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louisbrulenaudet
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obis

Tasks:
Time Series Forecasting
Tabular Regression
Tabular Classification
Modalities:
Tabular
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Languages:
English
Latin
Size:
100M - 1B
Tags:
OBIS
biology
marine
sealife
sea
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metadata
license: cc-by-nd-4.0
configs:
  - config_name: default
    data_files:
      - split: train
        path: data/train-*
pretty_name: OBIS Marine Species Observation Dataset
task_categories:
  - time-series-forecasting
  - tabular-regression
  - tabular-classification
language:
  - en
  - la
tags:
  - OBIS
  - biology
  - marine
  - sealife
  - sea
size_categories:
  - 100M<n<1B

Dataset Description

OBIS Marine Species Observation Dataset

More than 20 OBIS (Ocean Biodiversity Information System) nodes around the world connect 500 institutions from 56 countries. Collectively, they have provided over 45 million observations of nearly 120,000 marine species, ranging from bacteria to whales, from the surface to 10,900 meters depth, and from the tropics to the poles. The datasets are integrated, allowing seamless search and mapping by species name, higher taxonomic level, geographic area, depth, time, and environmental parameters. OBIS originates from the Census of Marine Life (2000-2010) and was adopted as a project under IOC-UNESCO’s International Oceanographic Data and Information (IODE) programme in 2009.

Objectives

  1. Provide a comprehensive scientific knowledge base: The dataset aims to be the world’s largest repository on the diversity, distribution, and abundance of all marine organisms, contributing to Aichi biodiversity target 19.
  2. Facilitate biogeographic and environmental data integration: This integration aids climate change studies by combining biogeographic information with physical and chemical environmental data.
  3. Support global marine biodiversity monitoring: The dataset contributes to a global approach through guidelines on standards and best practices, including Essential Ocean Variables, observing plans, and indicators in collaboration with other IOC programs.
  4. Inform policy making: By supporting assessments of the state of marine biological diversity, the dataset helps inform policy makers and responds to needs of regional and global processes such as the UN World Ocean Assessment (WOA) and the Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services (IPBES).
  5. Support marine spatial planning: The data assists in identifying biologically important marine and coastal habitats for the development of marine spatial plans and other area-based management plans, such as Ecologically or Biologically Significant marine Areas (EBSAs) under the Convention on Biological Diversity.
  6. Enhance institutional and professional capacity: As part of IOC’s Ocean Teacher Global Academy (OTGA), the dataset contributes to capacity building in marine biodiversity and ecosystem data collection, management, analysis, and reporting.
  7. Provide educational and research support: The dataset offers guidance on using biodiversity data for education and research, providing state-of-the-art services to society, including decision-makers.
  8. Foster international collaboration: The dataset serves as a global platform for collaboration between national and regional marine biodiversity and ecosystem monitoring programs, enhancing contributions to the Global Ocean Observing System (GOOS) and the Global Earth Observing System of Systems (GEOSS).

Dataset Fields

Field Remarks
id Globally unique identifier assigned by OBIS.
dataset_id Internal dataset identifier assigned by OBIS.
decimalLongitude Parsed and validated by OBIS.
decimalLatitude Parsed and validated by OBIS.
date_start Unix timestamp based on eventDate (start).
date_mid Unix timestamp based on eventDate (middle).
date_end Unix timestamp based on eventDate (end).
date_year Year based on eventDate.
scientificName Valid scientific name based on the scientificNameID or derived by matching the provided scientificName with WoRMS.
originalScientificName The scientificName as provided.
minimumDepthInMeters Parsed and validated by OBIS.
maximumDepthInMeters Parsed and validated by OBIS.
coordinateUncertaintyInMeters Parsed and validated by OBIS.
flags Quality flags added by OBIS. The quality flags are documented here.
dropped Record dropped by OBIS quality control?
absence Absence record?
shoredistance Distance from shore in meters added by OBIS quality control, based on OpenStreetMap. Negative value indicates that the observation was inland by -1 times that distance.
bathymetry Bathymetry added by OBIS. Bathymetry values based on EMODnet Bathymetry and GEBCO, see Data references.
sst Sea surface temperature added by OBIS. sst values based on Bio-Oracle, see Data references.
sss Sea surface salinity added by OBIS. sss values based on Bio-Oracle, see Data references.
marine Marine environment flag based on WoRMS.
brackish Brackish environment flag based on WoRMS.
freshwater Freshwater environment flag based on WoRMS.
terrestrial Terrestrial environment flag based on WoRMS.
taxonRank Based on WoRMS.
AphiaID AphiaID for the valid name based on the scientificNameID or derived by matching the provided scientificName with WoRMS.
redlist_category IUCN Red List category.
superdomain Based on WoRMS.
domain Based on WoRMS.
kingdom Based on WoRMS.
subkingdom Based on WoRMS.
infrakingdom Based on WoRMS.
phylum Based on WoRMS.
phylum (division) Based on WoRMS.
subphylum (subdivision) Based on WoRMS.
subphylum Based on WoRMS.
infraphylum Based on WoRMS.
parvphylum Based on WoRMS.
gigaclass Based on WoRMS.
megaclass Based on WoRMS.
superclass Based on WoRMS.
class Based on WoRMS.
subclass Based on WoRMS.
infraclass Based on WoRMS.
subterclass Based on WoRMS.
superorder Based on WoRMS.
order Based on WoRMS.
suborder Based on WoRMS.
infraorder Based on WoRMS.
parvorder Based on WoRMS.
superfamily Based on WoRMS.
family Based on WoRMS.
subfamily Based on WoRMS.
supertribe Based on WoRMS.
tribe Based on WoRMS.
subtribe Based on WoRMS.
genus Based on WoRMS.
subgenus Based on WoRMS.
section Based on WoRMS.
subsection Based on WoRMS.
series Based on WoRMS.
species Based on WoRMS.
subspecies Based on WoRMS.
natio Based on WoRMS.
variety Based on WoRMS.
subvariety Based on WoRMS.
forma Based on WoRMS.
subforma Based on WoRMS.

Source

OBIS (YEAR) Ocean Biodiversity Information System. Intergovernmental Oceanographic Commission of UNESCO. https://obis.org.

Citing & Authors

If you use this dataset in your research, please use the following BibTeX entry.

@misc{HFforLegal2024,
  author =       {Louis Brulé Naudet},
  title =        {OBIS Marine Species Observation Dataset},
  year =         {2024}
  howpublished = {\url{https://huggingface.co/datasets/louisbrulenaudet/obis}},
}

Feedback

If you have any feedback, please reach out at [email protected].