{"help":"https://catalogue.cioos.ca/api/3/action/help_show?name=package_show","success":true,"result":{"id":"0c1ca3f3-7529-425b-ad3f-563791c8c3af","ecv":[],"eov":["fishAbundanceAndDistribution","marineTurtlesBirdsMammalsAbundanceAndDistribution"],"url":null,"name":"ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6","tags":[],"type":"dataset","notes":"La caractérisation des espèces par l’ADN environnemental (ADNe) est une méthode qui permet d’utiliser l’ADN libéré dans l’environnement par les organismes de diverses sources (sécrétions, fèces, gamètes, tissus, etc.). C’est un outil complémentaire aux méthodes standards d’échantillonnage pour l’identification de la biodiversité. Ce projet fournit une liste d’espèces de poissons et de mammifères marins dont l’ADN a été détecté dans des échantillons d’eau collectés entre 2019 et 2021 à l’aide du marqueur mitochondrial MiFish (12S).\n\nLes relevés ont été réalisés à l’été 2019 (14-18 juillet) et (30 juillet - 5 août), à l’automne 2020 (27-28 octobre) et à l’été-automne 2021 (31 mai - 3 juin) et (24-25 août) entre Forestville et Godbout (Haute-Côte-Nord). L’échantillonnage a été réalisé entre 1-50 mètres de profondeur dans 91 stations, avec 1 à 3 réplicats par station. La collecte a eu lieu à partir des navires NGCC Leim et le Clovert, ainsi qu'à partir de la berge. Deux litres d’eau ont été filtrés sur un filtre en fibre de verre de 1.2 µm. Les extractions de l’ADN ont été effectuées avec le kit d’extraction *DNeasy Blood and Tissue* ou *PowerWater (Qiagen)*. Des contrôles négatifs de terrains, d’extractions et de PCR ont été ajoutés aux différentes étapes du protocole. Les librairies ont été préparées soit par Génome Québec (2019, 2020) ou par le Laboratoire de Génomique de l’Institut Maurice-Lamontagne (2021), puis séquencées sur un système NovaSeq 4000 PE250 par Génome Québec. L’analyse bio-informatique des séquences obtenues a été réalisée à l’aide d’un pipeline d’analyse développé au laboratoire de Génomique. Une première étape a permis l’obtention d’une table d’unité moléculaire opérationnelle de taxonomie (*Molecular operational taxonomic unit*, MOTU) à l’aide du logiciel Cutadapt pour le retrait des adaptateurs et du paquet R DADA2 pour la filtration, la fusion, le retrait des chimères et la compilation des données. La table de MOTUs a par la suite été corrigée à l’aide du paquet R metabaR pour éliminer le *tag-jumping* et prendre en considération les contaminants. Les échantillons présentant une forte présence de MOTUs contaminants ont été retirés du jeu de données. Les MOTUs ont été filtrés également pour retirer toutes les séquences d'adaptateurs restantes et conserver également ceux de la taille attendue (autour de 170 pb). Finalement, les assignations taxonomiques ont été effectuées sur les MOTUs à l’aide du programme BLAST+ en utilisant la base de données de NCBI-nt. Les niveaux taxonomiques (espèce, genre ou famille) ont été attribués en utilisant une méthode de la meilleure correspondance (*Top hit*) avec un seuil de 95%. Seules les assignations au niveau des poissons et mammifères marins ont été considérées, et les taxons détectés ont été comparés à une liste d'espèces régionales, et corrigés si besoin. Les détections d’espèce des différents réplicas ont été combinées.\n\nLe fichier fourni comprend les informations génériques de l'activité, notamment le site, le nom de la station, la date, le type de marqueur, les types des assignations utilisés pour l’identification des taxons et une liste de taxons ou espèces. La liste de taxons a été vérifiée par un expert en biodiversité de l'Institut Maurice-Lamontagne.\n\nCe projet a été financé par le Programme sur les données environnementales côtières de référence de Pêches et Océans Canada dans le cadre du Plan de protection des océans. Cette initiative vise à acquérir des données environnementales de base qui contribuent à la caractérisation des zones côtières d’importance et appuient des évaluations fondées sur des preuves ainsi que les décisions de gestion afin de préserver les écosystèmes marins. Consultez le jeu de données aussi disponible sur le portail de [**Données Ouvertes Canada**](https://ouvert.canada.ca/data/fr/dataset/f37aaeca-717d-4f13-bc42-bad029dcc9cb).","state":"active","title":"Utilisation du marqueur MiFish (12S) pour le développement d’une approche de caractérisation des espèces côtières à l’aide d’ADN environnemental (ADNe)","author":null,"extras":[{"key":"access_constraints","value":""},{"key":"contact-email","value":"Sandra.Velasquez@dfo-mpo.gc.ca"},{"key":"encoding","value":"utf8"},{"key":"guid","value":"ca.cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6"},{"key":"h_job_id","value":"4b000124-58ec-4fba-919d-d2ad1bee305b"},{"key":"h_object_id","value":"b4ef59ec-c550-4040-a637-4d5cd53c0c99"},{"key":"h_source_id","value":"61cbaa40-5cef-4ff5-9501-2e8b641bec14"},{"key":"h_source_title","value":"St. Lawrence Global Observatory"},{"key":"h_source_url","value":"https://catalogue.ogsl.ca"},{"key":"harvest_object_id","value":"b4ef59ec-c550-4040-a637-4d5cd53c0c99"},{"key":"harvest_source_id","value":"61cbaa40-5cef-4ff5-9501-2e8b641bec14"},{"key":"harvest_source_organization","value":"{\"id\": \"b9a157db-ac56-4a28-aee9-899a35f463c6\", \"name\": \"slgo\", \"title\": \"Observatoire global du Saint-Laurent\", \"type\": \"organization\", \"description\": \"\", \"image_url\": \"\", \"created\": \"2026-07-31T15:58:21.306495\", \"is_organization\": true, \"approval_status\": \"approved\", \"state\": \"active\", \"description_translated\": {\"en\": \"Created in 2005 by federal and provincial government as well as academic institutions and community organizations, the St. Lawrence Global Observatory (SLGO) makes it possible to maximize the benefits of data collection by integrating multidisciplinary data from multiple partners on a single web portal. Promoting data discovery and re-use, SLGO counts 48 members and is recognized throughout the world.\\r\\n\\r\\nThe content distributed by SLGO spans across all disciplines, themes and areas of interest that data-producing members choose to make accessible. A large amount of scientific and environmental information is already available through SLGO's portal. Furthermore, in order to maximize data availability, SLGO's team develops user-friendly web applications to facilitate data visualization and download in various formats.