Towards the Global Genome Biodiversity Network (GGBN)€¦ · Towards the GGBN, TDWG 2012, Beijing Dröge et al. 2 Introduction 10/2011 Virtual Global BiorepositoryWorkshop Convened

Towards the Global Genome Biodiversity Network (GGBN)Infrastructure for genomic tissue and DNA sample data

Gabriele Droege, Katharine Barker, Paul Flemons, Paul Bartels

Dröge et al. 2Towards the GGBN, TDWG 2012, Beijing

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


� 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


� 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


� 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


� 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


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)


� 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


� 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


� 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


GGBN Collaborators

(> 20 Biorepositories)

CABC

Biobanking in SA

Global Genome Biodiversity Network


GGBN collaborators(Biodiversity Information Management Organizations)




The Data Architecture


Source material / specimens Molecular analysis data

Data Architecture

GGBN Data Portal


Source material / specimens Molecular analysis data

Data Architecture

DNA Bank Network Webportal


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:


Existing components

Source material / specimens


Existing components

Molecular analysis data


Existing components

DNA


Provider xy

DNA database

DNA

Different voucher data sources

DiGIR/BioCASe

DarwinCore/ABCD

Specimen

databases

Data Architecture


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


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



The Future


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…


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)


[email protected]

[email protected]

Thanks to:

All GGBN partners

Birgit Gemeinholzer

Thank you for your attention!

© www.endangered-animals.net

Documents

Towards the Global Genome Biodiversity Network (GGBN)€¦ · Towards the GGBN, TDWG 2012, Beijing Dröge et al. 2 Introduction 10/2011 Virtual Global BiorepositoryWorkshop Convened