Advertisement

Natural History in Europeana - Accessing Scientific Collection Objects via LOD

  • Jörg HoletschekEmail author
  • Gisela Baumann
  • Gerda Koch
  • Walter G. Berendsohn
Conference paper
Part of the Communications in Computer and Information Science book series (CCIS, volume 672)

Abstract

Millions of specimens housed in collections of natural history institutions document our planet’s biodiversity over centuries and represent both an indispensable knowledge base for today’s biological research as well as a cultural heritage. Digitization efforts of the past years have produced a substantial amount of digital assets: high-resolution images, videos, sound files, 3D imagery and 3D models. The OpenUp! Natural History Aggregator draws together these virtual representations of specimens from a multitude of institutions and feeds them into Europeana, the cross-domain portal for Europe’s digitized cultural heritage. Enriching their metadata with data drawn from additional resources such as common names, taxonomic literature and geographic terms helps to increase discoverability und usability. The assignment of stable uniform resource locators and the application of standard vocabularies, existing ontologies and frameworks like RDF allow effective linking of web resources from different knowledge domains, thus creating linked open data.

Keywords

ABCD BioCASe XML GBIF DarwinCore IPT B-HIT Natural history collections Specimens Open data OpenUp! Europeana EDM Linked Open Data LOD Semantic web RDF Aggregator Primary biodiversity data 

Notes

Acknowledgements

Funding for the OpenUp! Natural History Aggregator was provided by the Information and Communication Technologies Policy Support Programme (ICT PSP, grant agreement 270890) and the Connecting Europe Facility, Telecommunications sector (CEF-TC, grant agreements CEF-TC-2014-2-01 and CEF-TC-2015-1-01) of the European Commission. The development of the BioCASe Provider Software and the BioCASe protocol has been funded under grant number EVR1-2001-00003.