\\r\\n\\r\\nSLGO is, as such, responsible for the activities of the region of the St. Lawrence of CIOOS. To contribute, we invite you to contact us.\", \"fr\": \"Cr\\u00e9\\u00e9 en 2005 par un regroupement d\\u2019organisations provenant du gouvernement f\\u00e9d\\u00e9ral et provincial, du milieu acad\\u00e9mique et communautaire, l\\u2019Observatoire global du Saint-Laurent permet de maximiser les retomb\\u00e9es de la collecte de donn\\u00e9es par l\\u2019int\\u00e9gration de donn\\u00e9es multidisciplinaires provenant de multiples partenaires sur un portail web unique. Favorisant la d\\u00e9couverte des donn\\u00e9es et leur valorisation, l\\u2019OGSL compte actuellement 48 membres et est reconnu \\u00e0 travers le monde.\\r\\n\\r\\nLe contenu diffus\\u00e9 par l'OGSL couvre l'ensemble des disciplines, th\\u00e8mes et domaines d'int\\u00e9r\\u00eat que les membres producteurs de donn\\u00e9es choisissent de rendre accessibles. Une grande quantit\\u00e9 d'information de nature scientifique et environnementale est d\\u00e9j\\u00e0 disponible sur le portail de l'OGSL. De plus, l'\\u00e9quipe de l'OGSL d\\u00e9veloppe des applications web conviviales pour faciliter la visualisation et le t\\u00e9l\\u00e9chargement des donn\\u00e9es sous diff\\u00e9rents formats afin de maximiser la d\\u00e9mocratisation des donn\\u00e9es.\\r\\n\\r\\nL'OGSL est donc responsable des activit\\u00e9s de la r\\u00e9gion du Saint-Laurent du SIOOC. Pour contribuer, nous vous invitons \\u00e0 nous contacter.\"}, \"display_name\": \"St. Lawrence Global Observatory\", \"external_home_url\": \"https://ogsl.ca\", \"image_display_url\": \"\", \"image_url_translated\": {\"en\": \"https://ogsl.ca/wp_ogsl/logo_partenaires/OGSL_Logo.png\", \"fr\": \"https://ogsl.ca/wp_ogsl/logo_partenaires/OGSL_Logo.png\"}, \"num_followers\": 0, \"title_translated\": {\"en\": \"St. Lawrence Global Observatory\", \"fr\": \"Observatoire global du Saint-Laurent\"}, \"organization-uri\": [{\"authority\": \"\", \"code\": \"\", \"code-space\": \"\", \"version\": \"\"}]}"},{"key":"harvest_source_title","value":"St. Lawrence Global Observatory"},{"key":"legal-constraints-reference-code","value":"government-open-license-canada"},{"key":"licence","value":""},{"key":"metadata-date","value":"2026-01-07T20:33:45.156Z"},{"key":"metadata_created_source","value":"2023-05-18T14:39:14.094116"},{"key":"metadata_modified_source","value":"2026-01-07T20:41:36.209189"},{"key":"responsible-party","value":"[{\"name\": \"P\\u00eaches et Oc\\u00e9ans Canada\", \"roles\": [\"owner\", \"author\", \"collaborator\", \"pointOfContact\", \"custodian\", \"distributor\"]}, {\"name\": \"Fisheries and Oceans Canada\", \"roles\": [\"owner\", \"author\", \"collaborator\", \"custodian\", \"distributor\", \"pointOfContact\"]}]"},{"key":"spatial_harvester","value":"true"},{"key":"uri","value":"https://catalogue.ogsl.ca/dataset/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6"},{"key":"use-constraints-code","value":"licence"}],"groups":[{"id":"732f6694-3249-4d70-a1eb-bdb5838802ef","name":"resorg_fisheries-and-oceans-canada","type":"resorg","state":"active","title":"Pêches et Océans Canada","created":"2026-07-31T16:11:25.487962","group-uri":[{"code":"https://ror.org/02qa1x782","version":"","authority":"","code-space":""}],"image_url":"","description":"","display_name":"Pêches et Océans Canada","num_followers":0,"approval_status":"approved","is_organization":false,"title_translated":{"en":"Fisheries and Oceans Canada","fr":"Pêches et Océans Canada"},"external_home_url":"https://www.dfo-mpo.gc.ca","image_display_url":"","image_url_translated":{"en":"https://www.canada.ca/etc/designs/canada/wet-boew/assets/sig-blk-en.svg","fr":"https://www.canada.ca/etc/designs/canada/wet-boew/assets/sig-blk-en.svg"},"description_translated":{"en":"","fr":""}},{"id":"64a31a52-ad7b-4fec-a4c4-b1201c536ce3","name":"resorg_peches-et-oceans-canada","type":"resorg","state":"active","title":"Pêches et Océans Canada","created":"2026-07-31T16:34:05.430040","image_url":"","description":"","display_name":"Pêches et Océans Canada","num_followers":0,"approval_status":"approved","is_organization":false,"title_translated":{"en":"Pêches et Océans Canada","fr":"Pêches et Océans Canada"},"image_display_url":"","image_url_translated":{},"description_translated":{}}],"isopen":false,"private":false,"spatial":{"type":"Polygon","coordinates":[[[-69.09,48.67],[-69.06,48.8],[-68.85,48.85],[-68.69,48.95],[-68.55,49.07],[-68.39,49.16],[-68.28,49.23],[-68.11,49.28],[-67.84,49.31],[-67.68,49.32],[-67.52,49.33],[-67.4,49.33],[-67.33,49.31],[-69.06,48.61],[-69.09,48.67]]]},"citation":{"en":"[{\\\"type\\\": \\\"dataset\\\", \\\"id\\\": \\\"ca.cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6\\\", \\\"author\\\": [{\\\"given\\\": \\\"Sandra\\\", \\\"family\\\": \\\"Velasquez\\\"}, {\\\"given\\\": \\\"Audrey\\\", \\\"family\\\": \\\"Bourret\\\"}, {\\\"given\\\": \\\"Yanick Gendreau\\\", \\\"family\\\": \\\"Gendreau\\\"}, {\\\"literal\\\": \\\"Fisheries and Oceans Canada\\\"}], \\\"issued\\\": [{\\\"date-parts\\\": [\\\"2026\\\", \\\"01\\\", \\\"07\\\"]}], \\\"abstract\\\": \\\"Species characterization by environmental DNA (eDNA) is a method that allows the use of DNA released into the environment by organisms from various sources (secretions, faeces, gametes, tissues, etc.). It is a complementary tool to standard sampling methods for the identification of biodiversity. This project provides a list of fish and marine mammal species whose DNA has been detected in water samples collected between 2019 and 2021 using the mitochondrial marker MiFish (12S).