EURISCO needs and priorities, at CGIAR ICT-KM Workshop, IPGRI, Rome (2005)

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Information about EURISCO needs and priorities, at CGIAR ICT-KM Workshop, IPGRI, Rome (2005)
Technology

Published on October 10, 2009

Author: DagEndresen

Source: slideshare.net

Description

European genebanks, EURISCO and NGB. Overview of needs and priorities. CGIAR ICT-KM training workshop on information interoperability, 14th June 2005, IPGRI Rome Italy. Dag Endresen (Nordic Gene Bank).

European Gene Banks, EURISCO and NGB Overview of Needs and Priorities Training Workshop on interoperability June 14, 2005 – IPGRI, Rome Dag Terje Filip Endresen – The Nordic Gene Bank

TOPICS for this presentation European Gene Banks (ECP/GR) European Central crop databases EURISCO Nordic Gene banks Conclusions

European Gene Banks (ECP/GR)

European Central crop databases

EURISCO

Nordic Gene banks

Conclusions

EURISCO and GBIF I will try to show that: The objective and mode of operation of EURISCO, (SINGER) and GBIF overlaps. The EURISCO network of National Inventories (NIs) is similar to the SINGER network of CGIAR Centers and to the GBIF network of national Nodes. The EURISCO (and SINGER) network infrastructure can be built based on GBIF and TDWG standards and protocols.

I will try to show that:

The objective and mode of operation of EURISCO, (SINGER) and GBIF overlaps.

The EURISCO network of National Inventories (NIs) is similar to the SINGER network of CGIAR Centers and to the GBIF network of national Nodes.

The EURISCO (and SINGER) network infrastructure can be built based on GBIF and TDWG standards and protocols.

E uropean C ooperative P rogramme for Crop G enetic R esources Networks More than 50 „ Central Crop Databases“ in Europe > 20 years (Wheat, Potato, Barley etc.) EURISCO – central inventory of plant genetic resources in Europe. EU project EPGRIS (1999-2003) 42 national programs (Europe) at present 920,147 accessions approximately 50% of the estimated accessions in European genebanks. ECP/GR

More than 50 „ Central Crop Databases“ in Europe > 20 years (Wheat, Potato, Barley etc.)

EURISCO – central inventory of plant genetic resources in Europe.

EU project EPGRIS (1999-2003)

42 national programs (Europe)

at present 920,147 accessions

approximately 50% of the estimated accessions in European genebanks.

European PGR Network model The accession (passport) data is curated and shared from the local genebank node Data to EURISCO is endorsed by the NI The EURISCO data portal node provides access to the data for the ECCDBs There is no data network without a parallel human network. Data Portal ECCDB Data Node Gene bank Participant Node NI Portal Node EURISCO Data flow

The accession (passport) data is curated and shared from the local genebank node

Data to EURISCO is endorsed by the NI

The EURISCO data portal node provides access to the data for the ECCDBs

There is no data network without a parallel human network.

PGR Data Flow in Europe Frank Begemann, ECP/GR *At the discretion of the National Focal Point ** Data flow for char. & evaluation data to be discussed

Where we are today (Europe)... Dataflow from gene bank to EURISCO and ECCDB as flat files, tab-separated MCPD. MCPD eMCPD EURISCO Central Data warehouse MCPD +crop specific descriptors Central Crop Database ECCDB Gene Bank Databases Central Data ware house model N ational I nventory

Dataflow from gene bank to EURISCO and ECCDB as flat files, tab-separated MCPD.

Future decentralized model... Dataflow from gene bank to EURISCO and ECCDB through decentralized web services . XML Web Service layer (agreed standards and data provider software) Central Crop Portal EURISCO Portal GBIF Portal etc... XML XML XML BioCASE Portal XML XML etc... Gene Bank Database [1] N ational I nventory Portal XML Gene Bank Database [2]

Dataflow from gene bank to EURISCO and ECCDB through decentralized web services .

Real world, mixed model... Dataflow from gene bank to EURISCO and ECCDB through decentralized web services . N ational I nventory XML Central Crop Database ECCDB Web Service layer (agreed standards and data provider software) XML XML XML ECCDB Portal EURISCO Portal GBIF Portal etc... XML XML XML BioCASE Portal XML EURISCO database Gene Bank Database NI Portal XML Gene Bank Database Gene Bank Database Other Database Gene Bank Database Other Database Other Datasource Gene Bank Database Other Datasource

Dataflow from gene bank to EURISCO and ECCDB through decentralized web services .

Nordic and Baltic PGR collaboration NGB is coordinating the international regional network of Nordic and Baltic genebanks.

NGB is coordinating the international regional network of Nordic and Baltic genebanks.

Nordic Baltic Regional PGR network SESTO is the common regional documentation platform for data management. Improved data exchange models and network infrastructure is needed to develop this model further.

SESTO is the common regional documentation platform for data management.

Improved data exchange models and network infrastructure is needed to develop this model further.

