resolving the publishing bottleneck and increasing data interoperability in biodiversity science...
TRANSCRIPT
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Resolving the publishing bottleneck and increasing
data interoperability in biodiversity science
Lyubomir Penev, Teodor Georgiev, Pavel Stoev, David Roberts, Vincent Smith
ViBRANTSEH 2013 - 17th European Congress of Herpetology,
22-27 August 2013, Veszprém, Hungary
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Comparable to the “taxonomic impediment”, but is caused by:
“Publishing Bottleneck in Biodiversity”
WHAT IS THAT?
1. increasing amount of data due to the intensification of scientific exploration;
2. publishing in non-machine-readable formats, e.g. paper/PDF;
3. low uptake and inconsistent policies for data publishing;
4. pressure of administrators to publish in “high-impact” journals;
5. increasing difficulties with peer-review.
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Source: Wikipedia
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Estimated ca 1.8 Mio articles per annum, not counting the grey
literature!
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… and some hundreds millions pages of biodiversity literature in various languages
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Low uptake of data opening and sharing
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open data increases transparency and the overall quality of science
published data can be verified by other researchers
it can be integrated with other datasets it increases the potential for interdisciplinary
research duplication of data-collecting efforts and
associated costs will be reduced published data can be indexed and made
discoverable
Incentives to publish data…
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Primary data
Drawings: slavenapeneva.com
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Primary data
Publishing and sharing of primary data
RE-USEof
CONTENT
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Integration of data published in the BDJ
Descriptions
Images
Occurrences
Nomenclature
Literature
Plazi
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BDJ is different from ALL other journals
Collaborative online article authoring, peer-review and editing
Community peer review; options for “open” and “public” review
Standard-compliant (Darwin Core) ICNafp and ICZN compliant article
templates No lower/upper limit of manuscript
size Semantically enhanced “articles
of the future” Integrated with GBIF, EOL, Dryad
Scratchpads, etc.ALL DATA MATTERS!
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What will BDJ publish?
Single taxon treatments and nomenclatural
acts
Local or regional checklists
Sampling reports and occasional inventories
Habitat-based checklists and inventories
Ecological and biological observations
Single identification keys
Biodiversity-related databases, including
genomic, ecological and environmental data (data
papers)
Biodiversity-related software tools
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Choose article template
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Taxon treatment: new species
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Taxon treatment: import material data
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Taxon treatment: upload of images
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Structure of the checklist filed
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External links
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External links
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Automated pre-publication registration of new
taxa/namesMANUSCRIPT SUBMISSION
MANUSCRIPT ACCEPTED
XML Response
ARTICLEPUBLISHED
Taxon name available/valid (effectively published)
XML article metadata
XML Query
Peer review
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Facility for editors
Merging referees and editor’s version into one
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NO Author guidelines!The tool guides you!
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Thank you for your attention!
ViBRANT
Lyubomir
Penev
Vince Smith
Dave Roberts
Teodor GeorgievWe Open
Access!
Laurence Livermore
Jeremy Miller