2011: Introduction to the CGIAR Generation Challenge Programme (GCP)


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A quick introduction to the CGIAR Generation Challenge Programme (GCP) -- its history, network, research organisation, outputs and challenges. GCP is a virtual network of partnerships working on modern crop breeding for food security

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2011: Introduction to the CGIAR Generation Challenge Programme (GCP)

  1. 1. GGIAR Generation Challenge Programme (GCP) Partnerships in modern crop breeding for food security November 2011
  2. 2. GCP in brief    Launched in August 2003 10-year framework (2004–2008; 2009–2013) About US$15M annual budget    Target areas: Harsh drought-prone environments   Africa (SSA), S & SE Asia, LA Mandate crops     Via CGIAR (DFID, EC, SDC, USAID, CG Fund Council) Bill & Melinda Gates Foundation Cereals: maize, rice, sorghum, wheat, Legumes: beans, chickpeas, cowpeas, groundnuts Root and tubers: cassava A CGIAR Challenge Programme hosted at CIMMYT Main objective: To use genetic diversity and advanced plant science to improve crops for greater food security in the developing world GCP : A broker in plant science bridging the gap between upstream and applied science www.generationcp.org
  3. 3. Partnerships
  4. 4. GCP network
  5. 5. The GCP network in 2010: 200+ Institutes Germplasm Breeding Private sector Technology CGIAR Private sector Products/Impact Farmer’s field ARIs Country programmes NGOs Germplasm Environments Needs
  6. 6. Major achievement: GCP community Partnerships  EPMR panel noted that GCP community is one of the Programme’s crucial assets. In their words: “Perhaps the most important value of GCP thus far, is the opportunities it has provided for people of diverse backgrounds to think collectively about solutions to complex problems, and, in the process, to learn from one another.” Linking upstream with applied science  The sorghum case: From Cornell to Moi University with a stop in Brazil  Within a decade: Plantlet under hydroponics – Gene cloned – Favourable alleles identified – Improved germplasm for Brazil – Improved germplasm for Kenya Evolution of roles and responsibilities  Leader become mentors  Trainees become doers and leaders
  7. 7. Research Themes and Logframe
  8. 8. Research Organisation (Management) 3. Crop information systems Databases, Information Network 1. Integrated crop breeding Phenotyping Germplasm Phenotyping Genes Molecular breeding 2. Comparative and applied genomics Human resources & infrastructure 4. Capacity building Breeding programmes Improved genotypes Delivery Plans Products 5. Product delivery Improved germplasm in farmers’ fields
  9. 9. The two phases of the Programme Phase I (2004–2008): A combination of commissioned and competitive projects ‘Opportunistic’ and high project turn over Establishing the GCP community Identifying the winners and opportunities for Phase II Phase II (2009–2013): Mid-term activities Focused and targeted research Major effort in service development Clear impact indicators by 2013 to evaluate success A needs and bottom-up approach: Research and services 2014: Transition year
  10. 10. Selected major outputs Access to genetic resources  Genotyping for 21 reference sets of CGIAR mandate crops  Substitution lines (groundnuts, rice)  Mutant collections (rice, potatoes, beans)  Synthetics (groundnuts and wheat)  MAGIC (cowpeas, rice, sorghum) NAM (rice) BCNAM, (sorghum) Development of genomic resources  BAC libraries and EST sequences (legumes, cassava)  New markers: DArTs, SSRs and SNPs (all crops) Identification of markers for biotic stresses  Validated markers for resistance to pests and diseases for beans, cassava, chickpeas, cowpeas, groundnuts, maize, potatoes and rice
  11. 11. Selected major outputs Identification of markers for abiotic stresses  Tolerance to Al toxicity in sorghum and salinity and phosphorus deficiency in rice  Drought tolerance in chickpeas, cowpeas, maize, rice, wheat New tools  GIS, bioinformatic and data management tools  Marker tool kit Enhanced capacities in country programmes  Human capacities / Local infrastructure / Analytical power Socioeconomic studies  Ex ante analyses MB impact in developing countries  Impact briefs
