{"key":"8b95efe0-204b-47d3-89d0-12d85f7f61de","installationKey":"5ff1c992-5c84-40aa-bd9a-c1743a870c32","publishingOrganizationKey":"c98a8d0d-cab2-4506-8c0f-c91a5e4996b9","doi":"10.15468/xtqr78","version":"1.2","external":false,"numConstituents":0,"type":"OCCURRENCE","shortName":"DFO MAR Offshore eDNA 2025","title":"Offshore Scotian Shelf biodiversity assessment using eDNA metabarcoding 2025","description":"This resource contains eDNA metabarcoding derived species records from two different markers - 12S to target marine fishes (the MiFish-U marker) and COI to target invertebrates and general biodiversity. Samples were collected in summer 2025 (July and August) as part of the annual DFO multispecies trawl survey, and in October 2025 as part of the annual Atlantic Zone Monitoring Program. Seawater samples were collected from near bottom using a CTD rosette and filtered aboard the research vessel using a Smith Root vacuum pump and 1.2 um filters. eDNA was extracted from the filters and sequenced on an Illumina MiSeq platform at the Aquatic Biotechnology Laboratory based at the Bedford Institute of Oceanography. Raw sequence reads were demultiplexed and denoised using DADA2 in the QIIME2 pipeline, and taxonomy was assigned to amplicon sequence variants using BLASTn and the NCBI eukaryote nucleotide database. ","language":"eng","citation":{"text":"Stanley R, Jeffery N (2026). Offshore Scotian Shelf biodiversity assessment using eDNA metabarcoding 2025. Version 1.2. Fisheries and Oceans Canada. 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Existing and future conservation areas were targeted, including the Fundian Channel - Browns Bank Area of Interest, the Western Emerald Bank Marine Refuge, the Gully Marine Protected Area, and St. Anns Bank MPA.","boundingBox":{"minLatitude":41.8552,"maxLatitude":46.1964,"minLongitude":-67.212883,"maxLongitude":-58.5641,"globalCoverage":false}}],"temporalCoverages":[{"@type":"range","start":"2025-07-01T00:00:00.000+00:00","end":"2025-10-13T00:00:00.000+00:00"}],"keywordCollections":[{"thesaurus":"GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type_2015-07-10.xml","keywords":["Occurrence"]}],"project":{"title":"Offshore Scotian Shelf biodiversity assessment using eDNA metabarcoding 2025","contacts":[{"type":"ADMINISTRATIVE_POINT_OF_CONTACT","primary":false,"userId":[],"firstName":"Ryan","lastName":"Stanley","position":[],"email":[],"phone":[],"homepage":[],"address":[]},{"type":"ADMINISTRATIVE_POINT_OF_CONTACT","primary":false,"userId":[],"firstName":"Nick","lastName":"Jeffery","position":[],"email":[],"phone":[],"homepage":[],"address":[]}],"funding":"This work was funded by the DFO Marine Conservation Targets program.","awards":[],"studyAreaDescription":"The study area consists of the Bay of Fundy and Scotian Shelf in Atlantic Canada. Samples were collected specifically from existing or proposed marine conservation areas.","relatedProjects":[],"abstract":"This resource contains eDNA metabarcoding derived species records from two different markers - 12S to target marine fishes (the MiFish-U marker) and COI to target invertebrates and general biodiversity. Samples were collected in summer 2025 (July and August) as part of the annual DFO multispecies trawl survey, and in October 2025 as part of the annual Atlantic Zone Monitoring Program. Seawater samples were collected from near bottom using a CTD rosette and filtered aboard the research vessel using a Smith Root vacuum pump and 1.2 um filters. eDNA was extracted from the filters and sequenced on an Illumina MiSeq platform at the Aquatic Biotechnology Laboratory based at the Bedford Institute of Oceanography. Raw sequence reads were demultiplexed and denoised using DADA2 in the QIIME2 pipeline, and taxonomy was assigned to amplicon sequence variants using BLASTn and the NCBI eukaryote nucleotide database."},"samplingDescription":{"studyExtent":"Samples were collected in July and August and October, 2025, as part of regular DFO offshore surveys. The spatial extent covers the outer Bay of Fundy, as well as the eastern and western Scotian Shelf. Samples were collected near bottom in various areas of conservation interest, including St. Anns Bank MPA, the Gully MPA, the Fundian Channel - Browns Bank Area of Interest, Western Emerald Bank Marine Refuge, and other proposed conservation areas.","sampling":"Sea water samples were collected using a CTD rosette aboard the CCGS research vessel Cartier and the research ship James Cook in July, August, and October 2025. Approximately 3-4 litres of seawater were filtered aboard the research vessels using a Smith Root vacuum pump and 1.2 micron self-preserving PES filters. All filters were frozen at -80C at sea until lab analysis. \neDNA was extracted using a Qiagen kit, and libraries for the 12S MiFish and COI Leray primer sets were created at the Aquatic Biotechnology Laboratory at the Bedford Institute of Oceanography. Sample libraries were sequenced on an Illumina MiSeq platform. Demultiplexed samples were processed using the QIIME2 and DADA2 pipeline.","qualityControl":"Field controls consisting of distilled water were collected at least once daily while aboard the research vessels. Laboratory negatives (extraction and PCR negatives) were included in all PCR and eDNA sequencing.","methodSteps":["1. Collect seawater samples and filter at sea\n2. Preserve eDNA filters\n3. Extract eDNA using commercial kits in a laboratory\n4. Prepare amplicon libraries\n5. Sequence libraries\n6. Demultiplex sequenced samples\n7. Import sample data into QIIME2 pipeline (amplicon.2024.10)\n8. Trim amplicon primers using cutadapt. \n9. Denoise and merge sequences in DADA2. \n10. Assign taxonomy to ASV sequences using BLASTn v.2.17.0 and NCBI nucleotide database. \n11. Process, filter, and analyze filtered sequences and taxonomy in R."]},"countryCoverage":[],"collections":[],"dataDescriptions":[],"dataLanguage":"eng","purpose":"The purpose of this dataset is to provide baseline and time-series data for offshore regions of marine conservation interest, including existing marine refuges and Marine Protected Areas in the Scotian Shelf - Bay of Fundy Bioregion. Samples were collected in summer and fall 2025 aboard research vessels and sequenced to identify fish, invertebrates, and other organisms living in these areas.","pubDate":"2026-05-15T00:00:00.000+00:00","maintenanceUpdateFrequency":"IRREGULAR","maintenanceDescription":"Datasets will be entered for offshore eDNA sampling on the Scotian Shelf as regularly as they occur. Currently, datasets exist for 2020, and 2023 through 2025.","license":"http://creativecommons.org/licenses/by/4.0/legalcode","dwca":{"coreType":"http://rs.tdwg.org/dwc/terms/Occurrence","extensions":["http://rs.gbif.org/terms/1.0/DNADerivedData","http://rs.iobis.org/obis/terms/ExtendedMeasurementOrFact"],"modified":"2026-07-13T11:32:40.928+00:00"},"category":["eDNA"],"approximateCounts":{"occurrenceCount":74337}}