BGS Hosted Metadata
Processing and analysis of Arctic Calanus occurrence records from OBIS and GBIF databases
This dataset contains quality-controlled georeferenced occurrence records of three Arctic Calanus species (Calanus finmarchicus, C. glacialis and C. hyperboreus), downloaded from the Ocean Biodiversity Information System (OBIS) and the Global Biodiversity Information Facility (GBIF) databases. Records span about 150 years of sampling (1870-2017), are located between 30 and 90 degrees north, and are distributed between the surface and 5000m deep. Physical (bathymetry) and environmental (temperature and sea-ice concentration) parameters are matched to each occurrence record. An html file provides the annotated source code for the data processing, analyses and figures produced for the publication: Freer JJ and Tarling GA (2023) Assessing key influences on the distribution and life-history of Arctic and boreal Calanus: Are online databases up to the challenge? Front. Mar. Sci. 10:908112.
This work was funded by DIAPOD (NE/P006213/1) and CHASE (NE/R012687/1) projects as part of the Changing Arctic Ocean Programme, with the former funded by the UKRI Natural Environment Research Council (NERC) and the latter, jointly by NERC and the German Federal Ministry of Education and Research (BMBF). Further support was provided by BIOPOLE National Capability Multicentre Round 2 funding from the Natural Environment Research Council (NE/W004933/1).
Simple
- Date (Creation)
- 2023-03-27
- Date (Revision)
- 2023-03-27
- Date (Publication)
- 2023-03-27
- Date (released)
- 2023-03-27
- Edition
-
1.0
- Unique resource identifier
- https://doi.org/10.5285/a5cbfbe1-6fa6-44cf-96fe-db92c32b69d0
- Codespace
-
doi
- Unique resource identifier
- GB/NERC/BAS/PDC/01723
- Codespace
- Unique resource identifier
- NE/P006213/1
- Codespace
-
award
- Unique resource identifier
- NE/R012687/1
- Codespace
-
award
- Unique resource identifier
- NE/W004933/1
- Codespace
-
award
- Other citation details
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Please cite this item as: Freer, J., & Tarling, G. (2023). Processing and analysis of Arctic Calanus occurrence records from OBIS and GBIF databases (Version 1.0) [Data set]. NERC EDS UK Polar Data Centre. https://doi.org/10.5285/a5cbfbe1-6fa6-44cf-96fe-db92c32b69d0
- Credit
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No credit.
- Status
- Completed
- Point of contact
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Organisation name Individual name Electronic mail address Role British Antarctic Survey Freer, Jennifer J. Author British Antarctic Survey Tarling, Geraint A. Author NERC EDS UK Polar Data Centre Point of contact
- Maintenance and update frequency
- As needed
- Maintenance note
- Completed
- Theme
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GBIF
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OBIS
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sampling bias
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winter
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zooplankton
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- Place
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Arctic
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North Atlantic Ocean
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GEMET - INSPIRE themes, version 1.0
- Access constraints
- Other restrictions
- Other constraints
- no limitations to public access
- Access constraints
- Other restrictions
- Other constraints
- no limitations
- Use constraints
- License
- Other constraints
- Open Government Licence v3.0
- Use constraints
- Other restrictions
- Other constraints
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Data are released under the Open Government Licence V3.0:
- Use constraints
- Other restrictions
- Other constraints
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None.
- Unique resource identifier
- url
- Codespace
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url
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
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url
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
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url
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
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url
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
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url
- Association Type
- Cross reference
- Unique resource identifier
- doi
- Codespace
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doi
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
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url
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
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url
- Association Type
- Cross reference
- Unique resource identifier
- doi
- Codespace
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doi
- Association Type
- Cross reference
- Unique resource identifier
- doi
- Codespace
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doi
- Association Type
- Cross reference
- Unique resource identifier
- doi
- Codespace
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doi
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
-
url
- Association Type
- Cross reference
- Unique resource identifier
- url
- Codespace
-
url
- Association Type
- Cross reference
- Spatial representation type
- Text, table
- Language
- English
- Character set
- UTF8
- Topic category
-
- Biota
- Environment
- Oceans
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- Begin date
- 1870-01-01
- End date
- 2017-12-31
- Supplemental Information
-
It is recommended that careful attention be paid to the contents of any data, and that the author be contacted with any questions regarding appropriate use. If you find any errors or omissions, please report them to polardatacentre@bas.ac.uk.