\\n\\nThe surveys were carried out in the summer of 2019 (July 14-18) and (July 30 - August 5), in the fall of 2020 (October 27-28) and in the summer-fall of 2021 (May 31 - June 3) and (August 24-25) between Forestville and Godbout (Haute-C\\u00f4te-Nord). Sampling was carried out between 1-50 meters depth in 91 stations, with 1 to 3 replicates per station. The surveys took place from the CCGS Leim and Clovert, as well as from the shore. Two liters of water were filtered through a 1.2 \\u00b5m fiberglass filter. DNA extractions were performed with the DNeasy Blood and Tissues or PowerWater extraction kit (Qiagen). Negative field, extraction and PCR controls were added at the different stages of the protocol. The libraries were prepared either by G\\u00e9nome Qu\\u00e9bec (2019, 2020) or by the Genomics Laboratory of the Maurice-Lamontagne Institute (2021), then sequenced on a NovaSeq 4000 PE250 system by G\\u00e9nome Qu\\u00e9bec. The bioinformatics analysis of the sequences obtained was carried out using an analysis pipeline developed in the genomics laboratory. A first step made it possible to obtain a table of molecular operational taxonomic units (MOTU) using the Cutadapt software for the removal of the adapters and the R package DADA2 for the filtration, the fusion, removal of chimeras and compilation of data. The MOTUs table was then corrected using the R package metabaR to eliminate the tag-jumping and take contaminants into consideration. Samples showing a strong presence of contaminating MOTUs were removed from the dataset. The MOTUs were also filtered to remove all remaining adapter sequences and also retain only those of the expected size (around 170 bp). Finally, taxonomic assignments were made on the MOTUs using the BLAST+ program and the NCBI-nt database. Taxonomic levels (species, genus or family) were assigned using a best match method (Top hit), with a threshold of 95%. Only assignments at the level of fish and marine mammals were considered, and the taxa detected were compared to a list of regional species, and corrected if necessary. The species detections of the different replicas have been combined.\\n\\nThe file provided includes generic activity information, including site, station name, date, marker type, assignment types used for taxa identification, and a list of taxa or species. The list of taxa has been verified by a biodiversity expert from the Maurice-Lamontagne Institute.\\n\\nThis project was funded by Fisheries and Oceans Canada's Coastal Environmental Baseline Program under the Oceans Protection Plan. This initiative aims to acquire baseline environmental data that contributes to the characterization of significant coastal areas and supports evidence-based assessments and management decisions to preserve marine ecosystems. Consult the dataset also available on the [**Open Data Canada**](https://ouvert.canada.ca/data/en/dataset/f37aaeca-717d-4f13-bc42-bad029dcc9cb) portal.\\\", \\\"edition\\\": \\\"\\\", \\\"edition-date\\\": \\\"\\\", \\\"publisher\\\": \\\"\\\", \\\"title\\\": \\\"Use of the MiFish Marker (12S) for the Development of an Approach for Characterizing Coastal Species Using Environmental DNA (eDNA)\\\", \\\"DOI\\\": \\\"10.26071/ogsl-2239bca5-c24a\\\", \\\"language\\\": \\\"en\\\", \\\"URL\\\": \\\"https://catalogue.ogsl.ca/dataset/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6?local=en\\\"}]","fr":"[{\\\"type\\\": \\\"dataset\\\", \\\"id\\\": \\\"ca.cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6\\\", \\\"author\\\": [{\\\"given\\\": \\\"Sandra\\\", \\\"family\\\": \\\"Velasquez\\\"}, {\\\"given\\\": \\\"Audrey\\\", \\\"family\\\": \\\"Bourret\\\"}, {\\\"given\\\": \\\"Yanick Gendreau\\\", \\\"family\\\": \\\"Gendreau\\\"}, {\\\"literal\\\": \\\"Fisheries and Oceans Canada\\\"}], \\\"issued\\\": [{\\\"date-parts\\\": [\\\"2026\\\", \\\"01\\\", \\\"07\\\"]}], \\\"abstract\\\": \\\"La caract\\u00e9risation des esp\\u00e8ces par l\\u2019ADN environnemental (ADNe) est une m\\u00e9thode qui permet d\\u2019utiliser l\\u2019ADN lib\\u00e9r\\u00e9 dans l\\u2019environnement par les organismes de diverses sources (s\\u00e9cr\\u00e9tions, f\\u00e8ces, gam\\u00e8tes, tissus, etc.). C\\u2019est un outil compl\\u00e9mentaire aux m\\u00e9thodes standards d\\u2019\\u00e9chantillonnage pour l\\u2019identification de la biodiversit\\u00e9. Ce projet fournit une liste d\\u2019esp\\u00e8ces de poissons et de mammif\\u00e8res marins dont l\\u2019ADN a \\u00e9t\\u00e9 d\\u00e9tect\\u00e9 dans des \\u00e9chantillons d\\u2019eau collect\\u00e9s entre 2019 et 2021 \\u00e0 l\\u2019aide du marqueur mitochondrial MiFish (12S).\\n\\nLes relev\\u00e9s ont \\u00e9t\\u00e9 r\\u00e9alis\\u00e9s \\u00e0 l\\u2019\\u00e9t\\u00e9 2019 (14-18 juillet) et (30 juillet - 5 ao\\u00fbt), \\u00e0 l\\u2019automne 2020 (27-28 octobre) et \\u00e0 l\\u2019\\u00e9t\\u00e9-automne 2021 (31 mai - 3 juin) et (24-25 ao\\u00fbt) entre Forestville et Godbout (Haute-C\\u00f4te-Nord). L\\u2019\\u00e9chantillonnage a \\u00e9t\\u00e9 r\\u00e9alis\\u00e9 entre 1-50 m\\u00e8tres de profondeur dans 91 stations, avec 1 \\u00e0 3 r\\u00e9plicats par station. La collecte a eu lieu \\u00e0 partir des navires NGCC Leim et le Clovert, ainsi qu'\\u00e0 partir de la berge. Deux litres d\\u2019eau ont \\u00e9t\\u00e9 filtr\\u00e9s sur un filtre en fibre de verre de 1.2 \\u00b5m. Les extractions de l\\u2019ADN ont \\u00e9t\\u00e9 effectu\\u00e9es avec le kit d\\u2019extraction *DNeasy Blood and Tissue* ou *PowerWater (Qiagen)*. Des contr\\u00f4les n\\u00e9gatifs de terrains, d\\u2019extractions et de PCR ont \\u00e9t\\u00e9 ajout\\u00e9s aux diff\\u00e9rentes \\u00e9tapes du protocole. Les librairies ont \\u00e9t\\u00e9 pr\\u00e9par\\u00e9es soit par G\\u00e9nome Qu\\u00e9bec (2019, 2020) ou par le Laboratoire de G\\u00e9nomique de l\\u2019Institut Maurice-Lamontagne (2021), puis s\\u00e9quenc\\u00e9es sur un syst\\u00e8me NovaSeq 4000 PE250 par G\\u00e9nome Qu\\u00e9bec. L\\u2019analyse bio-informatique des s\\u00e9quences obtenues a \\u00e9t\\u00e9 r\\u00e9alis\\u00e9e \\u00e0 l\\u2019aide d\\u2019un pipeline d\\u2019analyse d\\u00e9velopp\\u00e9 au laboratoire de G\\u00e9nomique. Une premi\\u00e8re \\u00e9tape a permis l\\u2019obtention d\\u2019une table d\\u2019unit\\u00e9 mol\\u00e9culaire op\\u00e9rationnelle de taxonomie (*Molecular operational taxonomic unit*, MOTU) \\u00e0 l\\u2019aide du logiciel Cutadapt pour le retrait des adaptateurs et du paquet R DADA2 pour la filtration, la fusion, le retrait des chim\\u00e8res et la compilation des donn\\u00e9es. La table de MOTUs a par la suite \\u00e9t\\u00e9 corrig\\u00e9e \\u00e0 l\\u2019aide du paquet R metabaR pour \\u00e9liminer le *tag-jumping* et prendre en consid\\u00e9ration les contaminants. Les \\u00e9chantillons pr\\u00e9sentant une forte pr\\u00e9sence de MOTUs contaminants ont \\u00e9t\\u00e9 retir\\u00e9s du jeu de donn\\u00e9es. Les MOTUs ont \\u00e9t\\u00e9 filtr\\u00e9s \\u00e9galement pour retirer toutes les s\\u00e9quences d'adaptateurs restantes et conserver \\u00e9galement ceux de la taille attendue (autour de 170 pb). Finalement, les assignations taxonomiques ont \\u00e9t\\u00e9 effectu\\u00e9es sur les MOTUs \\u00e0 l\\u2019aide du programme BLAST+ en utilisant la base de donn\\u00e9es de NCBI-nt. Les niveaux taxonomiques (esp\\u00e8ce, genre ou famille) ont \\u00e9t\\u00e9 attribu\\u00e9s en utilisant une m\\u00e9thode de la meilleure correspondance (*Top hit*) avec un seuil de 95%. Seules les assignations au niveau des poissons et mammif\\u00e8res marins ont \\u00e9t\\u00e9 consid\\u00e9r\\u00e9es, et les taxons d\\u00e9tect\\u00e9s ont \\u00e9t\\u00e9 compar\\u00e9s \\u00e0 une liste d'esp\\u00e8ces r\\u00e9gionales, et corrig\\u00e9s si besoin. Les d\\u00e9tections d\\u2019esp\\u00e8ce des diff\\u00e9rents r\\u00e9plicas ont \\u00e9t\\u00e9 combin\\u00e9es.