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FIGURE 8 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 8 | Heniochus acuminatus. A. The SRV frame recorded on MAR 2019 at Redonda Island, inside of the MPA, close to Acanthurus bahianus; B. H. acuminatus photographed in April 2022 (photo by Augusto A. Machado).

FIGURE 4 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 4 | Elasmobranchs commonly observed on Rio de Janeiro coastal islands rockyreefs: A. Gymnura altavela, B. Myliobatis freminvillei, and C. Zapteryx brevirostris; new records D. Sarda sarda and E. Chromis vanbebberae; and the most common species: F. Diplodus argenteus, G. Cantherhines pullus, and H. Haemulon aurolineatum. Photos: Augusto A. Machado (A–B), Suzana Guimarães (D), Áthila A. Bertoncini (C, E–H).

FIGURE 3 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 3 | The richest families reported along the coastal islands and surrounding waters of Rio de Janeiro metropolitan region, Brazil.

FIGURE 2 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 2 | Submersible Rotating Videos "SRV" in operation on Redonda Island. Photo: Áthila A. Bertoncini.

FIGURE 10 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 10 | Venn diagram representing exclusive and shared species richness recorded in the study areas: large-bold-grey numbers are the total number of species in each area; small numbers represent exclusive species in each area; medium size numbers represent the share between/among areas.

FIGURE 1 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 1 | Maps and photographs of the study area (Coastal Islands of Rio de Janeiro metropolitan region). A. The State of Rio de Janeiro in Southeast Brazil; B. The Guanabara Bay and the archipelagos/islands along the southern coast, Z13 fishermen's colony (red square) and Z7 fishermen's colony (red circle); C. Tijucas Archipelago; D. Cagarras Archipelago and Redonda Island and Filhote da Redonda Islet forming the MONA Cagarras MPA; E. Cotunduba Island; F. Rasa Island; G. Maricás Archipelago; H. Aerial view from West of the Tijucas Archipelago; I. Aerial view from Northwest of MONA Cagarras, depicting Rasa Island in the far background; J. Aerial view from Southeast of Cotunduba Island; K. Aerial view from East of the Maricás Archipelago. Credits: Augusto A. Machado (A-G); Áthila A. Bertoncini (H, I, K); Fred Cunha (J).

FIGURE 9 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 9 | Doughnut chart showing the assigned categories (%) of threatened fish species according to the IUCN and the Brazilian (ICMBio, 2018) red lists. CR = Critically Endangered, DD = Data Deficient, EN = Endangered, LC = Least Concern, NE = Not Evaluated, NT = Near Threatened, VU = Vulnerable.

FIGURE 6 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 6 | Rare fish species recorded on Rio de Janeiro coastal islands rockyreefs: A. Hippocampus reidi, B. Callionymus bairdi, C. Haemulon plumierii, D. Sargocentron bullisi, E. Chromis flavicauda, F. Pronotogrammus martinicensis, G. Centropyge aurantonotus, and H. Bodianus rufus. Photos: Áthila A. Bertoncini.

FIGURE 5 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 5 | Rare fish species recorded on Rio de Janeiro coastal islands rocky reefs: A. Thalassoma noronhanum, B. Paranthias furcifer, C. Xyrichtys splendens, D. Clepticus brasiliensis, E. Eques lanceolatus, F. Uraspis secunda, G. Scarus zelindae and H. Ptereleotris randalli. Photos: Áthila A. Bertoncini (A–B, E–H), Augusto A. Machado (C, D).

FIGURE 7 in Rocky reef fish biodiversity and conservation in a Brazilian Hope Spot region

FIGURE 7 | Two cryptic species observed at a particular gravel bottom at Tijucas Archipelago. A. Gobulus myersi (new record) and Paraclinus spectator. Photos: Áthila A. Bertoncini.

FIGURE 8 in Genetic connectivity in the spotted rose snapper Lutjanus guttatus (Lutjaniformes: Lutjanidae) between Mexico and Panama throughout the Tropical Eastern Pacific

FIGURE 8 | Mantel test of correlation between genetic (y-axis) and geographic distances (x-axis) among sampled locations. The black line represents the central tendency among the dots in the scatterplot.

FIGURE 7 in Genetic connectivity in the spotted rose snapper Lutjanus guttatus (Lutjaniformes: Lutjanidae) between Mexico and Panama throughout the Tropical Eastern Pacific

FIGURE 7 | STRUCTURE-like plot illustrating cluster membership for all admixed individuals having <0.5 probability of membership to any group. Sampled locations include La Paz (LAP), Colima (COL), Oaxaca (OAX), Chiriquí (CHI), and Port of Panama (PP).

FIGURE 2 in Genetic connectivity in the spotted rose snapper Lutjanus guttatus (Lutjaniformes: Lutjanidae) between Mexico and Panama throughout the Tropical Eastern Pacific

FIGURE 2 | Genetic diversity in Lutjanus guttatus from five sampled locations. Numbers of alleles (NA), effective alleles (NEA), and private alleles (NPA) and observed (HO) and unbiased expected heterozygosities (uHE).

