AndreaBozzo/ceres-open-data-index huggingface dataset:
Fetch and relative wave exposure indices for the coastal zone of the Scotian Shelf-Bay of Fundy bioregion

Exposure to wind-driven waves forms a key physical gradient in nearshore environments influencing both ecological communities and human activities. We calculated a relative exposure index (REI) for wind-driven waves covering the coastal zone of the Scotian Shelf-Bay of Fundy bioregion. We derived REI and two other fetch-based indices (sum fetch, minimum fetch) from two formulations of wind fetch (unweighted and effective fetch) for input points in an evenly spaced fishnet grid (50-m resolution) covering a buffered area within 5 km from the coastline and shallower than 50 m depth. 

We calculated unweighted fetch lengths (m) for 32 compass headings per input point (11.25° intervals), and effective fetch lengths for 8 headings per point (45° intervals). Unweighted fetch is the distance along a given heading from a point in coastal waters to land. Effective fetch is a directionally weighted average of multiple fetch measures around a given heading that reduces the influence of irregular coastline shape on exposure estimates. For fetch calculations, we used land features at a 1:50,000 scale for Canadian administrative boundaries (NrCan 2017), and unknown resolution for St. Pierre and Miquelon, and US states bordering the Gulf of Maine (GADM 2012). The summed and minimum unweighted fetch lengths for each point provide coarse summaries of wave exposure and distance to land, respectively. The relative exposure index (REI) gives a more accurate metric of exposure by combining effective fetch with modelled wind speeds (m s-1) and frequency data. 

We provide the original calculations of unweighted fetch, effective fetch, and other fetch-based indices (i.e., sum, minimum) in csv format along with the REI layer (GeoTIFF format) resampled to 35-m resolution. With broad spatial coverage and high resolution, these indices can support regional-scale distribution modelling of species and biological assemblages in the coastal zone as well as marine spatial planning activities.

When using data please cite following:
O'Brien JM, Wong MC, Stanley RRE (2022) A relative wave exposure index for the coastal zone of the Scotian Shelf-Bay of Fundy Bioregion. figshare. Collection. https://doi.org/10.6084/m9.figshare.c.5433567

References
GADM database of Global Administrative Areas (2012). Global Administrative Areas, version 2.0. (accessed 2 December 2020). www.gadm.org

Natural Resources Canada (2017) Administrative Boundaries in Canada - CanVec Series - Administrative Features - Open Government Portal. (accessed 2 December 2020). https://open.canada.ca/data/en/dataset/306e5004-534b-4110-9feb-58e3a5c3fd97.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Fetch and relative wave exposure indices for the coastal zones of the Scotian Shelf-Bay of Fundy and Newfoundland-Labrador Shelves bioregions

Exposure to wind-driven waves manifests an important physical gradient in the coastal zone that influences a variety of physical and biological processes (i.e., species distribution). Fetch, the unobstructed distance over which wind-driven waves can build, is a popular proxy for wave exposure at a given location commonly used for site-specific evaluations. Here, we provide two measures of fetch (unweighted fetch, effective fetch) and three fetch-derived indices of wave exposure (sum fetch, minimum fetch, and a relative exposure index) covering the coastal zones of two Canadian bioregions (Scotian Shelf-Bay of Fundy, Newfoundland-Labrador Shelves). For each region, we calculated fetch and exposure indices for input points in an evenly spaced fishnet grid (see linked records below for datasets by region). We provide unweighted fetch lengths (m) for 32 compass headings per input point (11.25° intervals), and effective fetch lengths for 8 headings per point (45° intervals). Effective fetch is a weighted average of multiple fetch measures around a given heading that reduces the influence of irregular coastline shape on exposure estimates. We also include calculations of the summed and minimum unweighted fetch lengths for each point that provide coarse proxies of exposure and distance to land, respectively. The relative exposure index (REI), provided as regional spatial layers in raster format, provides a more accurate metric of exposure by combining effective fetch with modelled wind speeds (m s-1) and frequency data. Users may also use fetch calculations to derive their own exposure layers using alternative sources of wind data, indices, or formulations. Detailed methodology on the calculations for fetch, effective fetch and REI are outlined in the Supplementary Information below. Citation information and differences in data pre-processing methods and spatial resolution of the regional analyses are described in their respective data records. The broad spatial coverage and high resolution offered by these indices are suitable to support regional-scale modelling and planning exercises. In particular, these indices will be of value to ongoing Marine Spatial Planning efforts, which includes regional conservation planning, that seek to evaluate the distribution of coastal species and overlap with human activities.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
eDNA metabarcoding enriches traditional trawl survey data for monitoring biodiversity in the marine environment

