We collected water samples from just below the surface in the Musquash Estuary MPA in 2022 for environmental DNA metabarcoding to assess and monitor the biodiversity of the MPA over time. 1L water samples were collected by Niskin bottle from a small vessel and filtered using 0.22um Sterivex filters at the St. Andrews Biological Station. Samples were extracted and sequenced on an Illumina NovaSeq platform at the Centre for Environmental Genomics Applications (St. John's, Newfoundland). FASTQ files were demultiplexed and analyzed through the QIIME2 pipeline and denoised using dada2.
This dataset consists of 12S reads targeting fishes, but other markers will be included within this project over time.
","language":"eng","citation":{"text":"Jeffery N, Stanley R, Cooper A (2026). Biodiversity Monitoring in the Musquash Marine Protected Area using Environmental DNA - 2022. Fisheries and Oceans Canada. Occurrence dataset https://doi.org/10.15468/2mmxst accessed via GBIF.org on 2026-10-12.","citationProvidedBySource":false},"contactsCitation":[{"key":6915728,"abbreviatedName":"Jeffery N","firstName":"Nick","lastName":"Jeffery","roles":["ORIGINATOR"],"userId":[]},{"key":6915729,"abbreviatedName":"Stanley R","firstName":"Ryan","lastName":"Stanley","roles":["ORIGINATOR"],"userId":[]},{"key":6915730,"abbreviatedName":"Cooper A","firstName":"Andrew","lastName":"Cooper","roles":["ORIGINATOR"],"userId":[]}],"lockedForAutoUpdate":false,"createdBy":"c98a8d0d-cab2-4506-8c0f-c91a5e4996b9","modifiedBy":"crawler.gbif.org","created":"2026-02-17T17:23:01.753+00:00","modified":"2026-02-17T17:24:02.709+00:00","contacts":[{"key":6915728,"type":"ORIGINATOR","primary":true,"userId":[],"firstName":"Nick","lastName":"Jeffery","position":[],"email":["nick.jeffery@dfo-mpo.gc.ca"],"phone":[],"homepage":[],"organization":"Fisheries and Oceans Canada","address":[],"city":"Dartmouth","province":"Nova Scotia","country":"CA","postalCode":"B2Y 4A2","createdBy":"crawler.gbif.org","modifiedBy":"crawler.gbif.org","created":"2026-02-17T17:24:02.677+00:00","modified":"2026-02-17T17:24:02.677+00:00"},{"key":6915729,"type":"ORIGINATOR","primary":false,"userId":[],"firstName":"Ryan","lastName":"Stanley","position":[],"email":["Ryan.Stanley@dfo-mpo.gc.ca"],"phone":[],"homepage":[],"organization":"Fisheries and Oceans Canada","address":[],"city":"Dartmouth","province":"Nova Scotia","country":"CA","postalCode":"B2Y 4A2","createdBy":"crawler.gbif.org","modifiedBy":"crawler.gbif.org","created":"2026-02-17T17:24:02.680+00:00","modified":"2026-02-17T17:24:02.680+00:00"},{"key":6915730,"type":"ORIGINATOR","primary":false,"userId":[],"firstName":"Andrew","lastName":"Cooper","position":[],"email":["Andrew.cooper@dfo-mpo.gc.ca"],"phone":[],"homepage":[],"organization":"Fisheries and Oceans Canada","address":[],"city":"St. Andrews","province":"New Brunswick","country":"CA","postalCode":"B2Y 4A2","createdBy":"crawler.gbif.org","modifiedBy":"crawler.gbif.org","created":"2026-02-17T17:24:02.681+00:00","modified":"2026-02-17T17:24:02.681+00:00"},{"key":6915731,"type":"ADMINISTRATIVE_POINT_OF_CONTACT","primary":true,"userId":[],"firstName":"Nick","lastName":"Jeffery","position":[],"email":["nick.jeffery@dfo-mpo.gc.ca"],"phone":[],"homepage":[],"organization":"Fisheries and Oceans Canada","address":[],"city":"Dartmouth","province":"Nova Scotia","country":"CA","postalCode":"B2Y 4A2","createdBy":"crawler.gbif.org","modifiedBy":"crawler.gbif.org","created":"2026-02-17T17:24:02.682+00:00","modified":"2026-02-17T17:24:02.682+00:00"},{"key":6915732,"type":"ADMINISTRATIVE_POINT_OF_CONTACT","primary":false,"userId":[],"firstName":"Ryan","lastName":"Stanley","position":[],"email":["Ryan.Stanley@dfo-mpo.gc.ca"],"phone":[],"homepage":[],"organization":"Fisheries and Oceans Canada","address":[],"city":"Dartmouth","province":"Nova Scotia","country":"CA","postalCode":"B2Y 4A2","createdBy":"crawler.gbif.org","modifiedBy":"crawler.gbif.org","created":"2026-02-17T17:24:02.684+00:00","modified":"2026-02-17T17:24:02.684+00:00"},{"key":6915733,"type":"ADMINISTRATIVE_POINT_OF_CONTACT","primary":false,"userId":[],"firstName":"Andrew","lastName":"Cooper","position":[],"email":["Andrew.Cooper@dfo-mpo.gc.ca"],"phone":[],"homepage":[],"organization":"Fisheries and Oceans Canada","address":[],"city":"St. Andrews","province":"New