1. Core Data Resources and FAIRification of Data
Biodiversity Data Integration IG
Core Data Resources and
FAIRification of Data
Presentation for Joint meeting:
IG ELIXIR Bridging Force, IG Biodiversity Data Integration, WG BioSharing Registry
RDA P11 Berlin 2018
Wouter Addink
DiSSCo Coordination team member

2. Biodiversity Data Integration IG
From data.. to knowledge?

3. Moving away from siloed data
Atlas of Living Australia
Moving away from siloed data L
Biodiversity Heritage Library L
Catalogue of Life
Global
Biodiversity
Knowledgebase L
GBIF L
Barcode of Life L
iDigBio L
Encyclopedia of Life L
Treebase

4. Biodiversity Data Integration IG
Hot topics in the Biodiversity Data community
A.H. Ariño et al: TDWG Now and Then, TDWG , Costa Rica, 7-XII-2016

5. Biodiversity Data Integration IG
UN Sustainable Development Goals
Required:
High quality integrated data and services
Coordinated strategy

6. Biodiversity Data Integration IG
Linking dispersed information is imperative
Example– Invasive Alien Species
UN Sustainable Development Goals (Target 15.8)
Economic costs of IAS for EU €20 Billion / year
Kettunen et al. 2009
Urgent challenge
Institutional collections
Facilities &
information
Climate data
Ecological monitoring data
Genomic information
Species distribution & genomics
Linked
Data
Other Research Infrastructures
Analysis /
Interpretation
Services
Modelling / Prevention / Early detection

7. DATA MEASUREMENTS MODELLING
Biodiversity Data Integration IG
RI landscape for linking biodiversity information
ENVRI plus, 2017
Species/
organisms
observatories
Experiments
RIs providing data on external factors
Integrative RIs
Biodiversity standards / Reference data
Taxonomic backbone
System
Modelling / Prevention / Early detection
DATA MEASUREMENTS MODELLING
Species distribution & genomics
Institutional collections
Alien Invasive species use case

8. SAP Biodiversity Data Integration IG Alignment of Projects for
effective RI development
- DiSSCo example
Biodiversity Data Integration IG
ICEDIG
€3M | €
CoL+
€0.5M | €
€10M |
DiSSCo Design Study
€10M |
SYNTHESYS+ €
€2M |
DiSSCo Deploy €
€53M |
DiSSCo Construct €
DiSSCo Prepare
€20M | €
€0.5M |
MOBILISE €
SAP
Strategic
Alignment
of Projects

9. 114 National Facilities 21 Countries
DiSSCo: A new European infrastructure
114 National Facilities
21 Countries
Largest ever formal agreement between natural science collection facilities
Centralised governance model already in place
Supporting network of working groups
DiSSCo builds on top of a mature community of institutions
Strategic collaboration already underpinned by sound governance and decision-making structures

10. Biodiversity Data Integration IG
Challenges in the
Biodiversity Data domain
Accelerate generation and linking of information into research data objects
Ensure provenance and quality
Provide reliable, unified, certified services and harmonised policies
Provide services to other Research Infrastructures
Connect publishing and use
Improve feedback and ability to reference data

11. Biodiversity Data Integration IG
Stakeholders in FAIRification of data
Specification of core cloud services | Service Level Agreements
e-Infrastructures
Standardisation bodies
New community data Standards
Recommendations - specifications
| Knowledge exchange
Technical communities
Research Infrastructures
User requirements | Systems interoperability
Data, workflow and systems integrity
FAIR principles

12. Linking Biodiversity Data & Core data resources
Catalogue of Life Plus project:
Joint development of a practical, community-based approach to rapid completion of a Global Taxonomic backbone:
(Re-)connects taxonomic research with specimen data
Quality control and enhanced linkages
Contribution of taxonomic expertise through a clearinghouse
Species names
DNA Barcoding
Specimen identifiers
Literature references
iBOL – International Barcoded of Life project:
The International Barcode of Life Project (iBOL) is the largest biodiversity genomics initiative ever undertaken, to create a digital identification system for life.
CETAF Identifiers initiative:
a joint Linked Open Data (LOD) compliant identifier system developed by the CETAF Information Science and Technology Committee (ISTC) providing mechanisms for consistently referencing individual specimens
BHL – Biodiversity Heritage Library:
Collaboratively makes biodiversity literature openly available to the world

13. Biodiversity Data Integration IG
FAIRification process adopted by GO FAIR
Steps:
Retrieve non-FAIR data
Analyse the retrieved data
Define the semantic model
Make data linkable
Assign license
Define metadata for the dataset
Deploy FAIR data resource

14. Biodiversity Data Integration IG
Some issues for FAIRification of Biodiversity Data
No infrastructure yet for sensitive biodiversity data
No standard ontologies
Semantic Web and Linked Data technologies not widely used in community
No common standard for metadata and current standards incomplete for giving attribution for the maintenance, curation, and digitization of collections. (RDA / TDWG Metadata Standards WG is working on this)

15. The need for taxon concept identifiers
From:
The use and limits of scientific names in biological informatics
D. Remsen

16. Data classes in the biodiversity data domain
Occurrence
Specimen
Taxon
Concept
Interaction
Taxon Name
Publication
Trait
Collection
Sequence
Gene

17. Meta-model interpretation
Relations in occurrence data
Record
<Class=Occurrence>
BRA:UFPB:JPB:
Meta-model interpretation
Observer
Soares Neto, RL
Place
João Pessoa
includedIn
Place
Paralba
includedIn
observedBy
includedIn
Place
Brasil
Occurrence
BRA:UFPB:JPB:
Event
<Unnamed>
20 Jan 2016
Place
Campus I da UFPB
( S, W)
fromEvent
atLocality
hasEvidence
Specimen
61643
identifiedAs
TaxonConcept
<Species>
hasName
TaxonName
Tarenaya spinosa
includedIn
inCollection
TaxonConcept
<Genus>
TaxonName
Tarenaya
hasOwner
hasName
Collection
JPB
Institution
UFPB
TaxonConcept
<Family>
TaxonName
Cleomaceae
includedIn
hasName
hasCustodian