\\n\\nLe fichier fourni comprend les informations g\\u00e9n\\u00e9riques de l'activit\\u00e9, notamment le site, le nom de la station, la date, le type de marqueur, les types des assignations utilis\\u00e9s pour l\\u2019identification des taxons et une liste de taxons ou esp\\u00e8ces. La liste de taxons a \\u00e9t\\u00e9 v\\u00e9rifi\\u00e9e par un expert en biodiversit\\u00e9 de l'Institut Maurice-Lamontagne.\\n\\nCe projet a \\u00e9t\\u00e9 financ\\u00e9 par le Programme sur les donn\\u00e9es environnementales c\\u00f4ti\\u00e8res de r\\u00e9f\\u00e9rence de P\\u00eaches et Oc\\u00e9ans Canada dans le cadre du Plan de protection des oc\\u00e9ans. Cette initiative vise \\u00e0 acqu\\u00e9rir des donn\\u00e9es environnementales de base qui contribuent \\u00e0 la caract\\u00e9risation des zones c\\u00f4ti\\u00e8res d\\u2019importance et appuient des \\u00e9valuations fond\\u00e9es sur des preuves ainsi que les d\\u00e9cisions de gestion afin de pr\\u00e9server les \\u00e9cosyst\\u00e8mes marins. Consultez le jeu de donn\\u00e9es aussi disponible sur le portail de [**Donn\\u00e9es Ouvertes Canada**](https://ouvert.canada.ca/data/fr/dataset/f37aaeca-717d-4f13-bc42-bad029dcc9cb).\\\", \\\"edition\\\": \\\"\\\", \\\"edition-date\\\": \\\"\\\", \\\"publisher\\\": \\\"\\\", \\\"title\\\": \\\"Utilisation du marqueur MiFish (12S) pour le d\\u00e9veloppement d\\u2019une approche de caract\\u00e9risation des esp\\u00e8ces c\\u00f4ti\\u00e8res \\u00e0 l\\u2019aide d\\u2019ADN environnemental (ADNe)\\\", \\\"DOI\\\": \\\"10.26071/ogsl-2239bca5-c24a\\\", \\\"language\\\": \\\"fr\\\", \\\"URL\\\": \\\"https://catalogue.ogsl.ca/dataset/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6?local=fr\\\"}]"},"keywords":{"en":["Metabarcoding","eDNA","fishAbundanceAndDistribution","marineTurtlesBirdsMammalsAbundanceAndDistribution"],"fr":["Oceans","Metabarcoding","ADNe","Abondance et distribution de poissons","Abondance et distribution de tortues marines, oiseaux et mammifères","Coastal Environmental Baseline Program"]},"num_tags":0,"progress":"onGoing","projects":["Coastal Environmental Baseline Program"],"owner_org":"b9a157db-ac56-4a28-aee9-899a35f463c6","resources":[{"id":"2b3b0b68-3ac6-49ac-9bcc-4befc143485b","url":"https://catalogue.ogsl.ca/data/dfo-mpo/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6/Metadonnees_12S.csv","hash":"","name":"Métadonnées 12S","size":null,"state":"active","format":"CSV","created":"2026-01-07T20:41:36.233543","mimetype":"text/csv","position":0,"url_type":null,"cache_url":null,"package_id":"0c1ca3f3-7529-425b-ad3f-563791c8c3af","description":"Fichier de métadonnées","last_modified":null,"resource_type":null,"created_source":"2026-01-07T20:41:36.233543","mimetype_inner":null,"name_translated":{"en":"Metadata 12S","fr":"Métadonnées 12S"},"datastore_active":false,"metadata_modified":"2026-07-31T16:34:05.613432","cache_last_updated":null,"description_translated":{"en":"Metadata file","fr":"Fichier de 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variable","fr":"Dictionnaire de variable détaillant chaque variable"},"metadata_modified_source":"2026-01-07T20:41:36.219590","resource_locator_function":"","resource_locator_protocol":"WWW:LINK"},{"id":"13e11ad7-3c5a-45cc-ac5a-6560f50b0f46","url":"https://catalogue.ogsl.ca/data/dfo-mpo/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6/Assignations_12S.csv","hash":"","name":"Assignations du marqueur 12S","size":null,"state":"active","format":"CSV","created":"2026-01-07T20:41:36.233550","mimetype":"text/csv","position":2,"url_type":null,"cache_url":null,"package_id":"0c1ca3f3-7529-425b-ad3f-563791c8c3af","description":"Type de marqueur, les types des assignations utilisés pour l’identification des taxons et une liste de taxons ou espèces","last_modified":null,"resource_type":null,"created_source":"2026-01-07T20:41:36.233550","mimetype_inner":null,"name_translated":{"en":"12S marker assignments","fr":"Assignations du marqueur 12S"},"datastore_active":false,"metadata_modified":"2026-07-31T16:34:05.616307","cache_last_updated":null,"description_translated":{"en":"Type of marker, the types of assignments used for the identification of taxa and a list of taxa or species","fr":"Type de marqueur, les types des assignations utilisés pour l’identification des taxons et une liste de taxons ou espèces"},"metadata_modified_source":"2026-01-07T20:41:36.219857","resource_locator_function":"","resource_locator_protocol":"WWW:LINK"}],"datacentre":[],"license_id":"government-open-license-canada","maintainer":null,"distributor":[{"role":["distributor"],"individual-name":"Velasquez, Sandra","organisation-name":"Pêches et Océans Canada","contact-info_email":"Sandra.Velasquez@dfo-mpo.gc.ca","organisation-uri_code":"https://ror.org/02qa1x782","organisation-uri_version":"","organisation-uri_authority":"","organisation-uri_code-space":"","contact-info_online-resource":""},{"role":["distributor"],"individual-name":"Gendreau, Yanick Gendreau","organisation-name":"Fisheries and Oceans Canada","contact-info_email":"Yanick.Gendreau@dfo-mpo.gc.ca","organisation-uri_code":"https://ror.org/02qa1x782","organisation-uri_version":"","organisation-uri_authority":"","organisation-uri_code-space":"","contact-info_online-resource":""},{"role":["distributor"],"individual-name":"","organisation-name":"Fisheries and Oceans Canada","contact-info_email":"","organisation-uri_code":"https://ror.org/02qa1x782","organisation-uri_version":"","organisation-uri_authority":"","organisation-uri_code-space":""}],"author_email":null,"organization":{"id":"b9a157db-ac56-4a28-aee9-899a35f463c6","name":"slgo","type":"organization","state":"active","title":"Observatoire global du Saint-Laurent","created":"2026-07-31T15:58:21.306495","image_url":"","description":"","display_name":"St. Lawrence Global Observatory","num_followers":0,"approval_status":"approved","is_organization":true,"organization-uri":[{"code":"","version":"","authority":"","code-space":""}],"title_translated":{"en":"St. Lawrence Global Observatory","fr":"Observatoire global du Saint-Laurent"},"external_home_url":"https://ogsl.ca","image_display_url":"","image_url_translated":{"en":"https://ogsl.ca/wp_ogsl/logo_partenaires/OGSL_Logo.png","fr":"https://ogsl.ca/wp_ogsl/logo_partenaires/OGSL_Logo.png"},"description_translated":{"en":"Created in 2005 by federal and provincial government as well as academic institutions and community organizations, the St. Lawrence Global Observatory (SLGO) makes it possible to maximize the benefits of data collection by integrating multidisciplinary data from multiple partners on a single web portal. Promoting data discovery and re-use, SLGO counts 48 members and is recognized throughout the world.