Brunswick","country":"CA","createdBy":"crawler.gbif.org","modifiedBy":"crawler.gbif.org","created":"2026-02-17T17:24:02.685+00:00","modified":"2026-02-17T17:24:02.685+00:00"}],"endpoints":[{"key":1243684,"type":"DWC_ARCHIVE","url":"https://ipt.iobis.org/obiscanada/archive.do?r=musquash_mpa_2022_12s","createdBy":"c98a8d0d-cab2-4506-8c0f-c91a5e4996b9","modifiedBy":"c98a8d0d-cab2-4506-8c0f-c91a5e4996b9","created":"2026-02-17T17:23:01.881+00:00","modified":"2026-02-17T17:23:01.881+00:00","machineTags":[]},{"key":1243683,"type":"EML","url":"https://ipt.iobis.org/obiscanada/eml.do?r=musquash_mpa_2022_12s","createdBy":"c98a8d0d-cab2-4506-8c0f-c91a5e4996b9","modifiedBy":"c98a8d0d-cab2-4506-8c0f-c91a5e4996b9","created":"2026-02-17T17:23:01.847+00:00","modified":"2026-02-17T17:23:01.847+00:00","machineTags":[]}],"machineTags":[{"key":33142608,"namespace":"crawler.gbif.org","name":"crawl_attempt","value":"29","createdBy":"crawler.gbif.org","created":"2026-10-12T02:12:21.450+00:00"}],"tags":[],"identifiers":[{"key":463720,"type":"URL","identifier":"https://ipt.iobis.org/obiscanada/resource?r=musquash_mpa_2022_12s","createdBy":"crawler.gbif.org","created":"2026-02-17T17:24:02.690+00:00","primary":false}],"comments":[],"bibliographicCitations":[],"curatorialUnits":[],"taxonomicCoverages":[{"coverages":[{"scientificName":"Osmeriformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Alosidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Alopiidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Squaliformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Gadiformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Rajidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Animalia","rank":{"verbatim":"kingdom","interpreted":"KINGDOM"}},{"scientificName":"Perciformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Zoarcidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Scombriformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Cetartiodactyla","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Anguillidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"NA","rank":{"verbatim":"kingdom","interpreted":"KINGDOM"}},{"scientificName":"Sebastidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Acipenseridae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Lamniformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Moronidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Pholidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Rajiformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Clupeidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Lotidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Cyprinodontiformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Chordata","rank":{"verbatim":"phylum","interpreted":"PHYLUM"}},{"scientificName":"NA","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Squalidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Fundulidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Phocoenidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Chondrostei","rank":{"verbatim":"class","interpreted":"CLASS"}},{"scientificName":"Cypriniformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Elasmobranchii","rank":{"verbatim":"class","interpreted":"CLASS"}},{"scientificName":"Acipenseriformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Scombridae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Phycidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Mammalia","rank":{"verbatim":"class","interpreted":"CLASS"}},{"scientificName":"Labridae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Gasterosteidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Eupercaria incertae sedis","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Catostomidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Atherinopsidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Anguilliformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Atheriniformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"NA","rank":{"verbatim":"class","interpreted":"CLASS"}},{"scientificName":"Gadidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Osmeridae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Pleuronectiformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"Cryptacanthodidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Clupeiformes","rank":{"verbatim":"order","interpreted":"ORDER"}},{"scientificName":"NA","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Pleuronectidae","rank":{"verbatim":"family","interpreted":"FAMILY"}},{"scientificName":"Teleostei","rank":{"verbatim":"class","interpreted":"CLASS"}},{"scientificName":"NA","rank":{"verbatim":"phylum","interpreted":"PHYLUM"}}]}],"geographicCoverages":[{"description":"These