FIGURE 1 in Genetic connectivity in the spotted rose snapper Lutjanus guttatus (Lutjaniformes: Lutjanidae) between Mexico and Panama throughout the Tropical Eastern Pacific

FIGURE 1 | Sampling sites for adult Lutjanus guttatus along the Tropical Eastern Pacific. La Paz (PAZ), Colima (COL), and Oaxaca (OAX) are in Mexican waters and Chiriquí (CHI) and Panama Port (PAN) are in Panama.

FIGURE 5 in Genetic connectivity in the spotted rose snapper Lutjanus guttatus (Lutjaniformes: Lutjanidae) between Mexico and Panama throughout the Tropical Eastern Pacific

FIGURE 5 | Discriminant Analysis of Principal Components (DAPC) of Lutjanus guttatus from five sampled sites based on 12 microsatellite loci, 80 PCs, and four DA eigenvalues. Sampled locations include La Paz (LAP), Colima (COL), Oaxaca (OAX), Chiriquí (CHI), and Port of Panamá (PP).

FIGURE 4 in Genetic connectivity in the spotted rose snapper Lutjanus guttatus (Lutjaniformes: Lutjanidae) between Mexico and Panama throughout the Tropical Eastern Pacific

FIGURE 4 | UPGMA dendrogram of Lutjanus guttatus from five sampled locations along the Pacific coast of Mexico (La Paz, Colima, Oaxaca) and Panama (Chiriquí, Port of Panama) based on Nei's genetic distance (1972). Numbers on the nodes indicate the percent of times the illustrated topology was found with 10,000 bootstrap replicates.

FIGURE 6 in Genetic connectivity in the spotted rose snapper Lutjanus guttatus (Lutjaniformes: Lutjanidae) between Mexico and Panama throughout the Tropical Eastern Pacific

FIGURE 6 | STRUCTURE-like plot with estimated cluster memberships for all individuals derived from the DAPC. Sampled locations include La Paz (LAP), Colima (COL), Oaxaca (OAX), Chiriquí (CHI), and Port of Panama (PP).

opencc-by-4.0Aug 2024View details →

Macroscopic, histological and stereological image dataset of Four-Spot megrim (Lepidorhombus boscii) ovaries from the ICES Celtic Seas and Bay of Biscay Ecoregions

Contents:  This dataset contains the macroscopic and histological images of the ovaries of 68 Four-spot megrim (female, Lepidorhombus boscii (Risso, 1810)) collected from the ICES Celtic Seas or Bay of Biscay Ecoregions (Eco) in November 2019 (n=25; Eco=7j), November 2020 (n=16, Eco=7h & 7j), October 2021 (n=12, Eco=8a,b,c) and November 2021 (n=15, Eco=7j) during the annual scientific campaign EVHOE (Evaluation Halieutique Ouest de l'Europe).   Images: <ul> <li>Macroscopic_pictures.zip: archive in zip format of 139 pictures (.JPG; 2Mo-6Mo; JPG; 350pp) from 51 female Four-spot megrim 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 et al., 2022) with : </li> <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's ID number.</li> </ul> <li>Histology_slides.zip : archive in zip format containing the ovarian histological slides digitized using an Aperio CS (Scan Scope Console software, v.10.2.0.2352), x20 lens. The whole slide images (.svs) are of the 218 histological slides acquired during this study. </li> </ul>   Data: <ul> <li>QuPath.zip : archive in zip format containing the reading grids for the stereology readings of the histological cross sections of the ovaries under QuPath. For more information on QuPath stereology readings, see Dubroca et al. (2023) in References.</li> <ul> <li>Stereo_BOS_read_me.txt : a text file (.txt) listing the acronyms used in the stereology reading grids under QuPath, as well as their meaning</li> </ul> <li>Macro_BOS_read_me.txt : a text file (.txt) listing the acronyms used in the Macro_BOS.xlsx file, as well as their meaning.</li> <li>Macro_BOS.csv : Data file (.csv) containing measurements of macroscopic parameters for all 68 fish sampled during this study. The information contained in this table is as follows: </li> <ul> <li>Fish_id: identification of the fish. This id is identical to the name given to the pictures of the full ovaries (Macroscopic_pictures_Data)</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 et al., 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'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'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> </ul>   Contact : This dataset was established under the MATO (MATurité Objectif des poissons par l'histologie quantitative) project, during the PhD of Carine Sauger (October 2021-2023), financed by France Fillière Pêche (FFP/2020/AM/MF/109), under the supervision of IFREMER (Institut Français de Recherche pour l'Exploitation de la Mer) and BOREA (Biologie des Organismes et Ecosystèmes Aquatiques), and with the collaboration of a research facility from the University of Caen-Normandie : CMABIO3 (Centre de Microscopie Appliquée à la Biologie). For any enquiries, please contact: carine.sauger@gmail.com or laurent.dubroca@ifremer.fr

opencc-by-4.0Aug 2024View details →

Data From: Clinical evaluation of patterned dried plasma spot cards to support quantification of HIV viral load and reflexive genotyping

This is the data set from all figures and tables from the manuscript "Clinical evaluation of patterned dried plasma spot cards to support quantification of HIV viral load and reflexive genotyping", which is posted to the ChemRxiv preprint server (10.26434/chemrxiv-2024-5bqm7) and currently in consideration for peer-reviewed publication elsewhere.