\r\n\r\nThe content distributed by SLGO spans across all disciplines, themes and areas of interest that data-producing members choose to make accessible. A large amount of scientific and environmental information is already available through SLGO's portal. Furthermore, in order to maximize data availability, SLGO's team develops user-friendly web applications to facilitate data visualization and download in various formats.\r\n\r\nSLGO is, as such, responsible for the activities of the region of the St. Lawrence of CIOOS. To contribute, we invite you to contact us.","fr":"Créé en 2005 par un regroupement d’organisations provenant du gouvernement fédéral et provincial, du milieu académique et communautaire, l’Observatoire global du Saint-Laurent permet de maximiser les retombées de la collecte de données par l’intégration de données multidisciplinaires provenant de multiples partenaires sur un portail web unique. Favorisant la découverte des données et leur valorisation, l’OGSL compte actuellement 48 membres et est reconnu à travers le monde.\r\n\r\nLe contenu diffusé par l'OGSL couvre l'ensemble des disciplines, thèmes et domaines d'intérêt que les membres producteurs de données choisissent de rendre accessibles. Une grande quantité d'information de nature scientifique et environnementale est déjà disponible sur le portail de l'OGSL. De plus, l'équipe de l'OGSL développe des applications web conviviales pour faciliter la visualisation et le téléchargement des données sous différents formats afin de maximiser la démocratisation des données.\r\n\r\nL'OGSL est donc responsable des activités de la région du Saint-Laurent du SIOOC. Pour contribuer, nous vous invitons à nous contacter."}},"license_title":"government-open-license-canada","num_resources":3,"resource-type":"dataset","bbox-east-long":"-67.33","bbox-north-lat":"48.61","bbox-south-lat":"49.33","bbox-west-long":"-69.09","creator_user_id":"fe6035ee-ed91-4ead-b5b2-4048232a22bb","temporal-extent":[{"end":"2021-08-25","begin":"2019-12-14"}],"vertical-extent":[{"max":"50.0","min":"1.0"}],"maintainer_email":null,"maintenance-note":"Generated from https://cioos-siooc.github.io/metadata-entry-form#/fr/stlaurent/QimW47K19EhGXEk1ZSN05cnKzxZ2/-NIIjBrOf-WWfJ_GMQ4X","metadata_created":"2026-07-31T16:34:05.619357","notes_translated":{"en":"Species characterization by environmental DNA (eDNA) is a method that allows the use of DNA released into the environment by organisms from various sources (secretions, faeces, gametes, tissues, etc.). It is a complementary tool to standard sampling methods for the identification of biodiversity. This project provides a list of fish and marine mammal species whose DNA has been detected in water samples collected between 2019 and 2021 using the mitochondrial marker MiFish (12S).\n\nThe surveys were carried out in the summer of 2019 (July 14-18) and (July 30 - August 5), in the fall of 2020 (October 27-28) and in the summer-fall of 2021 (May 31 - June 3) and (August 24-25) between Forestville and Godbout (Haute-Côte-Nord). Sampling was carried out between 1-50 meters depth in 91 stations, with 1 to 3 replicates per station. The surveys took place from the CCGS Leim and Clovert, as well as from the shore. Two liters of water were filtered through a 1.2 µm fiberglass filter. DNA extractions were performed with the DNeasy Blood and Tissues or PowerWater extraction kit (Qiagen). Negative field, extraction and PCR controls were added at the different stages of the protocol. The libraries were prepared either by Génome Québec (2019, 2020) or by the Genomics Laboratory of the Maurice-Lamontagne Institute (2021), then sequenced on a NovaSeq 4000 PE250 system by Génome Québec. The bioinformatics analysis of the sequences obtained was carried out using an analysis pipeline developed in the genomics laboratory. A first step made it possible to obtain a table of molecular operational taxonomic units (MOTU) using the Cutadapt software for the removal of the adapters and the R package DADA2 for the filtration, the fusion, removal of chimeras and compilation of data. The MOTUs table was then corrected using the R package metabaR to eliminate the tag-jumping and take contaminants into consideration. Samples showing a strong presence of contaminating MOTUs were removed from the dataset. The MOTUs were also filtered to remove all remaining adapter sequences and also retain only those of the expected size (around 170 bp). Finally, taxonomic assignments were made on the MOTUs using the BLAST+ program and the NCBI-nt database. Taxonomic levels (species, genus or family) were assigned using a best match method (Top hit), with a threshold of 95%. Only assignments at the level of fish and marine mammals were considered, and the taxa detected were compared to a list of regional species, and corrected if necessary. The species detections of the different replicas have been combined.\n\nThe file provided includes generic activity information, including site, station name, date, marker type, assignment types used for taxa identification, and a list of taxa or species. The list of taxa has been verified by a biodiversity expert from the Maurice-Lamontagne Institute.\n\nThis project was funded by Fisheries and Oceans Canada's Coastal Environmental Baseline Program under the Oceans Protection Plan. This initiative aims to acquire baseline environmental data that contributes to the characterization of significant coastal areas and supports evidence-based assessments and management decisions to preserve marine ecosystems. Consult the dataset also available on the [**Open Data Canada**](https://ouvert.canada.ca/data/en/dataset/f37aaeca-717d-4f13-bc42-bad029dcc9cb) portal.","fr":"La caractérisation des espèces par l’ADN environnemental (ADNe) est une méthode qui permet d’utiliser l’ADN libéré dans l’environnement par les organismes de diverses sources (sécrétions, fèces, gamètes, tissus, etc.). C’est un outil complémentaire aux méthodes standards d’échantillonnage pour l’identification de la biodiversité. Ce projet fournit une liste d’espèces de poissons et de mammifères marins dont l’ADN a été détecté dans des échantillons d’eau collectés entre 2019 et 2021 à l’aide du marqueur mitochondrial MiFish (12S).