samples were collected from the Musquash Estuary Marine Protected Area, located in southern New Brunswick, Canada.","boundingBox":{"minLatitude":45.13879,"maxLatitude":45.19198,"minLongitude":-66.3199,"maxLongitude":-66.2351,"globalCoverage":false}}],"temporalCoverages":[{"@type":"range","start":"2022-09-12T00:00:00.000+00:00","end":"2022-09-13T00:00:00.000+00:00"}],"keywordCollections":[{"thesaurus":"GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type_2015-07-10.xml","keywords":["Occurrence"]}],"project":{"title":"Biodiversity monitoring in the Musquash Estuary Marine Protected Area using Environmental DNA Metabarcoding","contacts":[{"type":"ORIGINATOR","primary":false,"userId":[],"firstName":"Nick","lastName":"Jeffery","position":[],"email":[],"phone":[],"homepage":[],"address":[]},{"type":"ORIGINATOR","primary":false,"userId":[],"firstName":"Ryan","lastName":"Stanley","position":[],"email":[],"phone":[],"homepage":[],"address":[]},{"type":"ORIGINATOR","primary":false,"userId":[],"firstName":"Andrew","lastName":"Cooper","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 freshwater, brackish, and marine components of the Musquash Estuary MPA, including the Musquash River to the Bay of Fundy.","relatedProjects":[]},"samplingDescription":{"studyExtent":"The study took place entirely within the Musquash Marine Protected Area, in southern New Brunswick. Samples were collected in the freshwater portion of the MPA, the brackish estuary, and the mouth of the harbour on the Bay of Fundy.","sampling":"We sampled 1L of water using a Niskin bottle from the bottom of each station. Water samples were then frozen and filtered at a later date using a peristaltic pump onto a 0.22um PVDF Sterivex filter. Frozen filters were shipped to the Centre for Environmental Genomics Applications (CEGA; St. John's, Newfoundland) for DNA extraction, library preparation, and sequencing. 12S libraries targeting fish were created using Illumina adapters and the MiFish-U primer set. COI libraries targeting general eukaryotic diversity were created with the LERAYXT primer set. All samples were sequenced on an Illumina NovaSeq platform.","qualityControl":"Field blanks consisting of distilled water were also filtered with the environmental samples. Lab negatives are included in each sequencing run, and DNA detected in the lab negatives (if any) are removed from each sample as potential contamination.","methodSteps":["Water samples are first collected in the field. Water samples are preserved or immediately filtered onto a fine pored filter (0.22 micron) to capture the DNA from the sample. DNA is extracted from each filter and used to create a library targeting the taxa of interest. The libraries of samples are sequenced on a high-throughput sequencing platform, followed by bioinformatic processing."]},"countryCoverage":[],"collections":[],"dataDescriptions":[],"dataLanguage":"eng","purpose":"The purpose of these data are to create baseline and monitoring data from environmental DNA samples in the Musquash MPA. These data are from 2022, serving as a baseline for ongoing monitoring which occurs each September in the MPA. The objective is to create a time series of regular samples using fish and general biodiversity eDNA markers to detect change or stability of the MPA over time. ","acknowledgements":"This program is supported by the Fisheries and Oceans Canada Marine Conservation Targets program. ","pubDate":"2026-02-17T00:00:00.000+00:00","maintenanceUpdateFrequency":"ANNUALLY","maintenanceDescription":"Samples are collected from the MPA annually and data will be uploaded as it is processed.","license":"http://creativecommons.org/publicdomain/zero/1.0/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":"2026-07-11T16:23:58.218+00:00"},"approximateCounts":{"occurrenceCount":1504}}