hue university rotifer taxonomy workshop 6-12 march 2010 global internet resources for taxonomists...
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Hue University Rotifer Taxonomy workshop 6-12 March 2010
Global internet resources for taxonomists
Hendrik SEGERS
Belgian Biodiversity PlatformRoyal Belgian Institute of Natural Sciences
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Acronyms unlimited
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Internet Resources for Taxonomists
Professional organisationLiteratureBiodiversity Information:• What: Taxonomy / Nomenclature information• Where: Biogeographical information /
Georef’d data (minimal)
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Bionet International
• The world’s leading professional organisation for taxonomists
• Promotes taxonomy• Contains information for taxonomists
http://www.bionet-intl.org/
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Literature
• The Biodiversity Heritage Library(26,500+ volumes, 10,800,000+ pages)
http://www.biodiversitylibrary.org/• The Gutenberg project:
http://www.gutenberg.org• Google books • Google Scholar
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Literature
Free content:• CBD, FAO, RAMSAR, CMS… technical papers: • http://www.cbd.int/information/library.shtml • http://www.fao.org/corp/publications/en/• http://www.ramsar.org/index_key_docs.htm• http://www.cms.int/publications/index.htm
• CABI, IUCN, WWF manuals, reports…• http://www.cabi.org/home.asp• http://www.iucn.org/resources/index.cfm• http://www.panda.org/news_facts/publications/
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Literature
Free content:• Journals:
– All free content: • The directory of open access journals:
http://www.doaj.org/E.g., Zoological Studies, Raffles Bulletin, Science Asia,…
(but check level: http://scientific.thomson.com/mjl/)– Some free content: e.g., Zootaxa, J. Nat Hist., …– Free abstracts: all
• Don’t be shy to request reprints!
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Biodiversity Information:what we’re talking about
Biodiversity DATA:• What: Taxonomic / nomenclature data • Where: Distribution / Geographical info (Georeferenced)
• Additional information (ecology, natural history, sequences, …)
Focus on primary species and species-occurrence data
Hue University Rotifer Taxonomy workshop 6-12 March 2010
METADATA (data on the data):• Who, When, What (descriptive data –
references)?
Biodiversity Information what we’re talking about
Accuracy Precision (or resolution)
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Biodiversity Information why we’re talking about it
• Biodiversity data are scattered in space and time• Need for data for science, conservation,
management
• Policy:– OECD Committee for Scientific and Technological Policy
(CSTP), 22-23 June 1999: GBIF. – EU and G8 + 5 Env. Ministers Conf. on Climate,
Biodiversity, 15-17 March 2007 “Potsdam Initiative – Biological Diversity 2010”: encourages development of Global Species Information System (GSIS).
– EO Wilson’s TED price wish: EoL.– …
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Names and taxonomy:The Global Names Architecture
The taxonomic backbone
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Names…
world register of published animal names based on zoological record (Thompson
zoological)
An initiative of the ICZN
Hue University Rotifer Taxonomy workshop 6-12 March 2010
…and literature
universal Biological indexer and organizer
Taxonomic name server Namebank contains undisputed nomenclature metadata,
classificationbank stores alternative classifications Includes and links between scientific and vernacular names Initiative within science library community (Woods hole,
Massachusetts)
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Catalogue of Life
Goal: a catalogue of all known species of organisms (by 2011) Partnership of:
Species2000: federation of taxonomic database custodians, largely EUR and Asia-Oceania
Integrated Taxonomic Information Service (ITIS - US, Can, MX) CODATA’s (Committee on Data for Science and Technology,
ICSU) Global Species Data Networks (Sp2000) Brings together 47 databases, most GSDs; 1M+
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Global Species Databases
Biosystematic Database on World Diptera
1350 citations, 1460 collaborators
25 M hits/month
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Regional Species Databases
European Nature Information System (EUNIS)
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Topical Species Databases
Hue University Rotifer Taxonomy workshop 6-12 March 2010
The Freshwater Animal Diversity Assessment
• Global analysis of diversity of freshwater animals
• Global lists of species• Taxonomic scope• Tool for science, conservation, management• A (1) topical, (2) global species database
• Contributes to the Catalogue of Life
Hue University Rotifer Taxonomy workshop 6-12 March 2010
• An assessment of the biodiversity of the freshwater animals of the world
• Browse, search, download lists of freshwater species
• Upload locality GIS coordinates• Visualise on Google Map and Earth
The Freshwater Animal Diversity Assessment
Hue University Rotifer Taxonomy workshop 6-12 March 2010
The FADA portalhttp://fada.biodiversity.be
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Searching the FADA portal
Hue University Rotifer Taxonomy workshop 6-12 March 2010
FADA search results
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Visualisation of data
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Species and distributions:Global Species Infrastructure
System
Going beyond the list
Hue University Rotifer Taxonomy workshop 6-12 March 2010
GBIF
The Global Biodiversity Information Facility
Goal: free and open access to biodiversity information Participants: countries, economies, organizations Programs: DADI, DIGIT, ECAT, OCB Gives access to 160 M+ occurrence records, 7500+ data sets
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Hue University Rotifer Taxonomy workshop 6-12 March 2010
For the oceans
The Ocean Biogeographic Information System
Goal: make marine biogeographic data, from all over the world, freely available (incl. depth, vert. distribution,…)
Established by the Census of Marine Life (CoML) program, an alliance of people and organizations Participant in GBIF, specialized in ocean data
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Something on nuts and bolts…
• IUBS commission for taxonomic databases, the standardization body for biodiversity informatics
• Cooperates with CODATA’s Access to Biological Collections Data (ABCD) task group
• Standards! ABCD, ABCDEFG, TAPIR (TDWG Access Protocol for Information Retrieval), geographical, ….
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Society for the Management of Electronic Biodiversity Data
• Foster electronic publication of biodiversity data• Archiving of electronic biodiversity data• Networking between databases• Professional society; members: database
custodians of ERMS, Fauna Europaea, Euro+Med plantbase
Society for the Management of European Biodiversity Data
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Future developments(From the website of the European Commission > Research > International
Cooperation)
Environment ministers want a GSIS During their meeting from 15-17 March 2007, G8+5 Environment Ministers support the “Potsdam Initiative – Biological Diversity 2010”, which encourages the development of a 'Global Species Information System'.
Three major global 'backbones' of a GSIS
• The Catalogue of Life ( CoL) partnership (Species2000, ITIS)• The Global Biodiversity Information Facility (GBIF) • The Biodiversity Heritage Library (BHL)
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Future developments
« an electronic page for each species of organism on Earth available everywhere by single access on command »
EO Wilson’s « TED prize » wish Launched May 9, 2007; budget 50M$
(NSF, Sloan F, MacArthur F); Focus on bioinformatics infrastructure First pages 2008, 10yrs
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Future developments
A free directory of life
An open, free directory of species by the Wikimedia foundation Content: 108,797 articles
Wikispecies is free, because life is public domain!
Hue University Rotifer Taxonomy workshop 6-12 March 2010
Towards an impact factor and citation index for databases…