\n\nLes relevés ont été réalisés à l’été 2019 (14-18 juillet) et (30 juillet - 5 août), à l’automne 2020 (27-28 octobre) et à l’été-automne 2021 (31 mai - 3 juin) et (24-25 août) entre Forestville et Godbout (Haute-Côte-Nord). L’échantillonnage a été réalisé entre 1-50 mètres de profondeur dans 91 stations, avec 1 à 3 réplicats par station. La collecte a eu lieu à partir des navires NGCC Leim et le Clovert, ainsi qu'à partir de la berge. Deux litres d’eau ont été filtrés sur un filtre en fibre de verre de 1.2 µm. Les extractions de l’ADN ont été effectuées avec le kit d’extraction *DNeasy Blood and Tissue* ou *PowerWater (Qiagen)*. Des contrôles négatifs de terrains, d’extractions et de PCR ont été ajoutés aux différentes étapes du protocole. Les librairies ont été préparées soit par Génome Québec (2019, 2020) ou par le Laboratoire de Génomique de l’Institut Maurice-Lamontagne (2021), puis séquencées sur un système NovaSeq 4000 PE250 par Génome Québec. L’analyse bio-informatique des séquences obtenues a été réalisée à l’aide d’un pipeline d’analyse développé au laboratoire de Génomique. Une première étape a permis l’obtention d’une table d’unité moléculaire opérationnelle de taxonomie (*Molecular operational taxonomic unit*, MOTU) à l’aide du logiciel Cutadapt pour le retrait des adaptateurs et du paquet R DADA2 pour la filtration, la fusion, le retrait des chimères et la compilation des données. La table de MOTUs a par la suite été corrigée à l’aide du paquet R metabaR pour éliminer le *tag-jumping* et prendre en considération les contaminants. Les échantillons présentant une forte présence de MOTUs contaminants ont été retirés du jeu de données. Les MOTUs ont été filtrés également pour retirer toutes les séquences d'adaptateurs restantes et conserver également ceux de la taille attendue (autour de 170 pb). Finalement, les assignations taxonomiques ont été effectuées sur les MOTUs à l’aide du programme BLAST+ en utilisant la base de données de NCBI-nt. Les niveaux taxonomiques (espèce, genre ou famille) ont été attribués en utilisant une méthode de la meilleure correspondance (*Top hit*) avec un seuil de 95%. Seules les assignations au niveau des poissons et mammifères marins ont été considérées, et les taxons détectés ont été comparés à une liste d'espèces régionales, et corrigés si besoin. Les détections d’espèce des différents réplicas ont été combinées.\n\nLe fichier fourni comprend les informations génériques de l'activité, notamment le site, le nom de la station, la date, le type de marqueur, les types des assignations utilisés pour l’identification des taxons et une liste de taxons ou espèces. La liste de taxons a été vérifiée par un expert en biodiversité de l'Institut Maurice-Lamontagne.\n\nCe projet a été financé par le Programme sur les données environnementales côtières de référence de Pêches et Océans Canada dans le cadre du Plan de protection des océans. Cette initiative vise à acquérir des données environnementales de base qui contribuent à la caractérisation des zones côtières d’importance et appuient des évaluations fondées sur des preuves ainsi que les décisions de gestion afin de préserver les écosystèmes marins. Consultez le jeu de données aussi disponible sur le portail de [**Données Ouvertes Canada**](https://ouvert.canada.ca/data/fr/dataset/f37aaeca-717d-4f13-bc42-bad029dcc9cb)."},"title_translated":{"en":"Use of the MiFish Marker (12S) for the Development of an Approach for Characterizing Coastal Species Using Environmental DNA (eDNA)","fr":"Utilisation du marqueur MiFish (12S) pour le développement d’une approche de caractérisation des espèces côtières à l’aide d’ADN environnemental (ADNe)"},"xml_location_url":"https://catalogue-waf.ogsl.ca/metadata-files/dfo-mpo/2239bca5-c24a-4e64-897b-73f8ff22c9b6.xml","metadata-language":"fr","metadata_modified":"2026-07-31T16:34:05.619361","frequency-of-update":"asNeeded","dataset-reference-date":[{"type":"creation","value":"2019-12-14"}],"cited-responsible-party":[{"role":["author","custodian","distributor","owner","pointOfContact","collaborator"],"individual-name":"Velasquez, Sandra","organisation-name":"Pêches et Océans 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https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n 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en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Section, Gestion des données\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n gddaiss-dmsaisb@dfo-mpo.gc.ca\n \n \n \n \n \n \n Gestionnaire de données\n \n \n \n \n \n \n \n \n \n \n 2026-01-07T20:33:45.156Z\n \n \n revision\n \n \n \n \n \n \n 2023-01-30\n \n \n publication\n \n \n \n \n \n \n ISO 19115-1 Geographic information - Metadata\n \n \n First Edition 2014-04-01\n \n \n \n \n \n \n ISO 19115-2 Geographic information - Metadata\n \n \n Second Edition 2019-01\n \n \n \n \n \n \n ISO 19115-1 Geographic Information - Metadata Amendment 1\n \n \n 2018-02\n \n \n \n \n \n \n Canadian Integrated Ocean Observing System Metadata Profile of ISO 19115\n \n \n \n \n 2019-11-06\n \n \n publication\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Utilisation du marqueur MiFish (12S) pour le développement d’une approche de caractérisation des espèces côtières à l’aide d’ADN environnemental (ADNe)\n \n \n Use of the MiFish Marker (12S) for the Development of an Approach for Characterizing Coastal Species Using Environmental DNA (eDNA)\n \n \n \n \n \n \n 2019-12-14\n \n \n creation\n \n \n \n \n \n \n https://doi.org/10.26071/ogsl-2239bca5-c24a\n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Bourret, Audrey\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Audrey.bourret@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Bourret, Audrey\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Audrey.bourret@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n \n \n \n \n La caractérisation des espèces par l’ADN environnemental (ADNe) est une méthode qui permet d’utiliser l’ADN libéré dans l’environnement par les organismes de diverses sources (sécrétions, fèces, gamètes, tissus, etc.). C’est un outil complémentaire aux méthodes standards d’échantillonnage pour l’identification de la biodiversité. Ce projet fournit une liste d’espèces de poissons et de mammifères marins dont l’ADN a été détecté dans des échantillons d’eau collectés entre 2019 et 2021 à l’aide du marqueur mitochondrial MiFish (12S).