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Open Access to Legacy Taxonomic Literature The Biodiversity Heritage Library & Index Animalium Martin R. Kalfatovic Suzann...
Taxonomic Literature In any well-appointed Natural History Library there should be found every book and every edition of e...
Taxonomic Literature <ul><li>Nomina si pereunt, perit et cognitio rerum </li></ul><ul><li>If the names are lost the knowle...
Taxonomic Literature <ul><li>Nomina si nescis, perit et cognitio rerum </li></ul><ul><li>Who knoweth not the name, knoweth...
Taxonomic Literature <ul><li>Binomial Nomenclature </li></ul><ul><ul><li>Genus name and Species - Epithet or descriptor </...
Botany <ul><li>“ The nomenclature of a taxonomic group is based upon priority of publication .” –  Principle III of the St...
Animals <ul><li>“Priority of publication is a basic principle of zoological nomenclature …”  --  Preamble International Co...
Animals <ul><ul><li>Works produced before 1986. To be published, a work produced before 1986 must have been produced on pa...
Phylogenetic <ul><li>Publication, under this code, is defined as distribution of text (but not sound), with or without ima...
Phylogenetic <ul><li>Precedence, a clear order of preference, to determine the correct name of a taxon when synonyms or ho...
…Names… <ul><li>In articles concerning the detailed listing or taxonomy of a species, the date and place of publication as...
…Names… <ul><li>Full Citation Example:  </li></ul><ul><li>Sequoia sempervirens  (D. Don) Endl., Syn. Conif. 198 (1847) </l...
…Names… <ul><li>There must be a correction of terminology. If terminology is not corrected, then what is said cannot be fo...
…Names… <ul><li>Rectification of Names (Cheng Ming) </li></ul><ul><li>What is necessary is to rectify names … If names be ...
Taxonomic Literature The cited half-life of publications in taxonomy is longer than in any other scientific discipline * *...
Taxonomic Literature <ul><li>The Taxonomic Impediment </li></ul>“ The taxonomic impediment is a term that describes the ga...
Our Man Sherborn – the Squire <ul><li>Cataloger at heart </li></ul><ul><li>Slowly went through every relevant text looking...
Index Animalium
Index Animalium
Index Animalium <ul><li>Re-keying of data </li></ul><ul><li>Parsing data </li></ul><ul><li>Using tools to harvest out data...
Index Animalium
Index Animalium
Biodiversity Heritage Library
Biodiversity Heritage Library Yet another physical difficulty is the task of assembling the library and indexes which will...
Biodiversity Heritage Library Thylacine from Philip Lutley Sclater,  Guide to the Gardens of the Zoological Society of Lon...
Biodiversity Heritage Library Georges Louis Leclerc, comte de Buffon Histoire naturelle : générale et particulière (Oiseau...
Biodiversity Heritage Library Biologia Centrali-Americana Edited by Frederick Ducane Godman and Osbert Salvin London : Pub...
Biodiversity Heritage Library
Biodiversity Heritage Library Henry Walter Bates The Naturalist on the River Amazons , 1863 Vishwas Chavan travels a lot. ...
Biodiversity Heritage Library My deepest gratitude for allowing me access to the digital version of the very rare &quot;Bu...
Biodiversity Heritage Library February 2005: Library and Laboratory: the Marriage of Research, Data and Taxonomic Literatu...
Biodiversity Heritage Library <ul><li>Museums </li></ul><ul><ul><li>American Museum of Natural History (New York) </li></u...
Biodiversity Heritage Library <ul><li>Museums </li></ul><ul><ul><li>American Museum of Natural History (New York) </li></u...
Biodiversity Heritage Library <ul><li>Museums </li></ul><ul><ul><li>American Museum of Natural History (New York) </li></u...
Biodiversity Heritage Library <ul><li>Botanical Gardens </li></ul><ul><ul><li>Missouri Botanical Garden </li></ul></ul><ul...
Biodiversity Heritage Library <ul><li>Botanical Gardens </li></ul><ul><ul><li>Missouri Botanical Garden </li></ul></ul><ul...
Biodiversity Heritage Library <ul><li>Botanical Gardens </li></ul><ul><ul><li>Missouri Botanical Garden </li></ul></ul><ul...
Biodiversity Heritage Library <ul><li>University Libraries </li></ul><ul><ul><li>Botany Libraries, Harvard University </li...
Biodiversity Heritage Library <ul><li>University Libraries </li></ul><ul><ul><li>Botany Libraries, Harvard University </li...
Biodiversity Heritage Library <ul><li>Bioinformatics Member </li></ul><ul><ul><li>Marine Biological Laboratory / Woods Hol...