EURISCO as a network of web services EURISCO (& NGB) needs: Data provider software can we use BioCASE or DiGIR (BioMOBY??) Data portal software can we adopt the GBIF or BioCASE data portal software? can we use the GBIF UDDI registry? Network of people we have the network of NIs from EPGRIS we have the ECP/GR and the ECCDBs Data standards can we use ABCD, (Darwin Core 2)? ABCD 2.0 is compatible with MCPD

EURISCO (& NGB) needs:

Data provider software

can we use BioCASE or DiGIR (BioMOBY??)

Data portal software

can we adopt the GBIF or BioCASE data portal software?

can we use the GBIF UDDI registry?

Network of people

we have the network of NIs from EPGRIS

we have the ECP/GR and the ECCDBs

Data standards

can we use ABCD, (Darwin Core 2)?

ABCD 2.0 is compatible with MCPD

Choosing the data provider software The new unified protocol specification TAPIR (implementation for BioCASE and DiGIR?) Implement BioCASE , ABCD is compatible with MCPD and has a separate PGR sub-unit. DiGIR use Darwin Core, where mapping to MCPD is incomplete (?)

The new unified protocol specification TAPIR (implementation for BioCASE and DiGIR?)

Implement BioCASE , ABCD is compatible with MCPD and has a separate PGR sub-unit.

DiGIR use Darwin Core, where mapping to MCPD is incomplete (?)

Choosing the data portal software Develop a specific EURISCO UDDI registry or explore alternatives to use the GBIF UDDI registry Adopt the GBIF portal software for EURISCO (based on Java and MySQL, free open source) Adopt the BioCASE portal software (based on Python, free open source)

Develop a specific EURISCO UDDI registry or explore alternatives to use the GBIF UDDI registry

Adopt the GBIF portal software for EURISCO (based on Java and MySQL, free open source)

Adopt the BioCASE portal software (based on Python, free open source)

European Genebanks as GBIF providers IPK Gatersleben, Germany 109 711 records (BioCASE) August 2004 National Centre for Plant Genetic Resources, IHAR, Poland 40 459 records (DiGIR) March 2004 The Nordic Gene Bank, NGB 26 868 records (BioCASE, DiGIR) March 2004 EURISCO (2005 ...??)

IPK Gatersleben, Germany

109 711 records (BioCASE) August 2004

National Centre for Plant Genetic Resources, IHAR, Poland

40 459 records (DiGIR) March 2004

The Nordic Gene Bank, NGB

26 868 records (BioCASE, DiGIR) March 2004

EURISCO (2005 ...??)

ENBI E uropean N etwork for B iodiversity I nformation ENBI is an European contribution to the Global Biodiversity Information Facility (GBIF). ENBI is a thematic network supported by the European Commission under the fifth Framework Programme and contributing to the "Energy, environment and sustainable development" programme. Contract no EVK2-CT-2002-20020. EPGRIS and EURISCO are represented in ENBI IPGRI is a member of ENBI (wp6) BioCASE is represented in the membership of ENBI [http://www.enbi.info]

ENBI is an European contribution to the Global Biodiversity Information Facility (GBIF).

ENBI is a thematic network supported by the European Commission under the fifth Framework Programme and contributing to the "Energy, environment and sustainable development" programme. Contract no EVK2-CT-2002-20020.

EPGRIS and EURISCO are represented in ENBI

IPGRI is a member of ENBI (wp6)

BioCASE is represented in the membership of ENBI

[http://www.enbi.info]

EPGRIS-2 EPGRIS-2 project under development, expected to start in 2006. WP1 Coordination WP2 Data standards WP3 Network infrastructure WP4 Capacity development WP5 Pilot Crop portals WP6 GIS visualization WP7 Taxonomy

EPGRIS-2 project under development, expected to start in 2006.

WP1 Coordination

WP2 Data standards

WP3 Network infrastructure

WP4 Capacity development

WP5 Pilot Crop portals

WP6 GIS visualization

WP7 Taxonomy

Major Global Crop collections EURISCO is an inventory of 926,231 accessions from European Gene Banks The CGIAR Gene Banks hold over 530,000 samples of wild and domesticated crops in public trust. USDA-Grin holds 464,389 accessions. Accessions in EURISCO (926,231) Accessions in SINGER (524,466)

EURISCO is an inventory of 926,231 accessions from European Gene Banks

The CGIAR Gene Banks hold over 530,000 samples of wild and domesticated crops in public trust.

USDA-Grin holds 464,389 accessions.

Conclusions To build the genetic resources infrastructure on GBIF technology and global biodiversity standards. All European Gene banks to join GBIF through EURISCO . Will the CGIAR Future Harvest Centers join GBIF through SINGER ? Will USDA-GRIN join GBIF? Will BioMOBY join GBIF??

To build the genetic resources infrastructure on GBIF technology and global biodiversity standards.

All European Gene banks to join GBIF through EURISCO .

Will the CGIAR Future Harvest Centers join GBIF through SINGER ?

Will USDA-GRIN join GBIF?

Will BioMOBY join GBIF??

Thank you for listening!

Thank you for listening!

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