\n\nLes relevés ont été réalisés à l’été 2019 (14-18 juillet) et (30 juillet - 5 août), à l’automne 2020 (27-28 octobre) et à l’été-automne 2021 (31 mai - 3 juin) et (24-25 août) entre Forestville et Godbout (Haute-Côte-Nord). L’échantillonnage a été réalisé entre 1-50 mètres de profondeur dans 91 stations, avec 1 à 3 réplicats par station. La collecte a eu lieu à partir des navires NGCC Leim et le Clovert, ainsi qu'à partir de la berge. Deux litres d’eau ont été filtrés sur un filtre en fibre de verre de 1.2 µm. Les extractions de l’ADN ont été effectuées avec le kit d’extraction *DNeasy Blood and Tissue* ou *PowerWater (Qiagen)*. Des contrôles négatifs de terrains, d’extractions et de PCR ont été ajoutés aux différentes étapes du protocole. Les librairies ont été préparées soit par Génome Québec (2019, 2020) ou par le Laboratoire de Génomique de l’Institut Maurice-Lamontagne (2021), puis séquencées sur un système NovaSeq 4000 PE250 par Génome Québec. L’analyse bio-informatique des séquences obtenues a été réalisée à l’aide d’un pipeline d’analyse développé au laboratoire de Génomique. Une première étape a permis l’obtention d’une table d’unité moléculaire opérationnelle de taxonomie (*Molecular operational taxonomic unit*, MOTU) à l’aide du logiciel Cutadapt pour le retrait des adaptateurs et du paquet R DADA2 pour la filtration, la fusion, le retrait des chimères et la compilation des données. La table de MOTUs a par la suite été corrigée à l’aide du paquet R metabaR pour éliminer le *tag-jumping* et prendre en considération les contaminants. Les échantillons présentant une forte présence de MOTUs contaminants ont été retirés du jeu de données. Les MOTUs ont été filtrés également pour retirer toutes les séquences d'adaptateurs restantes et conserver également ceux de la taille attendue (autour de 170 pb). Finalement, les assignations taxonomiques ont été effectuées sur les MOTUs à l’aide du programme BLAST+ en utilisant la base de données de NCBI-nt. Les niveaux taxonomiques (espèce, genre ou famille) ont été attribués en utilisant une méthode de la meilleure correspondance (*Top hit*) avec un seuil de 95%. Seules les assignations au niveau des poissons et mammifères marins ont été considérées, et les taxons détectés ont été comparés à une liste d'espèces régionales, et corrigés si besoin. Les détections d’espèce des différents réplicas ont été combinées.\n\nLe fichier fourni comprend les informations génériques de l'activité, notamment le site, le nom de la station, la date, le type de marqueur, les types des assignations utilisés pour l’identification des taxons et une liste de taxons ou espèces. La liste de taxons a été vérifiée par un expert en biodiversité de l'Institut Maurice-Lamontagne.\n\nCe projet a été financé par le Programme sur les données environnementales côtières de référence de Pêches et Océans Canada dans le cadre du Plan de protection des océans. Cette initiative vise à acquérir des données environnementales de base qui contribuent à la caractérisation des zones côtières d’importance et appuient des évaluations fondées sur des preuves ainsi que les décisions de gestion afin de préserver les écosystèmes marins. Consultez le jeu de données aussi disponible sur le portail de [**Données Ouvertes Canada**](https://ouvert.canada.ca/data/fr/dataset/f37aaeca-717d-4f13-bc42-bad029dcc9cb).\n \n \n Species characterization by environmental DNA (eDNA) is a method that allows the use of DNA released into the environment by organisms from various sources (secretions, faeces, gametes, tissues, etc.). It is a complementary tool to standard sampling methods for the identification of biodiversity. This project provides a list of fish and marine mammal species whose DNA has been detected in water samples collected between 2019 and 2021 using the mitochondrial marker MiFish (12S).\n\nThe surveys were carried out in the summer of 2019 (July 14-18) and (July 30 - August 5), in the fall of 2020 (October 27-28) and in the summer-fall of 2021 (May 31 - June 3) and (August 24-25) between Forestville and Godbout (Haute-Côte-Nord). Sampling was carried out between 1-50 meters depth in 91 stations, with 1 to 3 replicates per station. The surveys took place from the CCGS Leim and Clovert, as well as from the shore. Two liters of water were filtered through a 1.2 µm fiberglass filter. DNA extractions were performed with the DNeasy Blood and Tissues or PowerWater extraction kit (Qiagen). Negative field, extraction and PCR controls were added at the different stages of the protocol. The libraries were prepared either by Génome Québec (2019, 2020) or by the Genomics Laboratory of the Maurice-Lamontagne Institute (2021), then sequenced on a NovaSeq 4000 PE250 system by Génome Québec. The bioinformatics analysis of the sequences obtained was carried out using an analysis pipeline developed in the genomics laboratory. A first step made it possible to obtain a table of molecular operational taxonomic units (MOTU) using the Cutadapt software for the removal of the adapters and the R package DADA2 for the filtration, the fusion, removal of chimeras and compilation of data. The MOTUs table was then corrected using the R package metabaR to eliminate the tag-jumping and take contaminants into consideration. Samples showing a strong presence of contaminating MOTUs were removed from the dataset. The MOTUs were also filtered to remove all remaining adapter sequences and also retain only those of the expected size (around 170 bp). Finally, taxonomic assignments were made on the MOTUs using the BLAST+ program and the NCBI-nt database. Taxonomic levels (species, genus or family) were assigned using a best match method (Top hit), with a threshold of 95%. Only assignments at the level of fish and marine mammals were considered, and the taxa detected were compared to a list of regional species, and corrected if necessary. The species detections of the different replicas have been combined.