Marine Protected Areas require comprehensive monitoring to ensure objectives are achieved; however, monitoring natural ecosystems at scale is challenged by the biodiversity it aims to measure. Environmental DNA (eDNA) metabarcoding holds promise to address this monitoring challenge. We conducted paired sampling at 54 sites for fish and invertebrate assemblages in the Northwest Atlantic using groundfish trawls and eDNA metabarcoding of benthic seawater using four genetic markers (12S rRNA, 16S rRNA, 18S rRNA, and CO1). Compared to trawling, eDNA detected similar patterns of species turnover, larger estimates of gamma diversity, and smaller estimates of alpha diversity. A total of 63.6% (42/66) of fish species captured by trawling were detected by eDNA, along with an additional 26 species. Of the 24 missed detections by eDNA, 12 were inevitable as they lacked reference sequences. Excluding taxa assigned to higher than species level and those without a species name, 23.6% (17/72) of invertebrate species captured by trawling were detected by CO1, which detected an additional 98 species. We demonstrate that eDNA is capable of detecting patterns of community assemblage and species turnover in an offshore environment, emphasizing its strong potential for a non-invasive, comprehensive, and scalable tool for biodiversity monitoring supporting marine conservation programmes.

Cite this data as: Jeffery, N., Rubidge, E., Abbott, C., Westfall, K., Stanley, R. (2024): Data of: eDNA metabarcoding enriches traditional trawl survey data for monitoring biodiversity in the marine environment.

Published: August 2024. Coastal Ecosystems Science Division, Fisheries and Oceans Canada, Dartmouth, N.S. https://open.canada.ca/data/en/dataset/43a91ba7-8025-4330-88db-db14022d729d

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Habitat associations of juvenile American lobster in three nearshore areas of Newfoundland

This project was completed by the Productive Capacity group (Coastal and Freshwater Ecology Section) in the Newfoundland and Labrador Science Branch of Fisheries and Oceans Canada (DFO). 

American lobster (Homarus americanus) is a commercially important decapod crustacean species along the east coast of North America, ranging from the Labrador coast south to Cape Hatteras. Juvenile lobster < 40 mm CL (carapace length) recruitment has been studied extensively in the southern portions of their range. However, investigations of settlement habitat association and recruitment of juvenile lobster in the northern extremes along the Newfoundland coast have been largely unsuccessful. We investigated juvenile lobster density, habitat, and depth associations in three areas of Newfoundland, using scuba – Port Saunders area, 8 dives conducted 28 September - 2 October 2017, and Burin Peninsula 10 dives (7 Placentia Bay, 3 Fortune Bay) conducted 30 September - 4 October 2018 over a total seabed area of 9,138 m2, within 200 meters of shore. Port Saunders and Fortune Bay had relatively higher lobster density (0.09 and 0.40 m-2, respectively); >65% were juveniles, in contrast to Placentia Bay where lobster densities of all size groups were low (mean 0.01 m-2) and no juvenile lobsters were observed at all. Where observed all juvenile lobster were significantly associated with shallow (<6 m) habitat and showed no overlap with distribution of adults (>82.5 mm CL) which we observed at depths 6 to 17 m. Our sites were dominated by varying mixes of cobble and pebble (77%); rock/bedrock (12%) and mud/sand/small pebble (11%) substrates interspersed with overlying kelp (32%) and eelgrass (11%) vegetation. We observed no significant associations with substrate or vegetation. 