- Title
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European Petroleum Survey Group (EPSG) Geodetic Parameter Registry
- Date (Publication)
- 2008-11-12
- Cited responsible party
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Organisation name Individual name Electronic mail address Role European Petroleum Survey Group
Publisher
- Unique resource identifier
- urn:ogc:def:crs:EPSG::3031
- Version
-
6.18.3
Distributor
- Distributor contact
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Organisation name Individual name Electronic mail address Role NERC EDS UK Polar Data Centre Distributor
- Distributor format
-
Name Version text/html application/octet-stream text/plain text/csv
- Units of distribution
-
bytes
- Transfer size
- 260046848
- OnLine resource
-
Protocol Linkage Name WWW:LINK-1.0-http--link
https://ramadda.data.bas.ac.uk/repository/entry/show?entryid=a5cbfbe1-6fa6-44cf-96fe-db92c32b69d0 Get Data
- Units of distribution
-
bytes
- Transfer size
- 260046848
- OnLine resource
-
Protocol Linkage Name WWW:LINK-1.0-http--link
https://ramadda.data.bas.ac.uk/repository/entry/show?entryid=a5cbfbe1-6fa6-44cf-96fe-db92c32b69d0 Get Data
- Units of distribution
-
bytes
- Transfer size
- 260046848
- OnLine resource
-
Protocol Linkage Name WWW:LINK-1.0-http--link
https://ramadda.data.bas.ac.uk/repository/entry/show?entryid=a5cbfbe1-6fa6-44cf-96fe-db92c32b69d0 Get Data
- Units of distribution
-
bytes
- Transfer size
- 260046848
- OnLine resource
-
Protocol Linkage Name WWW:LINK-1.0-http--link
https://ramadda.data.bas.ac.uk/repository/entry/show?entryid=a5cbfbe1-6fa6-44cf-96fe-db92c32b69d0 Get Data
- Hierarchy level
- Dataset
- Statement
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Methodology:
Data from OBIS were accessed on 12-01-2023 and data from GBIF were accessed on 13-01-2023. To maintain consistency, all encounters were treated as presence only, i.e. no weighting was given to records with information on abundance, biomass or number of individuals and no absence records were included. Raw downloaded data and the contributing dataset citations are provided for both databases (see Section "Related datasets").
Subsequent data processing and cleaning steps are outlined in section "Quality".
All cleaned records, regardless of dataset origin, were matched to seafloor bathymetry using a 0.25 x 0.25 decimal degree resolution raster grid (Becker et al., 2009). Cleaned records from OBIS had fields for maximum and minimum collection depth. These data were matched to vertically resolved temperature data from the 2018 World Ocean Atlas (Locarnini et al., 2018) and seasonal sea-ice concentration data from the National Snow and Ice Data Centre (Walsh et al., 2019). Both temperature and sea ice grids had a resolution of 0.25 x 0.25 decimal degrees.
Code_frontiers_2023.html (22 MB) - HTML output from Quarto (implemented in R) that provides the annotated source code to reproduce the data cleaning, analysis and figures from this dataset has been included in the publication.
Data collection:
All analyses were carried out in R version 4.2.1.
Data quality:
Data processing steps carried out on the raw downloaded files are outlined in detail in the html file of annotated source code. In brief, records were excluded if they were erroneously located on land, in the Pacific sector or in the southern hemisphere; were not identified to species level; had missing identifiers for month or year of collection. Metadata fields for "sampling protocol" ad "lifestage" were cleaned by re-categorising entries into a condensed set of inputs. Duplicate records were removed as defined by records that had the following identical identifiers: species, longitude, latitude, year, month, day, minimum and maximum collection depth (OBIS), average collection depth (GBIF), life-stage. Lastly, cleaned OBIS and GBIF data were combined into a single dataset and duplicate occurrences between databases were removed using the same identical identifiers listed above. Records where average sample collection depth was greater than bathymetric depth were flagged and removed when creating appropriate figures.
Metadata
- File identifier
- a5cbfbe1-6fa6-44cf-96fe-db92c32b69d0 XML
- Metadata language
- English
- Character set
- UTF8
- Hierarchy level
- Dataset
- Hierarchy level name
-
dataset
- Date stamp
- 2023-03-27
- Metadata standard name
-
ISO 19115 Geographic Information - Metadata
- Metadata standard version
-
ISO 19115:2003(E)
- Metadata author
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Organisation name Individual name Electronic mail address Role NERC EDS UK Polar Data Centre Point of contact
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