References

  1. 1.
    Holetschek, J.: Approaches for involving volunteers into the process of metadata capture from specimens. Report for the SYNTHESYS II project, Network Activity 3, Deliverable 3.1 (2011). http://www.biocase.org/synthesys/del_3.1_part1.pdf
  2. 2.
    Berendsohn, W.G., Seltmann, P.: Using geographical and taxonomic metadata to set priorities in specimen digitization. Biodivers. Inform. 7, 120–129 (2010)Google Scholar
  3. 3.
    Berendsohn, W.G., Einsiedel, B., Merkel, U., Nowak-Krawietz, H., Röpert, D., Will, I.: Digital imaging at the Herbarium Berolinense. In: Häuser, C.L., Steiner, A., Holstein, J., Scoble, M.J. (eds.). Digital Imaging of Biological Type Specimens - A Manual of Current Best Practice. Stuttgart (2005)Google Scholar
  4. 4.
    Pignal, M., Michiels, H.: Switching to the fast track: rapid digitization of the world’s largest herbarium. Botany 2011, Columbus, Ohio (2011). http://digitarium.fi/sites/digitarium.fi/files/Mnhn-Herbarium-digitization.pdf
  5. 5.
    The EoS project (Erschließung objektreicher Spezialsammlungen). http://eos.naturkundemuseum-berlin.de/singleSpecimens
  6. 6.
    The virtual zooarchaeology of the arctic project (VZAP). http://vzap.iri.isu.edu
  7. 7.
    The sound animal archive at the museum für Naturkunde Berlin. http://www.tierstimmenarchiv.de
  8. 8.
    Holetschek, J., Dröge, G., Güntsch, A., Berendsohn, W.G.: The ABCD of primary biodiversity data access. Plant Biosyst. Int. J. Dealing Aspects Plant Biol. Off. J. Soc. Bot. Ital. 146(4), 771–779 (2012)Google Scholar
  9. 9.
    Wieczorek, J., Bloom, D., Guralnick, R., Blum, S., Döring, M., et al.: Darwin Core: an evolving community-developed biodiversity data standard. PLoS ONE 7(1), e29715 (2012). doi: 10.1371/journal.pone.0029715 CrossRefGoogle Scholar
  10. 10.
  11. 11.
  12. 12.
    Robertson, T., Döring, M., Guralnick, R., Bloom, D., Wieczorek, J., Braak, K., et al.: The GBIF integrated publishing toolkit: facilitating the efficient publishing of biodiversity data on the internet. PLoS ONE 9(8), e102623 (2014). doi: 10.1371/journal.pone.0102623 CrossRefGoogle Scholar
  13. 13.
    The GBIF data portal. http://www.gbif.org
  14. 14.
    Australia’s virtual herbarium. http://avh.chah.org.au
  15. 15.
    Geosciences access service (GeoCASe). http://geocase.eu
  16. 16.
    BiNHum – Biodiversitätsnetzwerk des Humboldt-Rings. http://wiki.binhum.net
  17. 17.
  18. 18.
    The Europeana data portal. http://www.europeana.eu
  19. 19.
    The rights statements initiative. http://rightsstatements.org
  20. 20.
    Creative commons universal public domain dedication. https://creativecommons.org/publicdomain/zero/1.0/
  21. 21.
    Berendsohn, W.G., Güntsch, A.: OpenUp! - creating a cross-domain pipeline for natural history data. ZooKeys 209, 47–54 (2012). doi: 10.3897/zookeys.209.3179. In: Blagoderov, V., Smith, V.S. (eds.) No specimen left behind: mass digitization of natural history collectionsCrossRefGoogle Scholar
  22. 22.
    Biodiversity heritage library. http://www.biodiversitylibrary.org
  23. 23.
    Europeana data portal. http://www.europeana.eu/portal
  24. 24.
    Kelbert, P., Droege, G., Barker, K., Braak, K., Cawsey, E.M., Coddington, J., et al.: B-HIT - a tool for harvesting and indexing biodiversity data. PLoS ONE 10(11), e0142240 (2015). doi: 10.1371/journal.pone.0142240 CrossRefGoogle Scholar
  25. 25.
    CKAN – the open source data portal software. http://ckan.org
  26. 26.
  27. 27.
    GeoNames geographical database. http://www.geonames.org
  28. 28.
    Open archives initiative protocol for metadata harvesting. https://www.openarchives.org/pmh/
  29. 29.
  30. 30.
  31. 31.
    Klímek, J., Škoda, P., Necaský, M.: Requirements on linked data consumption platform. In: WWW 2016 Workshop: Linked Data on the Web (LDOW2016)Google Scholar
  32. 32.
    Resource description framework. https://www.w3.org/RDF/
  33. 33.
  34. 34.
    OAI object reuse and exchange (ORE). http://www.openarchives.org/ore/terms/
  35. 35.
  36. 36.
    Creative commons. https://creativecommons.org/
  37. 37.
    Simple knowledge organization system. https://www.w3.org/TR/skos-reference/
  38. 38.
    Heath, T., Bizer, C.: Linked data: evolving the web into a global data space. Synth. Lect. Semant. Web Theor. Technol. 1(1), 1–136 (2011)CrossRefGoogle Scholar
  39. 39.
    Species 2000 & ITIS catalogue of life. http://www.sp2000.org/
  40. 40.
    PESI Pan-European species-directories infrastructure. http://www.eu-nomen.eu/pesi/
  41. 41.
    ISO 25964 – the international standard for thesauri and interoperability with other vocabularies. http://www.niso.org/schemas/iso25964/
  42. 42.
    Eionet GEMET thesaurus. http://www.eionet.europa.eu/gemet
  43. 43.
    DBpedia: structured content of wikipedia. http://www.dbpedia.org
  44. 44.
  45. 45.
    Obeidat, M., North, M., Richardson, R., Rattanak, V., North, S.: Business intelligence technology, applications, and trends. Int. Manage. Rev. 11(2), 47–56 (2015)Google Scholar
  46. 46.
  47. 47.
    Lightweight information describing objects. http://network.icom.museum/cidoc/working-groups/lido/what-is-lido/
  48. 48.
    Virtual international authority file. http://viaf.org

Copyright information

© Springer International Publishing AG 2016

Authors and Affiliations

  • Jörg Holetschek
    • 1
    Email author
  • Gisela Baumann
    • 1
  • Gerda Koch
    • 2
  • Walter G. Berendsohn
    • 1
  1. 1.Botanic Garden and Botanical Museum Berlin-DahlemBerlinGermany
  2. 2.AIT Angewandte Informationstechnik Forschungsgesellschaft mbHGrazAustria

Personalised recommendations