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Molecular Breeding Platform

Molecular Breeding Platform. Relationship with ICIS. Graham McLaren ICIS Developers’ Workshop March 2nd 2010, Perth, Australia. Vision. A one-stop-shop where breeders can access: high-throughput services, tools for breeding logistics, an intuitive analysis pipeline,

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Molecular Breeding Platform

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  1. Molecular Breeding Platform Relationship with ICIS Graham McLaren ICIS Developers’ Workshop March 2nd 2010, Perth, Australia

  2. Vision A one-stop-shop where breeders can access: • high-throughput services, • tools for breeding logistics, • an intuitive analysis pipeline, • decision support tools and • support to use these facilities in order to deploy molecular breeding technology for sustainability and development.

  3. The MBP Partnership TOOLS AND SERVICES PARTNERS USERS Genetic Resource Support Service CGIAR Lead Crop Centers: · Set breeding standards and procedures ·Help train external users ·Curate and Host Public Crop Information ·Promote use and access to the Platform Breeding Logistics & Data Management CGIAR Pre-Breeding & Breeding Projects Marker & Trait Services CGIAR Breeding Networks Analysis Pipeline Molecular Breeding Communities of Practice NARES Breeding Projects Use Case Projects: ·Specify requirements · Test tools and services · Ensure Relevance ·Promote use of and access to the Platform Decision Support Tools Training & Capacity Development Small & Medium Sized Enterprises Accumulated Crop Information for Predictive Breeding

  4. Beans, CIAT,M Blair (Tropical Legumes I project, BMGF) Chickpeas, ICRISAT, Pooran Gaur (Tropical Legumes I & II projects, BMGF) Cowpeas, UC-R, Jeff Ehlers (Tropical Legumes I project, BMGF) Maize (DT Maize), CIMMYT , Gary Atlin (Drought Tolerant Maize for Africa, BMGF) Maize, CIMMYT , Vivek Bindiganavile (Drought Tolerant Maize for Asia, GCP) Rice, IRRI, David MACKILL (STRASA Project, BMGF) Rice, CAAS-IRRI, Zhikang Li (Green Super Rice, BMGF) Sorghum, CIRAD, Jean-Francois Rami (GCP project) Wheat, PBI, University of Sidney Richard Trethowan (ACIAR project) Wheat, USDA/CIMMYT, Hans Braun (Rust, BMGF) Rice, AfricaRice,Marie Noële N'djiondjop (GCP Challenge Initiative) Wheat, IARI, ICAR, New Delhi, Vinod Prabhu (GCP Challenge Initiative) Wheat, Institute of Crop Science, (CAAS), Ruilian Jing, (GCP Challenge Initiative) Cassava, NRCRI Umudike, Nigeria, Emmanuel Okogbenin, (GCP Challenge Initiative) Use Cases

  5. Cassava CIAT/IITA Bean CIAT Maize CIMMYT Wheat CIMMYT Sweet Potato CIP Potato CIP Barley ICARDA Lentil ICARDA Faba Bean ICARDA Chickpea ICRISAT Groundnut ICRISAT Pigeon pea ICRISAT Pearl millet ICRISAT Sorghum ICRISAT Cowpea IITA Soybean IITA Yam IITA Rice IRRI Crop Lead Centers

  6. User Committee - Composition The User Committee will initially consist of a representative of crop for which there are Use Cases: • Gary Atlin (Chair)           Maize • Matthew Blair                 Beans • Pooran Gaur                  Chickpea • Jeff Ehlers                      Cowpea • David Mackill                  Rice • J-F Rami                        Sorghum • Richard Trethowan         Wheat • Emmanuel Okogbenin   Casava • Xavier Delannay            MBP Rep

  7. The MBP and ICIS The MBP would like to: • be a partner in the ICIS community, • deploy ICIS for a wide range of breeding objectives (start with use cases), • catalise a wide support network (CLCs) • support maintenance od existing tools • support development of new tools

  8. ICIS Investments 1: Support for existing tools MBP Objective 2.1: • Sample tracking, pedigree management and germplasm lists. AAFC+CRIL • Phenotyping data management. CRIL • Genotyping data management. ICRISAT

  9. ICIS Investments 2: Support for new tools MBP Objective 2.3. • Informatics network infrastructure. CRIL+ICRISAT • Development of decision support tools. CRIL+ICRISAT • Development of a Configurable Workflow System. CRIL+ICRISAT+AAFC

  10. MBP Operating Procedure Deploy bullet-proof releases • Requires enhanced testing • Professional release management • Rapid response to bug reports • Prioritization of feature requests Support to users • MBP Informatics coordinator • Network of Crop Lead Centers

  11. Deployment of ICIS by the MBP • I would like to go cloud-based! • Server-based for those with connectivity • Install ICIS and the Analytical Pipeline on a central server • User access via VPN/Citrix • Support for multi-crop web access • Local Installation for non-connected • Identical installation on local LAN or user PCs • Periodic sync via CDs to the server • Requires bullet-proof installers • Automated uploaders

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