  12. 12. The 7 Research Initiatives: 50% of GCP resources to RIs in Phase II  Basis: RIs are crop-, crop cluster-, and area-based  Key trait: Main focus of all the RIs is drought tolerance  Target crops/area and target countries/countries of planned research 1. Cassava: Nigeria, Ghana, Tanzania, Uganda/Brazil, Colombia 2. Legumes   Cowpeas: Burkina Faso, Mozambique, Senegal/USA  4. Chickpeas: Ethiopia, India, Kenya  3. Beans: Ethiopia, Kenya, Malawi, Mexico, Nicaragua, Zimbabwe Groundnuts: Malawi, Senegal, Tanzania Maize: China, India, Indonesia, Kenya, Thailand, The Philippines, Vietnam Rice: Africa – Burkina Faso, Mali, Nigeria; Asia – Bangladesh, Cambodia, Thailand, Vietnam, Myanmar 5. Sorghum: Mali (additional countries via CoP to be established)/Australia 6. Wheat: Africa – Ethiopia, Morocco; Asia – China, India/Australia 7. Comparative genomics to improve cereal yields in high-aluminium and lowphosphorus soils (maize, rice, sorghum): Indonesia, Kenya, Niger/Brazil
  13. 13. An Integrated Breeding Platform to support reeding in the South www.integratedbreeding.net Overall objective To provide access to modern breeding technologies, breeding material and related information in a centralised and functional manner to improve plant breeding efficiency in developing countries.  Short-term objective To establish a minimum set of tools, data management infrastructure and services to demonstrate that molecular breeding can be efficiently applied to eight crops spread across 14 user cases  Multilateral funding for an overall budget of US$ 20M over 5 years Mainly Gates, DFID, EC
  14. 14. The IB Platform will offer: Access to Breeding Services: • • • well characterised and useful genetic resources quality, economic high throughput genotyping sophisticated phenotype and metabolite analyses Access to Informatics Tools: • • • for breeding logistics and data management analysis and decision support for molecular breeding accumulated public crop information of certified quality Capacity Development - Training and support for: • • • • • • planning and comparing breeding strategies data management and curation and quality control analysis and decision support use of markers and molecular breeding techniques phenotyping sites and protocols use and protection of intellectual property Community development • • support for communities of practice by crop or discipline facilitation of germplasm exchange The IBP will not do breeding per se
  15. 15. Services Integrated Breeding Platform Breeding Services Support Services Portal Information System Configurable Breeding Workflow System Cyber Infrastructure Custom Formatted Data Files Web Service Data Source Local Database Data Sources SoapLab High Performance Computer MOBY, GDPC, BioCase/TAPIR
  16. 16. The IBP Configurable Breeding Workflow System Breeding Activities Project Planning Germplasm Management Germplasm Evaluation Molecular Analysis Data Analysis Open Project Specify objectives Identify team Data AA resources Define strategy Parental selection Crossing Population development Experimental Design Fieldbook production Data collection Data loading Marker selection Fingerprinting Genotyping Data loading Quality Assurance Trait analysis Genetic Analysis QTL Analysis Index Analysis Workbench administration & configuration Administration Project conf. Breeding Management System Breeding mana. Genealogy mana. Query tools Field Trial Management System Trial Fieldbook Environment characterization system Breeding Applications Genotypic Data Management System Sample mana. Sample management Analytical Tools Data management Statistical analysis Molecular Genetic Breeding Decisions Selected lines Recombines Recombination plans Decision Support Tools Sel. Indices Breeding App. MARS App. Cross Prediction Simulation Analytical Pipeline
  17. 17. Conclusion and Perspectives
  18. 18. Major Challenges Today  M&E: Implement realistic workplans  Clear milestones, products and timelines  Reliable Delivery Plans with clear impact indicators  Ensure delivery and sustainable use of GCP products  Product delivery strategy  Reinforce ownership by the GCP community  Partnership  Balance community momentum and a focused research agenda  Data release and quality control  Difficult to finish the work (time, resources)  Still not a lot of data in our Central Registry today  Quality and documentation are very variable Change in mindset: from institutional to corporate
  19. 19. Conclusions  A vibrant community bridging the gap between basic and applied agricultural science providing new tools for plant breeding     Agile programme structure Dynamic network of partners Significant amount of products already been generated Already an impact in the breeding community The success of the GCP will be judged on the quality of the science and relevance of its products for impact on crop improvement Visit us: www.generationcp.org
  20. 20. GCP people: The Programme’s greatest asset! Participants of the GCP General Research Meeting, September 2011