This record contains the geographic locations of the 7 Placentia Bay sites surveyed, and information on the timing and type of data collected at each site, which was one component supported by Coastal Environmental Baseline Program of a larger collaborative project.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Commercial catches sampling program in the Estuary and Gulf of St. Lawrence – Atlantic halibut (Hippoglossus hippoglossus)

Summary
The Quebec region of the Department of Fisheries and Oceans (DFO) is responsible for the assessment of several fish and invertebrate stocks exploited in the Estuary and the northern Gulf of St. Lawrence. The commercial catches sampling program is one of the sources of information used to complete these assessments. The data collected by this program, at wharf or at sea, offers among other things the advantage of a relatively large spatio-temporal coverage and provides some of the necessary knowledge to assess the demography and the structure of the exploited populations. This program is implemented by specialized DFO staff whose main mandate is to collect biological data on groundfish, pelagic fish and marine invertebrate species that are commercially exploited in the various marine communities.

Data
This dataset on the Atlantic halibut (Hippoglossus hippoglossus) includes the metadata, sample weight, fish length, the sex and the number of specimens measured. This dataset covers the period of 1995 to present. In order to protect the confidentiality of the sources, some informations (such as those concerning the vessel) have been excluded and others (such as the date of capture) have been simplified. Entries where there was only one vessel in a fishing area for a given year were also excluded. Further information including the fishing areas coordinates can be found by clicking on the «Atlantic and Arctic commercial fisheries» and «Fishing areas» links below.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Bottom temperature at the Atlantic Zone Monitoring Program (AZMP)-Quebec’s stations.

Bottom temperature time series at the 3 fixed stations and 46 stations, grouped into transects, of the Atlantic Zonal Monitoring Program (AZMP) under the Quebec region responsibility.

The mean bottom temperature of the last ten years are displayed as 2 layers, one for the June survey (2014-2023, 2020 not sampled), another for the autumn survey (2014-2023).  A third layer shows the positions of the fixed stations of the program (Anticosti Gyre, Gaspé Current and Rimouski).

Each station is linked with a .png file showing the bottom temperature time series and with a .csv file containing all the bottom temperature data acquired at those stations since the beginning of the program sampling (columns : Station, Latitude, Longitude, Date(UTC), Sounding(m), Depth/Profondeur(m), Temperature/Température(ºC)).

Purpose

The Atlantic Zone Monitoring Program (AZMP) was implemented in 1998 with the aim of increasing the Department of Fisheries and Oceans Canada’s (DFO) capacity to detect, track and predict changes in the state and productivity of the marine environment.

The AZMP collects data from a network of stations composed of high-frequency monitoring sites and cross-shelf sections in each following DFO region: Québec, Gulf, Maritimes and Newfoundland. The sampling design provides basic information on the natural variability in physical, chemical, and biological properties of the Northwest Atlantic continental shelf. Cross-shelf sections sampling provides detailed geographic information but is limited in a seasonal coverage while critically placed high-frequency monitoring sites complement the geography-based sampling by providing more detailed information on temporal changes in ecosystem properties.

In Quebec region, two surveys (46 stations grouped into transects) are conducted every year, one in June and the other in autumn in the Estuary and Gulf of St. Lawrence. Historically, 3 fixed stations were sampled more frequently. One of these is the Rimouski station that still takes part of the program and is sampled about weekly throughout the summer and occasionally in the winter period.

Annual reports (physical, biological and a Zonal Scientific Advice) are available from the Canadian Science Advisory Secretariat (CSAS), (http://www.dfo-mpo.gc.ca/csas-sccs/index-eng.htm).

Devine, L., Scarratt, M., Plourde, S., Galbraith, P.S., Michaud, S., and Lehoux, C. 2017. Chemical and Biological Oceanographic Conditions in the Estuary and Gulf of St. Lawrence during 2015. DFO Can. Sci. Advis. Sec. Res. Doc. 2017/034. v + 48 pp.