Biodiversity Heritage Library <ul><li>Affiliated Partner: Internet Archive </li></ul>
Biodiversity Heritage Library
Biodiversity Heritage Library
Biodiversity Heritage Library Reptilia and Batrachia . (1885-1902) by Albert C.L.G.  Günther   Mandates: Open Access: all ...
Biodiversity Heritage Library Reptilia and Batrachia . (1885-1902) by Albert C.L.G.  Günther   Mandates: Opt in Copyright ...
Biodiversity Heritage Library Jacob Christian Schäffer Elementa entomologica . . .  1766.  Metadata Repository Store all b...
BHL Metadata Repository
Biodiversity Heritage Library “ Guano diggers among the albatrosses. Laysan Island ” So, we have page pictures, we have so...
Biodiversity Heritage Library BHL Taxonomic Intelligence Tool - Developed by David Remsen and staff MBL/WHOI Library Georg...
Biodiversity Heritage Library
Biodiversity Heritage Library
Biodiversity Heritage Library
Biodiversity Heritage Library
Biodiversity Heritage Library
 
 
BHL Metadata Repository II Internet Archive BHL MR BHL Public Interface Taxonomic Web Services e.g. CBOL, GBIF, ITIS, GenB...
Biodiversity Heritage Library
Biodiversity Heritage Library
Biodiversity Heritage Library
Open Access to Legacy Taxonomic Literature The Biodiversity Heritage Library & Index Animalium Martin R. Kalfatovic Suzann...
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Open Access Bhl Ia

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  • Transcript of "Open Access Bhl Ia"

    1. 1. Open Access to Legacy Taxonomic Literature The Biodiversity Heritage Library & Index Animalium Martin R. Kalfatovic Suzanne C. Pilsk Smithsonian Institution Libraries
    2. 2. Taxonomic Literature 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. Taxonomic Literature <ul><li>Nomina si pereunt, perit et cognitio rerum </li></ul><ul><li>If the names are lost the knowledge also disappears </li></ul><ul><li>- J.C. Fabricius, 1778, Philosophia Entomologica VII,1 </li></ul>
    4. 4. Taxonomic Literature <ul><li>Nomina si nescis, perit et cognitio rerum </li></ul><ul><li>Who knoweth not the name, knoweth not the subject </li></ul><ul><li>-- Linnaeus, 1737, Critica Botanica n. 210 </li></ul>
    5. 5. Taxonomic Literature <ul><li>Binomial Nomenclature </li></ul><ul><ul><li>Genus name and Species - Epithet or descriptor </li></ul></ul><ul><ul><li>Latin or Latin-ized </li></ul></ul>Bill Gates' Flower Fly Eristalis gatesi Thompson
    6. 6. Botany <ul><li>“ The nomenclature of a taxonomic group is based upon priority of publication .” – Principle III of the St. Louis Code of International Code of Botanical Nomenclature </li></ul><ul><ul><li>Publication is effected, under this Code, only by distribution of printed matter (through sale, exchange, or gift) to the general public or at least to botanical institutions with libraries accessible to botanists generally . </li></ul></ul>
    7. 7. Animals <ul><li>“Priority of publication is a basic principle of zoological nomenclature …” -- Preamble International Code of Zoological Nomenclature </li></ul><ul><ul><li>Must be issued for the purpose of providing a public and permanent scientific record ; it must be obtainable, when first issued, free of charge or by purchase ; it must have been produced in an edition containing simultaneously obtainable copies by a method that assures numerous identical and durable copies </li></ul></ul>
    8. 8. Animals <ul><ul><li>Works produced before 1986. To be published, a work produced before 1986 must have been produced on paper, by a printing method then conventional (such as letterpress, offset printing) or by hectographing or mimeographing. </li></ul></ul>
    9. 9. Phylogenetic <ul><li>Publication, under this code, is defined as distribution of text (but not sound), with or without images, in a peer-reviewed book or periodical. </li></ul><ul><li>To qualify as published, works must consist of numerous (at least 50 copies), simultaneously obtainable, identical, durable, and unalterable copies, some of which are distributed to major institutional libraries in the field so that the work is generally accessible as a permanent public record to the scientific community, be it through sale or exchange or gift, and subject to the restrictions and qualifications in the present article. </li></ul>
    10. 10. Phylogenetic <ul><li>Precedence, a clear order of preference, to determine the correct name of a taxon when synonyms or homonyms exist. </li></ul><ul><li>Use the date of publication (chronological priority) as the primary criterion for establishing precedence. -- International Code of Phylogenetic Nomenclature </li></ul>
    11. 11. …Names… <ul><li>In articles concerning the detailed listing or taxonomy of a species, the date and place of publication associated with the authorship </li></ul><ul><ul><li>Coast Redwood first described by David Don as Taxodium sempervirens D. Don but then S. L. Endlicher said it was too different from Taxodium and made it just Sequoia </li></ul></ul>
    12. 12. …Names… <ul><li>Full Citation Example: </li></ul><ul><li>Sequoia sempervirens (D. Don) Endl., Syn. Conif. 198 (1847) </li></ul><ul><li>Referring to page 198 of Endlicher's Synopsis Coniferarum , published in 1847. </li></ul>
