Global Information Systems for Plant Genetic Resources (2009)
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Global information systems for plant genetic resources. For the Caucasus germplasm network training course at the Nordic Genetic Resource Center (NordGen), Alnarp Sweden 29th January 2009.
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Global Information Systems for Plant Genetic Resources (2009)
- 1. Cover slide Documentation of Genetic Resources Global Information Systems CAC Training Course January 29, 2009 NordGen, Alnarp Dag Terje Filip Endresen Nordic Genetic Resource Center/ Bioversity International
- 6. ECPGR Central Crop Databases
- 7. ECPGR Central Crop Databases
- 10. Data flow from genebanks to EURISCO and ECCDBs
- 19. GBIF Data Portal GBIF [ http:// data .gbif.org/ ]
- 20. GBIF PGR Network 2 [ http://data.gbif.org/datasets/network/2 ]
- 21. GBIF NordGen [ http:// data .gbif.org/ ]
- 22. GBIF SINGER [ http:// data .gbif.org/ ]
- 23. GBIF USDA
- 25. FAO WIEWS [ http://apps3.fao.org/wiews / ]
- 26. FAO WIEWS, GPA [ http://www.pgrfa.org/gpa/ ] Leipzig Declaration 1996, 150 countries [ http://www.globalplanofaction.org/ ]
- 36. Test resource with client form: http://localhost/tapirlink/tapir_client.php The XML Client form is very illustrative for understanding exactly how the wrapper software works!
- 41. Example of a service response
- 44. EURISCO (Europe) NordGen (Northern Europe) IPK Gatersleben (Germany) IHAR (Poland) (Other European gene banks...) SINGER (CGIAR) (CGIAR International Future Harvest gene banks...) USDA GRIN (USA) (USDA ARS National Germplasm Repositories...) WUR CGN (Netherlands) GBIF (Global Biodiversity Information Facility) USER ALIS (Accession Level Information System) Web Services MCPD Svalbard Global Seed Vault (Safe Backup)
- 47. Crop Wild Relatives ARM LKA BOL MDG UZB National Datasets are shared with the central CWR data index. The national datasets as well as access to other International datasets are provided from the CWR data portal. EURISCO SINGER [ http://www.cropwildrelatives.org ]
- 52. Thank you for listening!
Notas del editor
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 Some keywords; the main topics of the talk
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 There are more than 6 million ex situ accessions of agricultural and horticultural crops conserved worldwide by genebanks (seed banks) according to FAO.
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 http://wwwdev.ngb.se/epgris3/index.php/Main_Page
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 FAO WIEWS
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 FAO WIEWS
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 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]
- Presentation of TDWG and GBIF 10/10/09 * 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 ]
- Presentation of TDWG and GBIF 10/10/09 * Illustration: Corn earworm pupae that will be used to produce control parasites for release in the field. Photo by Scott Bauer. [http://www.ars.usda.gov/is/graphics/photos/k5554-2.htm] * UBIF is an attempt to define a common foundation for several TDWG/GBIF standards like SDD (see SDD WIKI), ABCD (see ABCD content schema homepage) or TaxonConceptNames (see Taxonomic Concept Transfer Schema WIKI). * Unified Biosciences Information Frameword (UBIF) XML schema for data exchange and integration across knowledge domains. The schema has been design for biological data, but is applicable to other knowledge areas as well. It is based on work of the TDWG SDD and ABCD subgroups and currently jointly authored by the SDD, ABCD, TaxonName subgroups and by GBIF (Global Biodiversity Information Facility). The framework may be used without changes for new schemata, no registration is necessary. * Complex Types are part of the UBIF infrastructure (TDWG common complex type for several schemas, ABCD, SDD, TCS, Lnnean Core, etc.)
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 OMG-LSR, Object Management Group – Life Science Research [http://www.omg.org/lsr/]
- Presentation of TDWG and GBIF 10/10/09 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]
- Presentation of TDWG and GBIF 10/10/09
- IMAGE: http://blog.tapirtype.com/cartoons/ [Creative Commons License: http://creativecommons.org/licenses/by-nc-sa/3.0/us/]
- Presentation of TDWG and GBIF 10/10/09 [http://www.biocase.org/index.shtml]
- Presentation of TDWG and GBIF 10/10/09 http://www.biocase.org/whats_biocase/unit_net.shtml
- IMAGE source: http://commons.wikimedia.org/wiki/Image:Handshake_(Workshop_Cologne_%2706).jpeg; Copyright: GNU Public Licence
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 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.
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 Arnica montana SPIMED Medicinal plants , Photographer Katarina Wdelsbäck (NGB Picture Archive, image 003907)
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Presentation of TDWG and GBIF 10/10/09 Samy to provide more input...? Release in December 2006? With approximately 2.2 million accessions indexed. Helmut suggest to describe CHM
- Photographer Dag Terje Endresen (NordGen Picture Archive, image 002986) http://www.nordgen.org/sesto/index.php?scp=ngb&thm=pictures&mod=det&id=002986&img_size=768x512
- Presentation of TDWG and GBIF 10/10/09
- Presentation of TDWG and GBIF 10/10/09 Image: Field of wheat at Alnarp. Photographer Dag Terje Endresen (NGB Picture Archive, image 002981) Image: Spider in a spiderweb Image: Dag Terje Filip Endresen in Benin Image: Michael Mackay