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Towards the Global Genome Biodiversity Network (GGBN)Infrastructure for genomic tissue and DNA sample data
Gabriele Droege, Katharine Barker, Paul Flemons, Paul Bartels
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Introduction
� 10/2011 Virtual Global Biorepository Workshop Convened by GGI (Global Genome Initiative)
� Agreement to form network of:
� Biorepositories
� Research organizations
� Biodiversity information management organizations
� Collaborate towards:
� Collections stewardship
� Information access
� Ethical collections access
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� A global network of well-managed collections of genome–quality tissue samples from across the Tree of Life
� Benefiting society through
� Biodiversity research
� Development
� Conservation
Vision
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� To foster collaborations among molecular biodiversity repositories
� To ensure quality standards
� To improve best practices
� To secure interoperability
� To harmonize exchange of material in accordance with national and international legislation and conventions
Mission
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� Provide open access to sample data (data portal)
� Develop standards for sharing DNA and tissues information
� Provide genome-quality samples from across the Tree of Life
Goals
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� Develop best practices related to management and stewardship of genomic samples and their derivatives, including appropriate access and benefit sharing (ABS)
� Promote targeted preservation of genomic samples representing a synoptic sample of Life on Earth
� Recruit partners with different regional and taxonomic focus, to preserve the global genetic diversity in a concerted effort
Goals
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Organization Model
International Steering Committee
Data Standards and Access Task Force
Policies and Practices Task Force
Marketing and Outreach Task Force
Directs work
Monitors outcomes
Develop work plans
Perform work
Report outcomes
Global Genome Biodiversity Network (GGBN)
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� Prospectus
� Terms of Reference
� Vision, mission
� Goals, Program of work, and Work plans
� Website (ggbn.org)
� Brochure
� Memorandum of Understanding
(end of 2012)
� Workshop Copenhagen (07/12)
� Workshop Beijing (10/12)
Outcomes
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� Identify collection gaps across Tree of Life
� Members adapt
� Standards for sharing DNA/tissues information
� Policies and best practice guidelines
� Data portal
� Online archive for documents, best practice guidelines, references concerning biobanking in general
� Access to aggregated information on genomic samples, metadata, DNA, images, publications, related voucher information etc.
Future outcomes
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� Core members� Contributing data to GGBN data portal
� Associate members� Have made an internal commitment to long-term conservation of genome-quality DNA/tissue collections and associated data, for the purpose of providing access for research� Recognize and comply with CBD and ABS� Have an enterprise-level data system that can provide data on a reliable basis�…
� Observer Institutions and Individual Members� Open to all having an interest in genome biorepositories and biodiversity informatics� Participate in GGBN activities and Task Forces� …
� All Members sign the Memorandum of Understanding
Memberships
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GGBN Collaborators
(> 20 Biorepositories)
CABC
Biobanking in SA
Global Genome Biodiversity Network
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GGBN collaborators(Biodiversity Information Management Organizations)
Global Genome Biodiversity Network
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Global Genome Biodiversity Network
The Data Architecture
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Source material / specimens Molecular analysis data
Data Architecture
GGBN Data Portal
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Source material / specimens Molecular analysis data
Data Architecture
DNA Bank Network Webportal
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Botanic Garden and Botanical Museum Berlin-Dahlem
Plants, algae and protists
Coordination
Zool. Forschungsmuseum Alexander Koenig, Bonn
Invertebrates and vertebrates
Bavarian State Collection of Zoology, Munich
Invertebrates and fungi
German Collection of Microorganisms and Cell Cultures, Braunschweig
Microorganisms
DNA Bank Network
The New York Botanical Garden
Plants
Austrian Institute of Technology
Plants, microorganisms
• Initiated by GBIF-D
• 2007-2011 Funded by:
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Existing components
Source material / specimens
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Existing components
Molecular analysis data
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Existing components
DNA
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Provider xy
DNA database
DNA
Different voucher data sources
DiGIR/BioCASe
DarwinCore/ABCD
Specimen
databases
Data Architecture
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Provider xy
BioCASe
ABCDDNA
DNA database
DNA
Different voucher data sources
DiGIR/BioCASe
DarwinCore/ABCD
Specimen
databases
Data Architecture
Web index/
Web portal
www.dnabank-network.org
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www.dnabank-network.org
- Dynamically generated during web query aggregating data from multiple sources
- Oct 2012: 60.000 DNA and tissue samples available
- Customers have to sign MTA
- Partners work independent
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Global Genome Biodiversity Network
The Future
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Future Data Architecture
� At least 4 data levels, related to each other
� Voucher specimen
� Tissue
� DNA
� Sequence
� BioCASe and IPT both possible to use
� DiGIR possible for non GGBN member collections with voucher data
� GBIF’s GBRDS (Global Biodiversity Resources Discovery System) as GGBN metadata registry
� Connect to Index Herbariorum/biorepositories.org/Biodiversity Collection Index (add DNA and tissue banks as new collection types)
� Cross References to GenBank, BOLD, EOL, CoL, GBIF…
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Next Steps
� DFG proposal BGBM/SI (11/2012)
� Provide SI DNA and tissue data to data portal using IPT (~50.000 records)
� SYNTHESYS III project starts (09/2013)
� Develop Policies & Practices (molecular related NHCs)
� Extend DNA Bank Network (data providers)
� Include RNA collections into data platform
� GBIF metadata registry ready for testing (~10/2013)
� AM and Biobank South-Africa providing data to the data portal as test cases (12/2013) (~60.000 records)
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contact@dnabank-network.org
ggbn@si.edu
Thanks to:
All GGBN partners
Birgit Gemeinholzer
Thank you for your attention!
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