20140327 rda plazi_final
TRANSCRIPT
Case study 2: (Plazi) Treatment Repository
Donat Agosti & Willi Egloff (Plazi, Bern) March 27, 2014
Dublin, RDA Third Plenary Meeting,RDA/CODATA Legal Interoperability IG
Overview
Who are we?
The issue
The Plazi workflow
The legal aspects
Synopsis
Extensive decentralized biodiversity infrastructure
Plants3,400 Herbaria worldwide10,000 Associate curators and specialists350,000,000 specimens in collections 180,000,000 specimens digitized2,000,000,000 specimens including animals
Source: gbif.org; http://sciweb.nybg.org/science2/IndexHerbariorum.asp
200,000,000+ printed pages1,900,000 species described20,000,000+ species treatments 17,000 new species per year
Biodiversity libraries
BUT: The data are hidden
Incomplete digitization Publications are unstructuredCollections are incompleteData are not linkedMost data are not open
Names as information tags in life sciences
Names
Characteristics
Publications
GenesCollections
Specimens
Distribution
A global reference system for spatial data
60°48'9.75"N50°50'1.23"E
A global reference system for species related data
(http://www.yourwildlife.org/wp-content/uploads/2013/02/Common-ant-collage.jpg)
2D78C98D-0B15-4362-8DD8-185983C468FE
A global reference system for species related data
Spatial data Taxonomic data
Entity Location Species
Entity name Location name Scientific Name
Reference Geo-Coordinate UUID
Reference System Coordinate System Hierarchical System
Reference Data Global Map / Global Satellite coverage
Global Names Archictecture
Needed:
Global Names Architecturehttp://globalnames.org
(Reference system for all names)
SEE also: RDA Biodiversity Data Integration IG; RDA Data publishing IG
A global reference system for species related data
Formica obsoleta Linnaeus 1758, 580
zoobank.org:act:2D78C98D-0B15-4362-8DD8-185983C468FE
Taxonomic name usage defined by a treatment
A global reference system for species related data
A global reference system for species related data
Treatment: sections of publications documenting the features or distribution of a related group of organisms (called a “taxon”, plural “taxa”) in ways adhering to highly formalized conventions. (Catapano, 2010)
Formica obsoleta, Linnaeus 1758: 580
Formica obsoleta Linnaeus 1758, 580
zoobank.org:act:2D78C98D-0B15-4362-8DD8-185983C468FE
Taxonomic name usage defined by a treatment
treatment.plazi.org/id/2D78C98D-0B15-4362-8DD8-185983 C468FE
A global reference system for species related data
Text
<tax:treatment> <tax:nomenclature> <tax:name> <tax:xid source="HNS" identifier="193329"/> <tax:xmldata> <dc:Genus>Mystrium</dc:Genus> <dc:Species>leonie</dc:Species> </tax:xmldata> Mystrium leonie </tax:name> Bohn & Verhaagh <tax:status>n. sp.</tax:status> Fig 1 D - F </tax:nomenclature> <tax:div type="description"> <tax:p>HOLOTYPE WORKER: TL 3.95, HL 1.02, HW 0.95, CI 93, SL 1.30, SI 137, PW 0.73, ML 0.38. Mandible outer margin strongly curving to a sharp apical tooth, the apex parallel to the anterior clypeal margin. (Holotype with material in mandibles, so mandibles and anterior clypeus $ described below from paratypes.) Median clypeus....</treatment>
Enhanced and linked text
Formalization of taxonomic publications
Links
Conversionn
The way forward or prospective publishing
Fresh of press: fully automated distribution of data from publications
From discovery to publcation in three weeks …
What does this mean?
Linked Open Data Cloud
http://www.w3.org/wiki/SweoIG/TaskForces/CommunityProjects/LinkingOpenData
Plazi workflow: overview
1 Million Treatment Goal to complement Global Names Architecture name usages with the respective treatments
Semantic enhanced linked publishing
$$$$Funding
The real issue
BUT
Access to ant taxonomic publications through antbase.org /Smithsonian Institution, including currently the entire body of non-copyrighted publications since 1758 (>4,000 publications or 85,000 pages)
The real issue: copyright
Restrictions to information exchange:
- National security / data protection (n/a)
- Copyright (only "works")
- Database protection (only private commercial databases)
- Data use agreements
Copyright issues
Obstacles to Plazi workflow:
- Scanning / reproduction of works
- Scanning / reproduction of databases
- Making available of works
Copyright issues
Legal base for actual workflow
- Legal license for internal use in organizations / institutions (Art. 19 CH-Copyright Act)
- No database protection in CH
- Legal license overrules data use agreements
Copyright issues
Making available:
- Only non copyrighted data (names, treatments, references, ... See http://plazi.org/?q=blue_list)
- Works (original publications) restricted to internal use
Copyright issues
Removing further hurdles to information exchange:
- Suggest mandatory legal licenses for research purposes at EU-level
- Explore application of extended collective licenses (Scandinavian countries)
- Introduce extended collective licenses into CH-copyright law
Copyright issues
For further reading:http://plazi.org/?q=plazi_publications
http://plazi.org
Thank you very much!
Donat Agosti & Willi Egloff