20140327 rda plazi_final
TRANSCRIPT
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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
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Overview
Who are we?
The issue
The Plazi workflow
The legal aspects
Synopsis
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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
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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
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Names as information tags in life sciences
Names
Characteristics
Publications
GenesCollections
Specimens
Distribution
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A global reference system for spatial data
60°48'9.75"N50°50'1.23"E
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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
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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
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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
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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
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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
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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
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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
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Links
Conversionn
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The way forward or prospective publishing
Fresh of press: fully automated distribution of data from publications
From discovery to publcation in three weeks …
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What does this mean?
Linked Open Data Cloud
http://www.w3.org/wiki/SweoIG/TaskForces/CommunityProjects/LinkingOpenData
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Plazi workflow: overview
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1 Million Treatment Goal to complement Global Names Architecture name usages with the respective treatments
Semantic enhanced linked publishing
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$$$$Funding
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The real issue
BUT
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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
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Restrictions to information exchange:
- National security / data protection (n/a)
- Copyright (only "works")
- Database protection (only private commercial databases)
- Data use agreements
Copyright issues
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Obstacles to Plazi workflow:
- Scanning / reproduction of works
- Scanning / reproduction of databases
- Making available of works
Copyright issues
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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
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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
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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
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For further reading:http://plazi.org/?q=plazi_publications
http://plazi.org
Thank you very much!
Donat Agosti & Willi Egloff