Open Access to Legacy Biodiversity Literature

1,234
-1

Published on

presented to NVC NSDL

Published in: Technology, Education
0 Comments
1 Like
Statistics
Notes
  • Be the first to comment

No Downloads
Views
Total Views
1,234
On Slideshare
0
From Embeds
0
Number of Embeds
0
Actions
Shares
0
Downloads
21
Comments
0
Likes
1
Embeds 0
No embeds

No notes for slide

Open Access to Legacy Biodiversity Literature

  1. 1. Open Access to Legacy Taxonomic Literature The Biodiversity Heritage Library Martin R. Kalfatovic with edits by Tom Garnett Smithsonian Institution Libraries
  2. 2. Biodiversity Heritage Library In any well-appointed Natural History Library there should be found every book and every edition of every book dealing in the remotest way with the subjects concerned. One never knows wherein one edition differs from or supplements the other and unless these are on the same table at the same time it is not possible to collate them properly. Moreover for accurate work it is necessary for the student to verify every reference he may find; it is not enough to copy from a previous author; he must verify each reference itself from the original . Charles Davies Sherborn, Epilogue to Index Animalium , March 1922 Charles Davies Sherborn (1861-1942)
  3. 3. Biodiversity Heritage Library Yet another physical difficulty is the task of assembling the library and indexes which will enable the student to work under proper conditions…. the beginner must now be prepared to spend liberally, or else must establish himself in an institution where a large library exists ; if he work by himself with only a few books, he will have to confine himself to a very narrow specialty indeed. 'The Limitations of Taxonomy' by J.M. Aldrich, Science , April 22, 1927, vol. LXV, no. 1686, p.381 Insecta. Diptera . Volume I (1886-1901)
  4. 4. Biodiversity Heritage Library <ul><li>The cited half-life of publications in taxonomy is longer than in any other scientific discipline </li></ul><ul><li>Macro-economic case for open access, Tom Moritz </li></ul><ul><li>Current taxonomic literature often relies on texts and specimens > 100 years old. </li></ul>Levinus Vincent Elenchus tabularum, pinacothecarum, 1719
  5. 5. Biodiversity Heritage Library <ul><li>The Taxonomic Impediment </li></ul>“ The taxonomic impediment is a term that describes the gaps of knowledge in our taxonomic system” - Darwin Declaration, 1998 Georges Louis Leclerc, comte de Buffon Histoire naturelle : générale et particulière (Oiseaux) , 1799-1808
  6. 6. Biodiversity Heritage Library Thylacine from Philip Lutley Sclater, Guide to the Gardens of the Zoological Society of London, 1891 <ul><li>that there is access to information held in national/regional/global collections </li></ul><ul><li>that electronic data is efficiently captured and provided in useable form </li></ul><ul><li>that existing information held in literature and by current experts is made available electronically </li></ul><ul><li>that stability of scientific names of organisms, used to access this information, is promoted </li></ul><ul><li>- Darwin Declaration, 1998 </li></ul>The essential requirements for accessing and utilising this global information are:
  7. 7. Biodiversity Heritage Library Georges Louis Leclerc, comte de Buffon Histoire naturelle : générale et particulière (Oiseaux) , 1799-1808 Convention on Biological Diversity: Article 17 … exchange of information shall include exchange of results of technical, scientific and socio-economic research … It shall also, where feasible, include repatriation of information .
  8. 8. Biodiversity Heritage Library Biologia Centrali-Americana Edited by Frederick Ducane Godman and Osbert Salvin London : Pub. for the editors by R. H. Porter, 1879-1915 Chart showing distribution in public collections of the complete 63 volume sets held worldwide. 2 complete copies in Central America held at the Smithsonian Tropical Research Institute Library
  9. 9. Biodiversity Heritage Library
  10. 10. Biodiversity Heritage Library Henry Walter Bates The Naturalist on the River Amazons , 1863 Vishwas Chavan travels a lot. An informatician based at the National Chemical Laboratory in Pune, India, he collects data on what types of animal live where in India to enter into a biodiversity database … Much of the information Chavan seeks is in old, out-of-print tomes … To find them, Chavan has spent years trailing around libraries. He dreams of the day when books such as these are scanned and made available as digital files on the Internet. “ Science in the Web Age: The Real Death of Print” by Andreas von Bubnoff Nature 438, 550-552 1 December 2005