    13. 13. …Names… <ul><li>There must be a correction of terminology. If terminology is not corrected, then what is said cannot be followed. If what is said cannot be followed, then work cannot be accomplished. </li></ul><ul><li>The Analects of Confucius, Book 13, verse 3 (Muller translation, 1995) </li></ul>
    14. 14. …Names… <ul><li>Rectification of Names (Cheng Ming) </li></ul><ul><li>What is necessary is to rectify names … If names be not correct, language is not in accordance with the truth of things. If language be not in accordance with the truth of things, affairs cannot be carried on to success. </li></ul><ul><li>The Analects of Confucius, Book 13, verse 3 (Legge translation, 1980) </li></ul>
    15. 15. Taxonomic Literature The cited half-life of publications in taxonomy is longer than in any other scientific discipline * * * The decay rate is longer than in any scientific discipline - Macro-economic case for open access, Tom Moritz Levinus Vincent Elenchus tabularum, pinacothecarum, 1719
    16. 16. Taxonomic Literature <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
    17. 17. Our Man Sherborn – the Squire <ul><li>Cataloger at heart </li></ul><ul><li>Slowly went through every relevant text looking for names </li></ul><ul><li>Created an index that was useful as soon as he started </li></ul><ul><li>Index AND Bibliography of relevant texts from 1758 through 1850 </li></ul>
    18. 18. Index Animalium
    19. 19. Index Animalium
    20. 20. Index Animalium <ul><li>Re-keying of data </li></ul><ul><li>Parsing data </li></ul><ul><li>Using tools to harvest out data </li></ul><ul><li>Manually matching data </li></ul><ul><li>Wealth of information locked on the page is being liberated! </li></ul>
    21. 21. Index Animalium
    22. 22. Index Animalium
    23. 23. Biodiversity Heritage Library
    24. 24. 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)
    25. 25. 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:
    26. 26. 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 .
    27. 27. 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
    28. 28. Biodiversity Heritage Library
    29. 29. 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
    30. 30. Biodiversity Heritage Library My deepest gratitude for allowing me access to the digital version of the very rare &quot;Bulletin des Séances de la Société Entomologique de France&quot;. It has been very important for my work on the database of the names of the butterflies of the world to be able to consult at leisure this series, which is held by extremely few libraries in the world. I cannot stress enough the importance of having access to electronic versions of the literature, especially to us researchers who cannot benefit from well-endowed institutional libraries.
    31. 31. Biodiversity Heritage Library February 2005: Library and Laboratory: the Marriage of Research, Data and Taxonomic Literature met in London. May 2005: the libraries represented at the London meeting gathered in Washington to lay out the ground work for the Biodiversity Heritage Library. June 2006: the members of the Biodiversity Heritage Library met in Washington to work on technical details of the project. Ernest Ingersoll Hand-book to the National Museum … Smithsonian Institution , 1886
    32. 32. 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, D.C.) </li></ul></ul>
    33. 33. 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, D.C.) </li></ul></ul>
    34. 34. 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, D.C.) </li></ul></ul>
    35. 35. 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>
    36. 36. 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>
    37. 37. 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>
    38. 38. 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>
    39. 39. 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>
    40. 40. 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>
    41. 41. Biodiversity Heritage Library <ul><li>Affiliated Partner: Internet Archive </li></ul>
    42. 42. Biodiversity Heritage Library
    43. 43. Biodiversity Heritage Library
    44. 44. 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 ???
    45. 45. 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
    46. 46. 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
    47. 47. BHL Metadata Repository
    48. 48. Biodiversity Heritage Library “ Guano diggers among the albatrosses. Laysan Island ” So, we have page pictures, we have some metadata, but what good is it? I fear that with millions of books, our users will just be left like these guano diggers in Hawaii. Lionel Walter Rothschild The avifauna of Laysan and the neighboring islands , 1893-1900
    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. 57. 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
    56. 58. Biodiversity Heritage Library
    57. 59. Biodiversity Heritage Library
    58. 60. Biodiversity Heritage Library
    59. 61. Open Access to Legacy Taxonomic Literature The Biodiversity Heritage Library & Index Animalium Martin R. Kalfatovic Suzanne C. Pilsk Smithsonian Institution Libraries
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