Sharing of germplasm data sets, at the TDWG 2006 conference
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Data exchange for germplasm data sets with PyWrapper/BioCASE. TDWG 2006 conference, 16th October 2006, St. Louis. Dag Endresen, Johan Bäckman, Helmut Knupffer, Samy Gaiji.
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Sharing of germplasm data sets, at the TDWG 2006 conference
- 1. Exchange of germplasm datasets with PyWrapper/BioCASE October 16, 2006 TDWG annual Meeting 2006 Missouri Botanical Garden St. Louis, Missouri, U.S.A. Dag Endresen, Nordic Gene Bank Johan Bäckman, Nordic Gene Bank Helmut Knüpffer, IPK Gatersleben Samy Gaiji, IPGRI, Bioversity International
- 7. GCP_Passport Upgrade to ABCD
- 8. PGR sub-unit of ABCD 2.06
- 14. Germplasm BioCASE entry points [http://chm.grinfo.net/index.php?app=data_providers]
- 15. Decentralized model EURISCO (Data Portal Europe) Nordic Gene Bank (Northern Europe) IPK Gatersleben (Germany) IHAR (Poland) (Other European gene banks...) SINGER (Data Portal for CGIAR) (CGIAR International Future Harvest gene banks...) USDA GRIN (Data Portal USA) (USDA ARS National Germplasm Repositories...) WUR CGN (Netherlands) GBIF (Global Data Portal) USER chm.grinfo.net (Global germplasm Data Portal) Internet MCPD MCPD MCPD MCPD MCPD
Editor's Notes
- * IPGRI Descriptors lists [http://www.ipgri.cgiar.org/system/page.asp?frame=programmes/inibap/home.htm] (119 descriptor lists, 2005) * MCPD [http://www.ipgri.cgiar.org/publications/pdf/333.pdf] * UPOV - International Union for the Protection of New Varieties of Plants (UPOV) [ http://www.upov.int/] * UPOV - The International Union for the Protection of New Varieties of Plants or UPOV (French: Union internationale pour la protection des obtentions végétales) is an intergovernmental organization with headquarters in Geneva, Switzerland. [http://en.wikipedia.org/wiki/UPOV] * COMECON - The Council for Mutual Economic Assistance (COMECON / Comecon / CMEA / CEMA), 1949 – 1991, was an economic organisation of communist states and a kind of Eastern European equivalent to the European Economic Community. The military counterpart to the Comecon was the Warsaw Pact. [http://en.wikipedia.org/wiki/Comecon] * Multi-crop Passport Descriptors (MCPD) [http://www.ipgri.cgiar.org/publications/pdf/124.pdf] F AO (Food and Agricultural Organization of the United Nations) - IPGRI (International Plant Genetic Resources Institute). This is a revised version (December 2001) of the 1997 MCPD List. * FAO World Information and Early WarningSystem ( WIEWS) [http://apps3.fao.org/wiews/] * 19 Plant Uses Categories based on categories developed for the Working Group on Taxonomic Databases (TDWG) (Cook, Frances E.M., 1995. Economic Botany: Data Collection Standard. Royal Botanic Gardens Kew). [ http://www.ecpgr.cgiar.org/epgris/Training/MCPD-1998.doc] * The mapping of MCPD to ABCD was started in 2004 by Helmut Knüpffer and Walter Berendsohn, and continued by Javier de la Torre and Dag Terje Filip Endresen in 2005. [ http://ww3.bgbm.org/MCDPH] [ http://www.bgbm.org/TDWG/CODATA/Schema/Mappings/EURISCO-2-ABCD.pdf ]
- GCP_Passport v 1.03 [http://tor.ngb.se/dev/temp/gcp_passport_01_03.xsd] The GCP Passport 1.03 descriptor standard is based on the MCPD and ABCD standards and implemented for the PyWrapper/BioCASE data exchange software. A mapping for automatic “upgrade” between ABCD 2.06 and GCP_Passport_1.03 is also included in the PyWrapper/BioCASE software. The Generation Challenge Programme is a research and capacity building network that uses plant genetic diversity, advanced genomic science, and comparative biology to develop tools and technologies that enable plant breeders in the developing world to produce better crop varieties for resource-poor farmers. [http://www.generationcp.org]
- Photo: Field been from Boreal, accession NGB11518, 2005-03-05, Dag Endresen [http://r142b.ngb.se/ngb/2005-03--the-making-of-seeds-pictures/index.php?offset=19&size=medium&stp=1]
- There are more than 6 million ex situ accessions of agricultural and horticultural crops conserved worldwide by genebanks (seed banks) according to FAO.
- The passport data from most genebank datasets worldwide are indexed by EURISCO (European genebanks), SINGER (International CGIAR organizations) or USDA-GRIN (USDA ARS National Germplasm Repositories). Summary meta data on the datasets are collected and indexed by the FAO WIEWS database (World Information and Early Warning System on Plant Genetic Resources). FAO WIEWS. The World Information and Early Warning System (WIEWS ) on Plant Genetic Resources for Food and Agriculture (PGRFA) [http://apps3.fao.org/wiews/wiews.jsp]. GRIN Canada [http://pgrc3.agr.gc.ca/index_e.html] This a modification of a slide from Samy Gaiji, from presentation on: “ Information Networking - Challenges for the Plant Genetic Resources Communities, 2004.
- Potato plants in greenhouse. Priekuli, Latvia. Photographer Dag Terje Endresen (NGB Picture Archive, image 002421)
- http://chm.grinfo.net/index.php?app=data_providers Temporary ”UDDI” Registry
- Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Solanum tuberosum L. Potato. Light sprout. Photographer NGB (NGB Picture Archive, image 001289).