Supplemental Information

The bottom temperature is determined from CTD profile in the water column according to AZMP sampling protocol:

Mitchell, M. R., Harrison, G., Pauley, K., Gagné, A., Maillet, G., and Strain, P. 2002. Atlantic Zonal Monitoring Program sampling protocol. Can. Tech. Rep. Hydrogr. Ocean Sci. 223: iv + 23 pp.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Institute of Ocean Sciences Moored Instrument Data (Pacific and Arctic), 1965-present

Moored instrument time series data include current velocity, temperature, salinity, oxygen, fluorescence, transmissivity, turbidity, and particle capture of carbon, nitrogen, and silicon as well as sediment trap, ice drift and ice draft data.

These data were collected by researchers from the Institute of Ocean Sciences, Sidney, BC, from locations ranging from the North Pacific, the Beaufort Sea, and across the Canadian Arctic Archipelago to Baffin Bay.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Megahabitats of the St. Lawrence Estuary and Gulf - Personnal Geodatabase

Available information for the Estuary and Gulf of St. Lawrence on salinity, temperature, dissolved oxygen, depth, slope, and variability in landscape and sediments, were aggregated using a grid made up of 100 km2 cells as a basis for mapping and describing marine habitats for conservation and integrated management purposes.

For example, 26 variables were selected to describe depth, slope, salinity and temperature. Based on that information, cluster analyses were conducted grouping cells into 13 different megahabitats. Four megahabitats described the deep waters, and areas outside channels formed 9 megahabitats: four in the southern Gulf and five in the northern Gulf.

Purpose

The tool proposes a novel way of making validated and integrated data available to end users. Potential applications include the screening of areas considered for inclusion in a network of protected areas and a quantitative assessment of surface areas for each class of habitat. The method can also be applied to describe the habitats of species at risk.

Additional Information

See the report mentioned below for a more detailed description of the treatments for each variable:

Dutil, J.-D., Proulx, S., Chouinard, P.-M., and Borcard. D. 2011. A hierarchical classification of the seabed based on physiographic and oceanographic features in the St. Lawrence. Can. Tech. Rep. Fish. Aquat. Sci. 2916: vii + 72 p.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Southern USA

Fisheries and Oceans Canada (DFO) has been conducting surface water trawl surveys since 1992 in the coastal waters of British Columbia, Washington, Oregon and Alaska and in the high seas of the Gulf of Alaska. These surveys initially focused on determining the migratory patterns (1992-2002) and on the growth and physiology (2003-2016) of juvenile Pacific Salmon.  Data collected in shelf and slope waters at depths less than 400 meters off Washington and Oregon State are part of this larger survey series, but are limited to 1999-2001.  These surveys focused on determining the migratory patterns of juvenile Pacific Salmon and had funding support from the Bonneville Power Administration as part of the 1995-2011 Canada-USA Salmon Shelf Survival Study. The intent of that study was to monitor and evaluate the effects of ocean conditions on the distribution, migration, growth, and survival of Pacific salmon during their first ocean year, and estimate the subsequent impacts on abundance of Chinook salmon adults returning to the Columbia River system.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Musquash benthic infauna

As part of the Musquash Marine Protected Area (MPA) Monitoring Plan, this project was implemented to establish a baseline for infaunal biodiversity for this area.  Data collection began in 2010  and contributed monitoring information for productivity, biodiversity, and habitat indicators within the Musquash Harbour.
 
A 1500 cubic centimetre ponar benthic grab was deployed at 30 random stations distributed over three strata (channel, intertidal and subtidal).  Samples were to be collected up to three times per year to account for seasonality and annual variation.  Once collected the benthic samples were analyzed for changes in grain size, carbon content (Loss on ignition), species abundance/diversity and biomass.

Cite this data as: Cooper, J.A., and Blanchard, M. Musquash Benthic Infauna. Published in September 2023. Coastal Ecosystem Science Division, Fisheries and Oceans Canada, St. Andrews, NB.

