Scratchpads in the Biodiversity Informatics Landscape

Scratchpads in the Biodiversity Informatics Landscape

D. Roberts, K. Harman, S. Rycroft & V. Smith

Nomenclators

Index FungorumZooBankIPNI(Kew/AUS/Harvard)INGAFD/APC/APUINZORCoL (Sp2000& ITIS)ZooRecord

PESI: ERMS Fauna Europea Euro+Med PlantbaseORBISWORMSFlora Europea

GNOMA(NomenclatprArchitecture)

Checklists

CDM

GNA (NameBank)

uBio

PLAZIInotaxaBHLeFloras

IPNIGoogle ScholarConnoteaViTaLISI

Scan / Mark/up

Bibliographic

Phylogenetic Molecular Databases

Biodiversity

Name Functions

Molecular Functions

Literature Functions Morphological Functions

GBIF

LifeWatch

Specimen Access

Distribution Functions

TDWG

Descriptive / classification

Identification Inter-Institutional Institutional

Tree of LifeTreeBaseCIPRES

NCBI/EMBL/DDBJCBoLBarcode of Life Initiative

ALACONABIOCRIA (Brazil)IUCNSEEKOPALDAISIEiNaturalist

Note:there are 600 biodiversity projects listed by TDWG

including most of the projects listed here.

EoLScratchpadsCATEMorphoBankWikipedia

Key2NatureIdentifyLife

SynthesisBCIBioCASEGeoCASEMaNIS

EMu (=MOA)Recorder

Indicated a link yet to be realised A many-to-many relationship

EDITEuropean

Distributed Institute of Taxonomy

1. Collaborative working

2. Publication & Accessibility

3. Adaptability to the internet age

Business as usual is not an option.

Directions & Challenges

Scratchpads: RationaleHosted web sites, with tools for taxonomists

Unbranded, to encourage community identity

Intended to encourage community building

Tools to facilitate structuring of data

Your data 1

Published & reviewed on your site

3 Uploaded &

tagged

2

What is a Scratchpad? A website for you & your community

Your data

Specimens

Images Literature

DNA & Phylogenies

Descriptions

Taxonomy backbone

•  Classification import from uBio Classification Bank

•  Import from tab delimited files in three different formats

•  Makes use of a core feature of Drupal

Auto tagging

•  Quick and easy •  Data available immediately after upload •  Works with any extra data that may be

added to a taxonomy (vernacular names, synonymy)

Small pieces loosely joined

Has many potential meanings: •  Joining contributors together to form

communities

Small pieces loosely joined

Has many potential meanings: •  Joining contributors together to form

communities •  Joining the data together that go towards

forming a Scratchpad

Small pieces loosely joined

Has many potential meanings: •  Joining contributors together to form

communities •  Joining the data together that go towards

forming a Scratchpad •  Joining Scratchpad content with the

landscape of biodiversity informatics data on the web

TapirLink provides specimens to GBIF

based on Darwincore

Common Drupal base means LifeDesk

modules will work with Scratchpads

Working with colleagues in Berlin, we’ll also be providing data to the

EDIT CDM

Current ScratchpadsAntsBeesBeetlesBig-headed fliesBirdsBlackfliesCiliatesCockroachesDragon TreesDung BeetlesFalse ButtonweedFlat wormsFliesForaminiferaFossil InsectsFungus GnatsHolometabolaLeaf-miner FliesLiceLichens of BermudaMalvaceaeMegalastrum fernsMilichiid fliesMosquitoesMossesNannotax fossilsNepticuloid mothsPalmsPearl oystersPolychaete wormsScaleworms

TermitesTriticid grassesWeevilsWood Ferns

Sulawesi FernsStick insects

Sites: 70+

Users: 850+

Pages: 130k

Since March 2007

Questions?