  11. 11. Biodiversity Heritage Library Progne subis- Purple Martin Illustrations of the nest and eggs of birds of Ohio , 1879-1886 Library and Laboratory: the Marriage of Research, Data and Taxonomic Literature London, February 2005 Eighty participants from 22 countries gathered to discuss the status and future of access to the taxonomic literature and to propose an agenda for actions that would improve the research environment for taxonomy. The participants were taxonomists; librarians; publishers; representatives of learned and professional societies, private foundations and government agencies; and specialists in information and communications technology.
  12. 12. Biodiversity Heritage Library Ernest Ingersoll Hand-book to the National Museum … Smithsonian Institution , 1886 May 2005, the libraries represented at the London meeting gathered in Washington to lay out the ground work for the Biodiversity Heritage Library. Representatives of a number of major natural history and botanical libraries met at the Smithsonian National Museum of Natural History in Washington, D.C., with the support of the Smithsonian Institution, to develop a strategy and operational plan to digitize the published literature of biodiversity held in their respective collections and to make that literature available for open access and responsible use as a part of a global “biodiversity commons.”
  13. 13. Biodiversity Heritage Library <ul><li>Museums </li></ul><ul><ul><li>American Museum of Natural History (New York) </li></ul></ul><ul><ul><li>Natural History Museum (London) </li></ul></ul><ul><ul><li>Smithsonian Institution (Washington) </li></ul></ul>
  14. 14. Biodiversity Heritage Library <ul><li>Museums </li></ul><ul><ul><li>American Museum of Natural History (New York) </li></ul></ul><ul><ul><li>Natural History Museum (London) </li></ul></ul><ul><ul><li>Smithsonian Institution (Washington) </li></ul></ul>
  15. 15. Biodiversity Heritage Library <ul><li>Museums </li></ul><ul><ul><li>American Museum of Natural History (New York) </li></ul></ul><ul><ul><li>Natural History Museum (London) </li></ul></ul><ul><ul><li>Smithsonian Institution (Washington) </li></ul></ul>
  16. 16. Biodiversity Heritage Library <ul><li>Botanical Gardens </li></ul><ul><ul><li>Missouri Botanical Garden </li></ul></ul><ul><ul><li>New York Botanical Garden </li></ul></ul><ul><ul><li>Royal Botanic Garden, Kew </li></ul></ul>
  17. 17. Biodiversity Heritage Library <ul><li>Botanical Gardens </li></ul><ul><ul><li>Missouri Botanical Garden </li></ul></ul><ul><ul><li>New York Botanical Garden </li></ul></ul><ul><ul><li>Royal Botanic Garden, Kew </li></ul></ul>
  18. 18. Biodiversity Heritage Library <ul><li>Botanical Gardens </li></ul><ul><ul><li>Missouri Botanical Garden </li></ul></ul><ul><ul><li>New York Botanical Garden </li></ul></ul><ul><ul><li>Royal Botanic Garden, Kew </li></ul></ul>
  19. 19. Biodiversity Heritage Library <ul><li>University Libraries </li></ul><ul><ul><li>Botany Libraries, Harvard University </li></ul></ul><ul><ul><li>Ernst Meyer Library of the Museum of Comparative Zoology, Harvard University </li></ul></ul>
  20. 20. Biodiversity Heritage Library <ul><li>University Libraries </li></ul><ul><ul><li>Botany Libraries, Harvard University </li></ul></ul><ul><ul><li>Ernst Meyer Library of the Museum of Comparative Zoology, Harvard University </li></ul></ul>
  21. 21. Biodiversity Heritage Library <ul><li>Bioinformatics Member </li></ul><ul><ul><li>Marine Biological Laboratory / Woods Hole Oceanographic Institution Library (MBL/WHOI) </li></ul></ul>
  22. 22. Biodiversity Heritage Library <ul><li>Bioinformatics Member </li></ul><ul><ul><li>Marine Biological Laboratory / Woods Hole Oceanographic Institution Library (MBL/WHOI) </li></ul></ul><ul><ul><li>uBio project of MBL/WHOI </li></ul></ul>
  23. 23. Biodiversity Heritage Library <ul><li>Collaborators: Internet Archive </li></ul>
  24. 24. Biodiversity Heritage Library <ul><li>Collaborators: Online Computer Library Center (OCLC) </li></ul>
  25. 25. Biodiversity Heritage Library <ul><li>Collaborators: Research Library Group (RLG) </li></ul>
  26. 26. Biodiversity Heritage Library <ul><li>Collaborators: Open Content Alliance </li></ul>
  27. 27. Biodiversity Heritage Library
  28. 28. Biodiversity Heritage Library
  29. 29. Biodiversity Heritage Library Reptilia and Batrachia . (1885-1902) by Albert C.L.G.  Günther Mandates: Open Access: all content can be reused, repurposed, reformatted, sliced, diced, scraped, and ???
  30. 30. Biodiversity Heritage Library Reptilia and Batrachia . (1885-1902) by Albert C.L.G.  Günther Mandates: Opt in Copyright Model: The BHL will actively work with professional societies and associations to integrate their publications into the BHL in a way that serves the societies’ missions and goals