\n\nThe file provided includes generic activity information, including site, station name, date, marker type, assignment types used for taxa identification, and a list of taxa or species. The list of taxa has been verified by a biodiversity expert from the Maurice-Lamontagne Institute.\n\nThis project was funded by Fisheries and Oceans Canada's Coastal Environmental Baseline Program under the Oceans Protection Plan. This initiative aims to acquire baseline environmental data that contributes to the characterization of significant coastal areas and supports evidence-based assessments and management decisions to preserve marine ecosystems. Consult the dataset also available on the [**Open Data Canada**](https://ouvert.canada.ca/data/en/dataset/f37aaeca-717d-4f13-bc42-bad029dcc9cb) portal.\n \n \n \n \n \n \n \n \n \n \n oceans\n \n \n \n \n \n \n true\n \n \n \n \n \n -69.09,48.67 -69.06,48.80 -68.85,48.85 -68.69,48.95 -68.55,49.07 -68.39,49.16 -68.28,49.23 -68.11,49.28 -67.84,49.31 -67.68,49.32 -67.52,49.33 -67.40,49.33 -67.33,49.31 -69.06,48.61 -69.09,48.67\n \n \n \n \n \n \n \n \n \n \n \n \n \n 1.0\n \n \n 50.0\n \n \n \n \n \n \n 5829\n \n \n EPSG\n \n \n 2012-08-10\n \n \n EPSG::5829 - Instantaneous Water Level height - Height relative to instantaneous water level uncorrected for tide. Not specific to any location or epoch.\n \n \n \n \n vertical\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n 2019-12-14T17:00:00.000Z\n 2021-08-25T16:00:00.000Z\n \n \n \n \n \n \n \n \n \n asNeeded\n \n \n Generated from https://cioos-siooc.github.io/metadata-entry-form#/fr/stlaurent/QimW47K19EhGXEk1ZSN05cnKzxZ2/-NIIjBrOf-WWfJ_GMQ4X\n \n \n \n \n \n \n Oceans\n \n \n \n \n Government of Canada Core Subject Thesaurus\n \n \n \n \n 2016-10-13\n \n \n \n \n \n \n \n N/A\n \n \n \n \n \n \n \n \n Metabarcoding\n \n \n ADNe\n \n \n \n \n Metabarcoding\n \n \n \n \n \n \n eDNA\n \n \n \n \n \n \n default\n \n \n \n \n \n \n \n \n Abondance et distribution de poissons\n \n \n Abondance et distribution de tortues marines, oiseaux et mammifères\n \n \n \n \n fishAbundanceAndDistribution\n \n \n \n \n \n \n marineTurtlesBirdsMammalsAbundanceAndDistribution\n \n \n \n \n \n \n eov\n \n \n \n \n \n \n \n \n Coastal Environmental Baseline Program\n \n \n project\n \n \n \n \n \n \n \n \n Licence du gouvernement ouvert – Canada \n \n \n Open Government Licence - Canada\n \n \n \n \n \n \n government-open-license-canada\n \n \n \n \n \n \n https://open.canada.ca/en/open-government-licence-canada\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Pêches et Océans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n https://www.dfo-mpo.gc.ca\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Velasquez, Sandra\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Sandra.Velasquez@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste en Sciences aquatiques\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n Gendreau, Yanick Gendreau\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Yanick.Gendreau@dfo-mpo.gc.ca\n \n \n \n \n \n \n Biologiste\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Fisheries and Oceans Canada\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n Ottawa\n \n \n Canada\n \n \n \n \n \n \n http://www.dfo-mpo.gc.ca/index-eng.htm\n \n \n WWW:LINK\n \n \n \n \n \n \n \n \n \n \n \n https://ror.org/02qa1x782\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n https://catalogue.ogsl.ca/data/dfo-mpo/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6/Metadonnees_12S.csv\n \n \n WWW:LINK\n \n \n Métadonnées 12S\n \n \n Metadata 12S\n \n \n \n \n Fichier de métadonnées\n \n \n Metadata file\n \n \n \n \n \n \n \n \n \n \n \n \n https://catalogue.ogsl.ca/data/dfo-mpo/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6/Dictionnaire_de_vocabulaire.pdf\n \n \n WWW:LINK\n \n \n Dictionnaire de vocabulaire\n \n \n Vocabulary dictionnary\n \n \n \n \n Dictionnaire de variable détaillant chaque variable\n \n \n Vocabulary dictionary detailing each variable\n \n \n \n \n \n \n \n \n \n \n \n \n https://catalogue.ogsl.ca/data/dfo-mpo/ca-cioos_2239bca5-c24a-4e64-897b-73f8ff22c9b6/Assignations_12S.csv\n \n \n WWW:LINK\n \n \n Assignations du marqueur 12S\n \n \n 12S marker assignments\n \n \n \n \n Type de marqueur, les types des assignations utilisés pour l’identification des taxons et une liste de taxons ou espèces\n \n \n Type of marker, the types of assignments used for the identification of taxa and a list of taxa or species\n \n \n \n \n \n \n \n \n \n \n \n \n asNeeded\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n 18LO\n \n \n \n \n NGCC Leim\n \n \n CCGS Leim\n \n \n \n \n \n \n research vessel\n \n \n \n \n \n \n","notes_translation_method":{"en":"","fr":""},"relationships_as_subject":[],"title_translation_method":{"en":"","fr":""},"metadata-point-of-contact":[{"role":["author","custodian","distributor","owner","pointOfContact","collaborator"],"individual-name":"Velasquez, Sandra","organisation-name":"Pêches et Océans Canada","contact-info_email":"Sandra.Velasquez@dfo-mpo.gc.ca","individual-uri_code":"","organisation-uri_code":"https://ror.org/02qa1x782","organisation-uri_version":"","organisation-uri_authority":"","organisation-uri_code-space":"","contact-info_online-resource":""},{"role":["author","custodian","distributor","owner","collaborator"],"individual-name":"Gendreau, Yanick Gendreau","organisation-name":"Fisheries and Oceans Canada","contact-info_email":"Yanick.Gendreau@dfo-mpo.gc.ca","individual-uri_code":"","organisation-uri_code":"https://ror.org/02qa1x782","organisation-uri_version":"","organisation-uri_authority":"","organisation-uri_code-space":"","contact-info_online-resource":""},{"role":"pointOfContact","individual-name":"Section, Gestion des données","organisation-name":"Fisheries and Oceans Canada","contact-info_email":"gddaiss-dmsaisb@dfo-mpo.gc.ca","individual-uri_code":"","organisation-uri_code":"https://ror.org/02qa1x782","organisation-uri_version":"","organisation-uri_authority":"","organisation-uri_code-space":"","contact-info_online-resource":""}],"included_in_data_catalogue":[{"url":"https://catalogue.juno.cioos.ca","name":{"en":"CIOOS Catalogue","fr":"Catalogue du SIOOC"},"description":""},{"url":"https://catalogue.ogsl.ca","name":"OGSL/SLGO","description":""}],"keywords_translation_method":{"fr":""},"unique-resource-identifier-full":[{"code":"https://doi.org/10.26071/ogsl-2239bca5-c24a","version":"","authority":"","code-space":""}]}}