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Danube4all Fish Occurrence Records

Title
Danube4all Fish Occurrence Records
License
Open Data Commons Open Database License / OSM (ODbL/OSM)
+ You are free to copy, distribute, transmit and adapt our data, as long as you credit OpenStreetMap and its contributors

+ If you alter or build upon our data, you may distribute the result only under the same licence.

+ For more info see http://www.openstreetmap.org/copyright.
Abstract

The present database compiles and standardize fish occurrence datasets from federal agencies, research institutes, and conservation organizations, integrating data from sources such as the Global Biodiversity Information Facility, the Joint Danube Surveys, and the European Fish Index.  It contains 133,103 occurrence records across 116 fish species, representing 30 families and 17 orders, with a temporal range from 1856 to 2024, organized into 38 columns. In total, 506,290 entries were collected and subsequently subjected to quality checks and cleaning procedures. To facilitate data collation, formatting, and quality control, an R package, danubeoccurR , was developed, which streamlined the entire process. Additional R packages, hydrographr and specleanr, were incorporated into the workflow to aid in data manipulation and geospatial analysis.

Publication Date
Type
Vector Data
Category
Biota
Flora and/or fauna in natural environment. Examples: wildlife, vegetation, biological sciences, ecology, wilderness, sealife, wetlands, habitat.
Regions
Global
Responsible
More info
-
Purpose

The dataset provides essential data to address conservation challenges for fish in Europe and the Danube River Basin. It can be used to identify suitable habitats for native species in projects aimed at prioritizing habitat reconnection, taking into account estimated dam removal and fish pass construction costs, while also minimizing the spread of invasive species.

Language
English
Data Quality

Geospatial Considerations: Species occurrences are georeferenced based on available locality information. Users should be aware that some records may have variable spatial precision, particularly historical occurrences. It is recommended to apply spatial filtering techniques suited to the intended analysis. For example, the coordinate uncertainty provided for records sourced from GBIF can help determine whether a record is suitable for a given analysis. Additionally, the function snap_points_on_map() in danubeoccurR allows users to manually adjust occurrence points for greater precision.

Taxonomic Standardization: Users are advised to cross-check species names with updated taxonomic databases if taxonomic revisions occur after the dataset's publication.

Data Quality and Potential Limitations: While efforts were made to standardize and clean the data, users should consider potential sources of bias, including sampling effort variations, taxonomic misidentifications, or incomplete historical records. Some records have been flagged as environmental outliers based on inconsistencies between species occurrence and expected environmental conditions. These flagged records should be reviewed carefully and may require further investigation or validation before inclusion in analyses.

Supplemental Information

No information provided

Spatial Representation Type
vector data is used to represent geographic data

Layer WMS GetCapabilities document

Attribute Name Label Description
fid
scientificName The full scientific name, with authorship and date information if known.
genus The full scientific name of the genus in which the taxon is classified.
family The full scientific name of the family in which the taxon is classified.
order The full scientific name of the order in which the taxon is classified.
verbatimIdentification A string representing the taxonomic identification as it appeared in the original record.
identificationRemarks Comments or notes about the process or conditions of identification, or any other information relevant to the identification of the taxon.
occurrenceID A globally unique identifier for an individual occurrence record
materialSampleID A globally unique identifier for a physical sample or collection of material related to an occurrence.
basisOfRecord The specific nature of the data record. Categories “PreservedSpecimen”, “MaterialCitation” and “HumanObservation”.
occurrenceRemarks Comments or notes about the occurrence. In this case, whether or not the occurrence could be an environmental outlier detected by 10 outlier detections methods (i.e. kmeans, local outlier factor, isolation forest, Z-score, semi-interquartile range, Hampel
individualCount The number of individuals present at the time of the occurrence.
lifeStage The age class or life stage of the organism(s) at the time the occurrence was recorded.
day The integer day of the month on which the event occurred.
month The integer month in which the event occurred.
year The four-digit year in which the event occurred, according to the Common Era Calendar.
recordedBy A person, group, or organization responsible for recording the original occurrence.
identifiedBy A list (concatenated and separated) of names of people, groups, or organizations who assigned the Taxon to the subject.
waterBody The name of the water body in which the location occurs.
subcatchmentID Identification number for each subcatchment in the Danube River Basin1 . A subcatchment is the land area that drains into a stream reach.
locality The specific description of the place.
decimalLatitude The geographic latitude (in decimal degrees, using the spatial reference system given in geodeticDatum) of the geographic center of a location. Positive values are north of the Equator, negative values are south of it. Legal values lie between -90 and 90.
decimalLongitude The geographic longitude of the geographic center of a location. Positive values are east of the Greenwich Meridian, negative values are west of it. Legal values lie between -180 and 180, inclusive.
geodeticDatum The ellipsoid, geodetic datum, or spatial reference system (SRS) upon which the geographic coordinates given in decimalLatitude and decimalLongitude as based.
coordinatePrecision Precision of the coordinates provided for a specific occurrence record. e.g.: coordinatePrecision = 0.0001 (Coordinates are precise to approximately 11 meters at the equator.)
coordinateUncertaintyInMeters The radius of uncertainty around the given geographic coordinates, indicating the potential error in the location of an occurrence.
georeferenceProtocol The methods or protocols used to determine the geographic coordinates of an occurrence. Specify the method used for determining the location of the occurrence, such as manual georeferencing from maps, GPS devices, or automated systems.
georeferenceSources A list (concatenated and separated) of maps, gazetteers, or other resources used to georeference the location, described specifically enough to allow anyone in the future to use the same resources.
catalogNumber An identifier (preferably unique) for the record within the data set or collection.
collectionCode Term used to identify the specific collection within an institution or repository where a specimen, observation, or occurrence record is cataloged.
institutionCode The name (or acronym) in use by the institution having custody of the object(s) or information referred to in the record.
datasetName The name identifying the data set from which the record was derived.
samplingProtocol The names of, references to, or descriptions of the methods or protocols used.
license A legal document giving official permission to do something with the resource.
rightsHolder A person or organization owning or managing rights over the resource.
references A related resource that is referenced, cited, or otherwise pointed to by the described resource. Link to academic papers, datasets, or authoritative publications that support the information provided in the occurrence record. e,g, a DOI linking to a study
bibliographicCitation A bibliographic reference for the resource. The intended usage of bibliographicCitation, is to provide the preferred way to cite the resource itself.
gbifID Identification number of the occurrence record at the Global Biodiversity Information Facility (GBIF) database.
datasetKey A GBIF-specific, globally unique identifier (UUID) for a dataset registered in the GBIF Registry. It’s included on occurrence records and downloads to indicate which dataset a record belongs to.
geom

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