  31. 31. Biodiversity Heritage Library Jacob Christian Schäffer Elementa entomologica . . . 1766. Metadata Repository Store all bibliographic metadata for the member libraries; create volume, part, piece metadata; ingest page level metadata at scanning level for the creation of page level Globally Unique Identifiers (GUIDs) for linking to other taxonomic services
  32. 32. BHL Metadata Repository Member Catalog A Member Catalog B Item Records Bib. Records Item Records Item Records Bib. Records Item Records Item Records Item Records BHL MR Bib Records
  33. 33. BHL Metadata Repository
  34. 34. BHL Metadata Repository Member Catalog A Member Catalog B Item Records Bib. Records Item Records Item Records Bib. Records Item Records Item Records Item Records BHL MR Bib Records BHL MR Item Records BHL MR Repository
  35. 35. BHL Metadata Repository Internet Archive Z39.50 Fetch: Internet Archive from BHL (Current Practice) Could be some other way to depending on metadata scheme (e.g. OAI-PHM?) BHL MR Bib Records BHL MR Item Records
  36. 36. BHL Metadata Repository First Ingest Internet Archive 390888347 45632 390888346 45632 390888345 45632 390888344 45632 390888343 45632 Sub-element Barcode Bib #
  37. 37. BHL Metadata Repository Sub-Element Map Internet Archive 5 390888343 45632 4 390888343 45632 3 390888343 45632 2 390888343 45632 1 390888343 45632 Sub-element Barcode Bib #
  38. 38. BHL Metadata Repository Page Structure Map Internet Archive If possible, auto create explicit automated page numbering at this point 1 390888343 45632 Sub-element Barcode Bib # 0005 0004 0003 0002 0001 Image Number
  39. 39. BHL Metadata Repository II Internet Archive Z39.50 Fetch: BHL from Internet Archive or some other way to upload matching description with the scanned images. BHL MR Bib Records BHL MR Item Records Sub-element & page /image structure map
  40. 40. BHL Metadata Repository II Bib/Sub-element/Page Structure Map BHL MR BHL MR 1 390888343 45632 Sub-element Barcode Bib # 0005 0004 0003 0002 0001 Image Number
  41. 41. BHL Metadata Repository II Internet Archive BHL MR BHL Public Interface BHL MR BHL MR
  42. 42. BHL Metadata Repository II Internet Archive BHL MR BHL Public Interface Taxonomic Web Services e.g. CBOL, GBIF, ITIS, GenBank, INOTAXA documents, etc. BHL MR BHL MR
  43. 43. Biodiversity Heritage Library “ Guano diggers among the albatrosses. Laysan Island ” At this stage, we would have page pictures, “dirty OCR”, some metadata, but what good is it? Will researchers be left like these guano diggers in Hawaii? Lionel Walter Rothschild The avifauna of Laysan and the neighboring islands , 1893-1900
  44. 44. Biodiversity Heritage Library Agatea violaris Type specimen from the U.S. National Herbarium (Smithsonian Institution) collected by the United States Exploring Expedition, 1838-1842
  45. 45. Biodiversity Heritage Library
  46. 46. Biodiversity Heritage Library
  47. 47. Biodiversity Heritage Library <ul><li>Specimen </li></ul><ul><li>Plate or other visual image </li></ul><ul><li>Taxonomic description </li></ul>
  48. 48. Biodiversity Heritage Library Eleazar Albin A natural history of English song-birds…, 1 741 Massachusetts. Zoological and Botanical Survey Reports on the fishes, reptiles and birds of Mass. , 1839
  49. 49. Biodiversity Heritage Library BHL Taxonomic Intelligence Tool - Developed by David Remsen and staff MBL/WHOI Library Georges Louis Leclerc, comte de Buffon Histoire naturelle : générale et particulière (Oiseaux) , 1799-1808
  50. 50. Biodiversity Heritage Library
  51. 51. Biodiversity Heritage Library
  52. 52. Biodiversity Heritage Library
  53. 53. Biodiversity Heritage Library
  54. 54. Biodiversity Heritage Library
  55. 55. Biodiversity Heritage Library
  56. 56. Biodiversity Heritage Library
  57. 57. Biodiversity Heritage Library <ul><li>Co-evolving bioinformatics resources produce a rich information ecology : </li></ul><ul><li>Consortium for the Barcoding of Life (CBOL) with gene sequences deposited in GenBank. </li></ul><ul><li>GBIF’s Electronic Catalog of Taxonomic Names </li></ul><ul><li>Hebaria and museum specimen databases </li></ul><ul><li>Electronic Gazetteers and GPS. </li></ul><ul><li>Additional services – you’re invited to help </li></ul>
  58. 58. Biodiversity Heritage Library
  59. 59. Biodiversity Heritage Library
  60. 60. Biodiversity Heritage Library
  61. 61. Open Access to Legacy Taxonomic Literature The Biodiversity Heritage Library Martin R. Kalfatovic with edits by Tom Garnett Smithsonian Institution Libraries
  1. A particular slide catching your eye?

