pro-iBiosphere Towards Open Biodiversity Knowledge COOPEUS 2013
57
Jeremy Miller Naturalis Biodiversity Center Leiden, Netherlands, and Plazi, Switzerland Pro-iBiosphere Towards Open Biodiversity Knowledge with Soraya Sierra, Donat Agosti, Lyubomir Penev, and the Pro-iBiosphere team http://www.pro-ibiosphere.eu/ http://wiki.pro-ibiosphere.eu/wi ki/Main_Page
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Invited presentation, meeting of COOPEUS - Connecting Research Infrastructures WP6, in conjunction with EGI (European Grid Infrastructure) Technical Forum, Madrid, Spain, September 2013
Transcript of pro-iBiosphere Towards Open Biodiversity Knowledge COOPEUS 2013
Jeremy MillerNaturalis Biodiversity Center
Leiden, Netherlands, andPlazi, Switzerland
Pro-iBiosphereTowards Open Biodiversity Knowledge
with Soraya Sierra, Donat Agosti, Lyubomir Penev, and the Pro-iBiosphere team
http://www.pro-ibiosphere.eu/http://wiki.pro-ibiosphere.eu/wiki/Main_Page
Goals
• Address technical and semantic interoperability challenges– How to make taxonomic data, information and knowledge more
widely accessible and re-usable?– How to link taxonomic literature to external datasets?
• Gain a better understanding of how to sustain important workflows and services
Multi-Taxon Specimen Data for Setting Conservation Priorities
Source: Kremen C, Cameron A, Moilanen A, Phillips SJ, Thomas CD, Beentje H, Dransfield J, Fisher BL, Glaw F, Good TC, Harper GJ, Hijmans RJ, Lees DC, Louis E, Nussbaum RA, Raxworthy CJ, Razafimpahanana A, Schatz GE, Vences M, Vieites DR, Wright PC, Zjhra ML. 2008. Aligning conservation Priorities across taxa in Madagascar with high-resolution planning tools. Science 320: 222-226.
Conservation priority areas for six single-taxon solutions
Consensus conservation priority areas and actual and proposed protected areas
Antweb Monographs Field guide
Monograph MonographsField guide
Monographs
2003: Madagascar announces it will triple protected land to 10% coverage
Animals
Records: 230,000,000Species: 165,000Density: 1,400
Plants
Records: 80,000,000Species: 187,000Density: 427
Birds
Records: 183,000,000Species: 1,000Density: 18,000
Hymenoptera
Records: 4,000,000Species: 38,000Density: 112
Spiders
Records: 450,000Species: 15,500Density: 29
GBIF DataGBIF Records Species in GBIF
Plants
Birds
Hymenoptera
Spiders
Other
Plants
BirdsHymenoptera
Spiders
animalsOtheranimals
% D
escr
ibed
spe
cies
in G
BIF
R/Sp: 427
R/Sp: 18,000
R/Sp: 112
R/Sp: 29
Number of Collection Records in Physical Versus Digital Form, by Collection
Number of Collection Records in Physical Versus Digital Form, by Collection
Number of Collection Records in Physical Versus Digital Form, by Collection
the structure of taxonomic data…
Taxonomic article
References
Descriptions
Nomenclature
Images
Records
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Na
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DNA
Taxonomic article
References
Descriptions
Nomenclature
Images
Records
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Na
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GUID
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GU
ID
GU
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Taxonomic article
References
Descriptions
Names
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01001010010011011
0100111010001000100100110111001000DNA
DNA
01001010010011011
0100111010001000100100110111001000Records
01001010010011011
0100111010001000100100110111001000Images
01001010010011011
0100111010001000100100110111001000References
01001010010011011
0100111010001000100100110111001000Nomenclature
01001010010011011
0100111010001000100100110111001000Descriptions
GU
ID
GUID
GUID
GU
ID
GU
ID
GU
ID
Taxonomic article
References
Descriptions
Names
Images
Records
01001010010011011
0100111010001000100100110111001000DNA
DNA
01001010010011011
0100111010001000100100110111001000Records
01001010010011011
0100111010001000100100110111001000Images
01001010010011011
0100111010001000100100110111001000References
01001010010011011
0100111010001000100100110111001000Nomenclature
01001010010011011
0100111010001000100100110111001000Descriptions
GU
ID
GUID
GUID
GU
ID
GU
ID
GU
ID
GBIF
ZooBank
Global Names
Morphbank
speciesID
EOL
Genbank
Taxonomists
Ecologists
Conservation
Policy
Public
the prospective approach…
Publication PDF
Publication PDF
XML: TaxPub
Publication PDF
XML: TaxPub
Publication PDF
XML: TaxPub
Publication PDF
XML: TaxPub
XML: TaxPub
Encyclopedia of Life
Pensoft: Biodiversity Data Journal
Pensoft: Biodiversity Data Journal
Pensoft: Biodiversity Data Journal
Pensoft: Biodiversity Data Journal
Pensoft: Biodiversity Data Journal
the retrospective approach…
200,000 Taxonomic Articles in Zoological RecordSince 1864
200,000 Taxonomic Articles in Zoological RecordSince 1864
Elements of a Taxonomic Treatment
Elements of a Taxonomic Treatment Nomenclature
Elements of a Taxonomic Treatment Nomenclature
DNA sequences
Elements of a Taxonomic Treatment Nomenclature
DNA sequences
Materials citations
Elements of a Taxonomic Treatment Nomenclature
DNA sequences
Materials citations
Distribution
Elements of a Taxonomic Treatment Nomenclature
DNA sequences
Materials citations
Distribution
Diagnosis
Elements of a Taxonomic Treatment Nomenclature
DNA sequences
Materials citations
Distribution
Diagnosis
Description
Elements of a Taxonomic Treatment Nomenclature
DNA sequences
Materials citations
Distribution
Diagnosis
Description
Natural history
Elements of a Taxonomic Treatment Nomenclature
DNA sequences
Materials citations
Distribution
Diagnosis
Description
Figures
Natural history
Distributing Elements to Biodiversity Databases
Thank you for your attention
Acknowledgments
Naturalis Biodiversity CenterSoraya SierraJan van TolEva Kralt
PlaziDonat AgostiGuido SauterTerry CatapanoWilli Egloff
Pensoft PublishingLyubomir PennevTeodor GeorgievPavel StoevJordan Biserkov
National Botanic Garden of BelgiumQuentin GroomRoyal Botanic Gardens, KewDon KirkupAllan PattonBotanischer Garten und Botanisches Museum BerlinWalter BerendsohnAnton GüntschMuseum für Naturkunde Leibniz Gregor HagedornSigma OrionisCamille Torrenti
COOPEUS-WP6Jesus Marco de Lucas
California Academy of SciencesStan Blum
