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BARCODE DATA, MUSEUM CATALOGS AND GBIF Simon Tillier

BARCODE DATA, MUSEUM CATALOGS AND GBIF Simon Tillier. species concept. barcode voucher. Vouchering is a necessity for Barcode in the long term . virtual world. real world. species name. barcode sequence. organisms. Vouchering is a necessity for Barcode in the long term .

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BARCODE DATA, MUSEUM CATALOGS AND GBIF Simon Tillier

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  1. BARCODE DATA, MUSEUM CATALOGS AND GBIF Simon Tillier CBoL Taipei, 17-22 september 2007

  2. species concept barcode voucher Vouchering is a necessity for Barcode in the long term virtual world real world species name barcode sequence organisms CBoL Taipei, 17-22 september 2007

  3. Vouchering is a necessity for Barcode in the long term virtual world real world species concept 1 species name barcode sequence species concept 2 WITHOUT VOUCHERS, BARCODE IDENTIFICATION WILL BECOME SECOND LIFE TAXONOMY INSTEAD OF BIODIVERSITY TAXONOMY CBoL Taipei, 17-22 september 2007

  4. From catalogues to collections databases • traditional catalogues • other precise information on the label stored with the specimen (successive identifications, precise location etc) • databasing • transfer of all this information (label + catalogue) on virtual support CBoL Taipei, 17-22 september 2007

  5. Present and further implementation of the GBIF concept • once the support of the info is virtual, the info can circulate and there is no need to have it in the same physical location • GBIF starting concept • we can make the collection databases interoperable • Extension / further implementation of the GBIF concept • we can have the various pieces of species and specimen information in many homogenous databases (ontological categories) in many places in the world: • names in one database system (CoL) • sequences in one database system (Genbank/BOLD) • localities • ID numbers of specimens giving access to physical location and real specimens and linking with other databases • (however experience suggests wise to print the information on a label with permanent ink!). • needed : a common model which will allow linking databases whichever way they are split in whatever locations (the ABCD model already has a section for sequences) • TDWG, Genbank, BOLD, Zoobank (and EoL?) should urgently agree on a common model under the overarching GBIF framework CBoL Taipei, 17-22 september 2007

  6. Barcode curation challenge • management of fragmented specimens = makeshift job in museums (eg organism + slides) • tissue and DNA collections create fragmented units • whole organism • tissue of the same • DNA from the same (IMAGENE) • problem = workflow, info management, change in curatorial culture • first step = creation of curation standards (eg SYNTHESYS ) and implementation of standards (EDIT) CBoL Taipei, 17-22 september 2007

  7. Looking forward: Barcode as a collection management tool • “classical” collection processing • 1. collection event • 2. sorting, naming and labelling • 3. databasing info accumulated so far • 4. barcoding • Barcoding = additional secondary information • EDIT (Moorea?) processing • 1. databasing collection event • 2. progressive expansion of the database following the same steps as above • Barcoding = additional secondary information • Future process • 1. databasing collecting events • 2. sorting + barcoding = provides name and creates a link between the virtual catalogue and an unique material property of the specimen • Barcode sequence = an intrinsic label of the specimen linking to other DBs for collection management CBoL Taipei, 17-22 september 2007

  8. Acknowledgements Nicolas Bailly Walter Berendsohn Markus Doring Sarah Samadi ... and collection curators who have tried to manage since four centuries CBoL Taipei, 17-22 september 2007

  9. GBIF Scope BIS: Biodiversity Information System DIGIT: Digitization of Natural History Collections Collection and Observation databases ECAT:Electronic Catalogue of Names of Known Organisms [+ Management Classification] Catalog of Life (Species 2000, ITIS, WoRMS) GSDs and RSDs: Global and Regional Sp. DBs ZooBank, uBio, … Other names BoL: Barcode of Life BoLD: Barcode of Life Data systems References Species Banks: GSIS: Global Species Information System EoL: Encyclopedia of Life SpeciesBase GSDs, RSDs, TSDs, … CBoL Taipei, 17-22 september 2007 DADI: Data Access and Database Interoperability: GBIF/TDWG schemas and protocols

  10. Bold/Genebank Taxon name Sequencing facility Collection Extraction facility Taxonomist Voucher USERS Institution Institutions Institutions Institutions Institutions CBoL Taipei, 17-22 september 2007

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