    Clipping is a handy way to collect important slides you want to go back to later.

×
http://www.slideshare.net/tgarnett/open-access-to-legacy-biodiversity-literature
www.slideshare.net
crawl=CC-MAIN-2016-07
186186
application/http; msgtype=response
sha1:ZEFU34FAP7SMXLC5FR5EKZ4LRECOS7ZC
<urn:uuid:28d07ab0-a94b-4640-bd77-f46d9e8a342c>
2016-02-11T07:27:22Z
108.174.10.19
sha1:AZZQVYIUPKYNRJ3OMIEK2JAT2EGWGNP5
<urn:uuid:923550f8-c0e5-48e8-8478-971302b6e45a>
http://www.slideshare.net/tgarnett/open-access-to-legacy-biodiversity-literature
length
response
<urn:uuid:13787f5b-efe5-46fb-8242-41d02975a519>
robots: classic
hostname: ip-10-236-182-209.ec2.internal
software: Nutch 1.6 (CC)/CC WarcExport 1.0
isPartOf: CC-MAIN-2016-07
operator: CommonCrawl Admin
description: Wide crawl of the web for February 2016
publisher: CommonCrawl
format: WARC File Format 1.0
conformsTo: http://bibnum.bnf.fr/WARC/WARC_ISO_28500_version1_latestdraft.pdf