For additional information please see:

Cooper, A., Abbott, M., Allard, K., Chang,, B., Courtenay, S., Doherty, P., Greenlaw, M., Ipsen, E., Koropatnick, T., Law, B., Losier, R., Martin, J., Methven, D., and Page, F. 2014. Musquash Estuary Marine Protected Area (MPA): Data Assessment. DFO Can. Sci. Advis. Sec. Res. Doc. 2014/001. v + 57 p.

Cooper, J.A., Jones, O. and Blanchard, M. 2023. Review of Baseline Monitoring within the Musquash Estuary Marine Protected Area. DFO Can. Sci. Advis. Sec. Res. Doc. 2023/028. viii + 56 p.

Oceans and Coastal Management Division (OCMD). 2015. Musquash Estuary Marine Protected Area Ecosystem Monitoring Plan (2014-2019). Can. Manuscr. Rep. Fish Aquat. Sci. 3077: v+17 pp.

DFO. 2022. 2021 Review of Musquash Marine Protected Area Monitoring. DFO Can. Sci. Advis. Sec. Sci. Advis. Rep. 2022/016.

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada
Canadian fresh waters requiring additional ballast water management measures (e.g., ballast water exchange and treatment)

This data is intended to identify Canadian fresh waters which require additional measures (e.g., ballast water exchange and treatment) prior to release, as described in https://tc.canada.ca/en/marine-transportation/marine-safety/list-canada-s-designated-alternate-ballast-water-exchange-area-fresh-waters-tp-13617e-2021. The data is not intended for navigation purposes.

According to Canada’s Ballast Water Regulations, vessels which are managing ballast water to meet the ballast water performance standard cannot release ballast water into fresh waters unless that ballast water was first exchanged in accordance with the ballast water exchange standard. 

For the purpose of this requirement, Canadian fresh waters are the following:
- the waters at the Port of Kitimat and waters in or upstream of the Kitimat Arm, east of a line between Hilton Point and Steel Point;
- the waters at the Port of Stewart and waters in or upstream of the Portland Canal, north of a line between Portland Point and Ramsden Point;
- the waters of all Fraser River ports that are:
   -- east of Tilbury Island in the main arm of the Fraser River including Annacis Island and New Westminster docking areas; and
   -- east of the eastern tip of Mitchell Island in the north arm of Fraser River;
- the waters of the Saguenay River ports and waters upstream of L’Anse-Creuse;
- the waters of all St. Lawrence River ports and waters west of the east point of Ile d’Orléans including the port of Quebec City;
- all Canadian waters of the Great Lakes Basin; and
- the waters of Happy Valley-Goose Bay and waters of Lake Melville west of Rabbit Island.

Legal Constraints: Users should be aware that the polygons depicting areas requiring additional measures to manage ballast water are intended for illustration only and should not be used for navigational or legal purposes.

Organization: Transport Canada | Transports Canada
Fecundity of Herring in Divisions 4WX

Fecundity of Atlantic herring (Clupea harengus) was estimated within five spawning areas (German Bank, Scots Bay, Seal Island, Southern Shore Nova Scotia, and Eastern Shore Nova Scotia) in Northwest Atlantic Fisheries Organization (NAFO) areas 4WX in 2019 and 2020. The objective of this project was to describe the fecundity-at-size (weight, length, and age) relationships among spawning grounds, compare these relationships to historical fecundity-at-size relationships, and assess the influence of changes in weight-at-age and fecundity over time to the reproductive potential of a unit of spawning stock biomass.

Cite this data as: Barrett T. Data of: Fecundity of Herring in Divisions 4WX. Published: September 2021. Population Ecology Division, Fisheries and Oceans Canada, St. Andrews, N.B. https://open.canada.ca/data/en/dataset/e39b1318-c9f7-4686-b5e5-7d838c8ac99a

Organization: Fisheries and Oceans Canada | Pêches et Océans Canada