Brittany: (a) general habit; (b) tetrasporophyte with numerous marginal proliferations (Herbarium T. Burel); (c) longitudinal section. Scale bars: (a–c) 2 cm; (d) 100 µm.

opennotspecifiedApr 2023View details →
zenodo32/100

Figure 7 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 7: Polyopes lancifolius from Brittany: (a) general habit showing characteristic proliferations; (b) in situ material from Bréhat (picture by T. Burel); (c) dried specimen from the Gulf of Morbihan (Herbarium A. Le Roux), winter form lacking proliferations; (d) vertical section through old axis showing a thick cortex. Scale bars: (a–c) 2 cm; (d) 50 µm.

opennotspecifiedApr 2023View details →
zenodo32/100

Figure 1 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 1: Map of Brittany showing the sites examined during the study, ca. 2018–2022. Blue squares represent sites visited during the citizen science program or during courses at the university, black dots represent sites visited during the monitoring program.

opennotspecifiedApr 2023View details →
zenodo32/100

Figure 3 in Range expansion of some non-indigenous seaweeds along the coasts of Brittany - English Channel

Figure 3: Antithamnion hubbsii from Brittany: (a) dried specimen from Brest marina (herbarium of the European Institute for Marine Studies); (b) general habit; (c) characteristic segment showing a cell of the main axis, the opposite distichous branching and the opposite branchlets bearing glandular cells; (d) portion of axis with tetrasporangia; (e) branches and branchlets bearing glandular cells (arrowheads). Scale bars: (a) 5 mm; (b) 2 mm; (c–e) 50 µm.

opennotspecifiedApr 2023View details →

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